Disclaimer: This page includes all publications by NCCR member labs.
Publications
2024 Publications
2024 Publications
- C. von Känel, S. Oeljeklaus, C. Wenger, P. Stettler, A. Harsman, B. Warscheid and A. Schneider (2024) Intermembrane space-localized TbTim15 is an essential subunit of the single mitochondrial inner membrane protein translocase of trypanosomes Mol Microbiol, Epub ahead of print
Pubmed - A. Bothe and N. Ban (2024) A highly optimized human in vitro translation system Cell Rep Methods, Epub ahead of print
Pubmed - B. Böttcher, S.D. Kienast, J. Leufken, C. Eggers, P. Sharma, C.M. Leufken, B. Morgner, H.C.A. Drexler, D. Schulz, S. Allert, I.D. Jacobsen, S. Vylkova, S.A. Leidel and S. Brunke (2024) A highly conserved tRNA modification contributes to C. albicans filamentation and virulence Microbiol Spectr, Epub ahead of print
Pubmed - N.Gf. Leborgne, C. Devisme, N. Kozarac, I. Berenguer Veiga, N. Ebert, A. Godel, L. Grau-Roma, M. Scherer, P. Plattet, V. Thiel, G. Zimmer, A. Taddeo, C. Benarafa (2024) Neutrophil proteases are protective against SARS-CoV-2 by degrading the spike protein and dampening virus-mediated inflammation JCI Insight, 9(7), e174133
Pubmed - N.C. Kathe, M. Novakovic and F.H.-T. Allain (2024) Buffer Choice and pH Strongly Influence Phase Separation of SARS-CoV-2 Nucleocapsid with RNA Mol Biol Cell, Epub ahead of print
Pubmed - F. Malard, A.C. Wolter, J. Marquevielle, E. Morvan, A. Ecoutin, S.H. Rüdisser, F.H.-T. Allain and S. Campagne (2024) The diversity of splicing modifiers acting on A-1 bulged 5'-splice sites reveals rules for rational drug design Nucleic Acids Res, Epub ahead of print
Pubmed - P. Wu, J. Zehnder, N. Schröder, P.E.W. Blümmel, L. Salmon, F.F. Damberger, G. Lipps, F.H.-T. Allain and T. Wiegand (2024) Initial Primer Synthesis of a DNA Primase Monitored by Real-Time NMR Spectroscopy J Am Chem Soc, Epub ahead of print
Pubmed - B.-A. Stefanov, E. Ajuh, S. Allen and M. Nowacki (2024) Eukaryotic release factor 1 from Euplotes promotes frameshifting at premature stop codons in human cells iScience, 27(4):109413
Pubmed - L. Schmidheini, N. Mathis, K.F. Marquart, T. Rothgangl, L. Kissling, D. Böck, C. Chanez, J.P. Wang, M. Jinek and G. Schwank (2024) Continuous directed evolution of a compact CjCas9 variant with broad PAM compatibility Nat Chem Biol, 20(3), 333-343
Pubmed - L. Emmanouilidis, E. Bartalucci, Y. Kan, M. Ijavi, M. Escura Pérez, P. Afanasyev, D. Boehringer, J. Zehnder, S.H. Parekh, M. Bonn, T.C.T. Michaels, T. Wiegand and F.H.-T. Allain (2024) A solid beta-sheet structure is formed at the surface of FUS droplets during aging Nat Chem Biol, Epub ahead of print
Pubmed - N.G. Leborgne, C. Devisme, N. Kozarac, I. Berenguer Veiga, N. Ebert, A. Godel, L. Grau-Roma, M. Scherer, P. Plattet, V. Thiel, G. Zimmer, A. Taddeo and C. Benarafa (2024) Neutrophil proteases are protective against SARS-CoV-2 by degrading the spike protein and dampening virus-mediated inflammation JCI Insight, Epub ahead of print
Pubmed - Y. Liu, J. Niu, F. Ye, T. Solberg, B. Lu, C. Wang, M. Nowacki and S. Gao (2024) Dynamic DNA N6-adenine methylation (6mA) governs the encystment process, showcased in the unicellular eukaryote Pseudocohnilembus persalinus Genome Res, Epub ahead of print
Pubmed - V. Rajendiran, N. Devaraju, M. Haddad, N.S. Ravi, L. Panigrahi, J. Paul, C. Gopalakrishnan, S. Wyman, K. Ariudainambi, G. Mahalingam, Y. Periyasami, K. Prasad, A. George, D. Sukumaran, S. Gopinathan, A.A. Pai, Y. Nakamura, P. Balasubramanian, R. Ramalingam, S. Thangavel, S.R. Velayudhan, J.E. Corn, J.P. Mackay, S. Marepally, A. Srivastava, M. Crossley and K.M. Mohankumar Base editing of key residues in the BCL11A-XL-specific zinc finger domains derepresses fetal globin expression Mol Ther, 32(3), 663-677
Pubmed - Y. Weber, D. Böck, A. Ivascu, N. Mathis, T. Rothgangl, E.I. Ioannidi, A.C. Blaudt, L. Tidecks, M. Vadovics, H. Muramatsu, A. Reichmuth, K.F. Marquart, L. Kissling, N. Pardi, M. Jinek and G. Schwank (2024) Enhancing prime editor activity by directed protein evolution in yeast Nat Commun, 15(1), 2092
Pubmed - L. Esteban-Hofer, L. Emmanouilidis, M. Yulikov, F.H.-T. Allain and G. Jeschke (2024) Ensemble structure of the N-terminal domain (1-267) of FUS in a biomolecular condensate Biophys J, 123(5), 538-554
Pubmed - T. de Vries, M. Novakovic, Y. Ni, I. Smok, C. Inghelram, M. Bikaki, C.P. Sarnowski, Y. Han, L. Emmanouilidis, G. Padroni, A. Leitner and F. H-T Allain (2024) Specific protein-RNA interactions are mostly preserved in biomolecular condensates Sci Adv, 10(10), eadm7435
Pubmed - F. Scoyni, V. Sitnikova, L. Giudice, P. Korhonen, D.M. Trevisan, A. Hernandez de Sande, M. Gomez-Budia, R. Giniatullina, I.F. Ugidos, H. Dhungana, C. Pistono, N. Korvenlaita, N.-N. Välimäki, S.M. Kangas, A.E. Hiltunen, E. Gribchenko, M.U. Kaikkonen-Määttä, J. Koistinaho, S. Ylä-Herttuala, R. Hinttala, M.T. Venø, J. Su, M. Stoffel, A. Schaefer, N. Rajewsky, J. Kjems, M.P. LaPierre, M. Piwecka, J. Jolkkonen, R. Giniatullin, T. B. Hansen and T. Malm (2024) ciRS-7 and miR-7 regulate ischemia-induced neuronal death via glutamatergic signaling Cell Rep, 43(3), 113862
Pubmed - F. Valdivia-Francia and A. Sendoel (2024) No country for old methods: New tools for studying microproteins iScience, 27(2), 108972
Pubmed - M. Coan, S. Haefliger, S. Ounzain and R. Johnson (2024) Targeting and engineering long non-coding RNAs for cancer therapy Nat Rev Genet, Epub ahead of print
Pubmed - M. Pacesa, O. Pelea and M. Jinek (2024) Past, present, and future of CRISPR genome editing technologies Cell, 187(5),1076-1100
Pubmed - E. Fontana, M. Bongianni, A. Benussi, E. Bronzato, C. Scialo, L. Sacchetto, A. Cagnin, S. Castriciano, E. Buratti, F. Gardoni, M. Italia, A. Schreiber, C. Ferracin, M. Fiorini, K.L. Newell, L. Cracco, H.J. Garringer, M.P. Cecchini, M. Polymenidou, A. Padovani, S. Monaco, G. Legname, B. Ghetti, B. Borroni, G. Zanusso (2024) Detection of TDP-43 seeding activity in the olfactory mucosa from patients with frontotemporal dementia Alzheimers Dement, 20(2):1156-1165
Pubmed - S. Nahar, L.J. Morales Moya, J. Brunner, G.J. Hendriks, B. Towbin, Y.P. Hauser, G. Brancati, D. Gaidatzis, H. Großhans (2024) Dynamics of miRNA accumulation during C. elegans larval development Nucleic Acids Res, Epub ahead of print
Pubmed - A. Saha, M. Ahsan, P.R. Arantes, M. Schmitz, C. Chanez, M. Jinek, G. Palermo (2024) An alpha-helical lid guides the target DNA toward catalysis in CRISPR-Cas12a Nat Commun, 15(1), 1473
Pubmed - T. Hochstoeger, P. Papasaikas, E. Piskadlo, J.A. Chao (2024) Distinct roles of LARP1 and 4EBP1/2 in regulating translation and stability of 5'TOP mRNAs Sci Adv, Epub ahead of print
Pubmed - B. Dhaka, M. Zimmerli, D. Hanhart, M.B. Moser, H. Guillen-Ramirez, S. Mishra, R. Esposito, T. Polidori, M. Widmer, R. García-Pérez, M. Kruithof-de Julio, D. Pervouchine, M. Melé, P. Chouvardas, R. Johnson (2024) Functional identification of cis-regulatory long noncoding RNAs at controlled false discovery rates Nucleic Acids Res, Epub ahead of print
Pubmed - M. Hruska-Plochan, V.I. Wiersma, K.M. Betz, I. Mallona, S. Ronchi, Z. Maniecka, E.M. Hock, E. Tantardini, F. Laferriere, S. Sahadevan, V. Hoop, I. Delvendahl, M. Pérez-Berlanga, B. Gatta, M. Panatta, A. van der Bourg, D. Bohaciakova, P. Sharma, L. De Vos, L. Frontzek, A. Aguzzi, T. Lashley, M.D. Robinson, T. Karayannis, M. Mueller, A. Hierlemann, M. Polymenidou (2024) A model of human neural networks reveals NPTX2 pathology in ALS and FTLD Nature, Epub ahead of print
Pubmed - L.H. Ngo, A.G. Bert, B.K. Dredge, T. Williams, V. Murphy, W. Li, W.B. Hamilton, K.T. Carey, J. Toubia, K.A. Pillman, D. Liu, J. Desogus, J.A. Chao, A.J. Deans, G.J. Goodall, V.O. Wickramasinghe (2024) Nuclear export of circular RNA Nature, Epub ahead of print
Pubmed - R. Rauscher, C. Eggers, L. Dimitrova-Paternoga, V. Shankar, A. Rosina, M. Cristodero, H. Paternoga, D.N. Wilson, S.A. Leidel, N. Polacek (2024) Evolving precision: rRNA expansion segment 7S modulates translation velocity and accuracy in eukaryal ribosomes Nucleic Acids Res, Epub ahead of print
Pubmed - D. Seyres, O. Gorka, R. Schmidt, R. Marone, M. Zavolan, L.T. Jeker (2024) T helper cells exhibit a dynamic and reversible 3'UTR landscape RNA, Epub ahead of print
Pubmed - K. Schmied, R. Ehmann, C. Kristen-Burmann, N. Ebert, G.T. Barut, L. Almeida, J.N. Kelly, L. Thomann, H. Stalder, R. Lang, G. Tekes and V. Thiel (2024) An RNA replicon system to investigate promising inhibitors of feline coronavirus J Virol, Epub ahead of print
Pubmed - L. Súkeníková, A. Mallone, B. Schreiner, P. Ripellino, J. Nilsson, M. Stoffel, S.E. Ulbrich, F. Sallusto and D. Latorre (2024) Autoreactive T cells target peripheral nerves in Guillain-Barré syndrome Nature, Epub ahead of print
Pubmed - G. Finocchio, B. Koopal, A. Potocnik, C. Heijstek, A.H. Westphal, M. Jinek and D.C. Swarts (2024) Target DNA-dependent activation mechanism of the prokaryotic immune system SPARTA Nucleic Acids Res, Epub ahead of print
Pubmed - S. Steiner, A. Kratzel, G.T. Barut, R.M. Lang, E. Aguiar Moreira, L. Thomann, J.N. Kelly and V. Thiel (2024) SARS-CoV-2 biology and host interactions Nat Rev Microbiol, Epub ahead of print
Pubmed - E.D. Karousis, K. Schubert and N. Ban (2024) Coronavirus takeover of host cell translation and intracellular antiviral response: a molecular perspective EMBO J, Epub ahead of print
Pubmed - P. Klukowski, F.F. Damberger, F.H.-T. Allain, H. Iwai, H. Kadavath, T.A. Ramelot, G.T. Montelione, R. Riek and P. Güntert (2024) The 100-protein NMR spectra dataset: A resource for biomolecular NMR data analysis Sci Data, 11(1), 30
Pubmed - M. Borenäs, G. Umapathy, D.E. Lind, W.-Y. Lai, J. Guan, J. Johansson, E. Jennische, A. Schmidt, Y. Kurhe, J.L. Gabre, A. Aniszewska, A. Strömberg, M. Bemark, M.N. Hall, J. Van den Eynden, B. Hallberg and R.H. Palmer (2024) ALK signaling primes the DNA damage response sensitizing ALK-driven neuroblastoma to therapeutic ATR inhibition Proc Natl Acad Sci U S A, 121(1), e2315242121
Pubmed
2023 Publications
2023 Publications
- G. Snieckute, L. Ryder, A.C. Vind, Z. Wu, F. Schrøder Arendrup, M. Stoneley, S. Chamois, A. Martinez-Val, M. Leleu, R. Dreos, A. Russell, D.M. Gay, A.V. Genzor, B. So-Yun Choi, A.L. Basse, F. Sass, M. Dall, L.C.M. Dollet, M. Blasius, A.E. Willis, A.H. Lund, J.T. Treebak, J.Velgaard Olsen, S. Seier Poulsen, M.E. Pownall, B.A. Holbech Jensen, C. Clemmensen, Z. Gerhart-Hines, D. Gatfield and S. Bekker-Jensen (2023) ROS-induced ribosome impairment underlies ZAKalpha-mediated metabolic decline in obesity and aging Science, 382 (6675), eadf3208
Pubmed - F. Zhang, S. Bechara and M. Nowacki (2023) Structural maintenance of chromosomes (SMC) proteins are required for DNA elimination in Paramecium Life Sci Alliance, 7 (2), e202302281
Pubmed - K. Jungfer, A. Sigg and M. Jinek (2023) Substrate selectivity and catalytic activation of the type III CRISPR ancillary nuclease Can2 Nucleic Acids Res, Epub ahead of print
Pubmed - M. Helm, M.T. Bohnsack, T. Carell, A. Dalpke, K.-D. Entian, A. Ehrenhofer-Murray, R. Ficner, C. Hammann, C. Höbartner, A. Jäschke, A. Jeltsch, S. Kaiser, R. Klassen, S.A. Leidel, A. Marx, M. Mörl, J.C. Meier, G. Meister, A. Rentmeister, M. Rodnina, J.-Y. Roignant, R. Schaffrath, P. Stadler and T. Stafforst (2023) Experience with German Research Consortia in the Field of Chemical Biology of Native Nucleic Acid Modifications ACS Chem Biol, Epub ahead of print
Pubmed - A. Moursy, A. Cléry, S. Gerhardy, K.M. Betz, S. Rao, J. Mazur, S. Campagne, I. Beusch, M.M. Duszczyk, M.D. Robinson, V.G. Panse and F.H.-T. Allain (2023) RNA recognition by Npl3p reveals U2 snRNA-binding compatible with a chaperone role during splicing Nat Commun, 14(1), 7166
Pubmed - K.C. Nikolaou, S. Godbersen, M. Manoharan, S. Wieland, M.H. Heim and M. Stoffel (2023) Inflammation-induced TRIM21 represses hepatic steatosis by promoting the ubiquitination of lipogenic regulators JCI Insight, 8(21), e164694
Pubmed - A.C. Hill, J.P. Becker, D. Slominski, F. Halloy, C. Søndergaard, J. Ravn and J. Hall (2023) Peptide Conjugates of a 2'- O-Methoxyethyl Phosphorothioate Splice-Switching Oligonucleotide Show Increased Entrapment in Endosomes ACS Omega, 8(43), 40463-40481
Pubmed - E. Fontana, M. Bongianni, A. Benussi, E. Bronzato, C. Scialo, L. Sacchetto, A. Cagnin, S. Castriciano, E. Buratti, F. Gardoni, M. Italia, A. Schreiber, C. Ferracin, M. Fiorini, K.L. Newell, L. Cracco, H.J. Garringer, M.P. Cecchini, M. Polymenidou, A. Padovani, S. Monaco, G. Legname, B. Ghetti, B. Borroni and G. Zanusso (2023) Detection of TDP-43 seeding activity in the olfactory mucosa from patients with frontotemporal dementia Alzheimers Dement, Epub ahead of print
Pubmed - B.T. Eichenberger, E. Griesbach, J. Mitchell and J.A. Chao (2023) Following the Birth, Life, and Death of mRNAs in Single Cells Annu Rev Cell Dev Biol, 16(39), 253-275
Pubmed - G. Dorn, C. Gmeiner, T. de Vries, E. Dedic, M. Novakovic, F.F. Damberger, C. Maris, E. Finol, C.P. Sarnowski, J. Kohlbrecher, T.J. Welsh, S. Bolisetty, R. Mezzenga, R. Aebersold, A. Leitner, M. Yulikov, G. Jeschke and F. H.-T. Allain (2023) Integrative solution structure of PTBP1-IRES complex reveals strong compaction and ordering with residual conformational flexibility Nat Commun, 14(1), 6429
Pubmed - P. Simmler, E.I. Ioannidi, T. Mengis, K.F. Marquart, S. Asawa, K. Van-Lehmann, A. Khales, T. Thomas, C. Schwerdel, N. Aceto, G. Rätsch, M. Stoffel and G. Schwank (2023) Mutant SF3B1 promotes malignancy in PDAC Elife, Epub ahead of print
Pubmed - S. Bryce-Smith, D. Burri, M.R. Gazzara, C.J. Herrmann, W. Danecka, C.M. Fitzsimmons, Y. Kei Wan, F. Zhuang, M.M. Fansler, J.M. Fernández, M. Ferret, A. Gonzalez-Uriarte, S. Haynes, C. Herdman, A. Kanitz, M. Katsantoni, F. Marini, E. McDonnel, B.P. Nicolet, C.-L. Poon, G. Rot, L. Schärfen, P.-J. Wu, Y. Yoon, Y. Barash and M. Zavolan (2023) Extensible benchmarking of methods that identify and quantify polyadenylation sites from RNA-seq data RNA, Epub ahead of print
Pubmed - K. Schubert, E.D. Karousis, I. Ban, C.P. Lapointe, M. Leibundgut, E. Bäumlin, E. Kummerant, A. Scaiola, T. Schönhut, J. Ziegelmüller, J.D. Puglisi, O. Mühlemann and N. Ban (2023) Universal features of Nsp1-mediated translational shutdown by coronaviruses Mol Cell, 83(19), 3546-3557.e8
Pubmed - D. Mossmann, C. Müller, S. Park, B. Ryback, M. Colombi, N. Ritter, D. Weissenberger, E. Dazert, M. Coto-Llerena, S. Nuciforo, L. Blukacz, C. Ercan, V. Jimenez, S. Piscuoglio, F. Bosch, L.M. Terracciano, U. Sauer, M.H. Heim and M.N. Hall (2023) Arginine reprograms metabolism in liver cancer via RBM39 Cell, Epub ahead of print
Pubmed - L. Zhao, S.R.T. Koseki, R.A. Silverstein, N. Amrani, C. Peng, C. Kramme, N. Savic, M. Pacesa, T.C. Rodríguez, T. Stan, E. Tysinger, L- Hong, V. Yudistyra, M.R. Ponnapati, J.M. Jacobson, G.M. Church, N. Jakimo, R. Truant, M. Jinek, B.P. Kleinstiver, E.J. Sontheimer and P. Chatterjee (2023) PAM-flexible genome editing with an engineered chimeric Cas9 Nat Commun, 14(1), 6175
Pubmed - S.K. Rout, R. Cadalbert, N. Schröder, J. Wang, J. Zehnder, O. Gampp, T. Wiegand, P. Güntert, D. Klingler, C. Kreutz, A. Knörlein, J. Hall, J. Greenwald and R. Riek (2023) An Analysis of Nucleotide-Amyloid Interactions Reveals Selective Binding to Codon-Sized RNA J Am Chem Soc, Epub ahead of print
Pubmed - R. Marone, E. Landmann, A. Devaux, R. Lepore, D. Seyres, J. Zuin, T. Burgold, C. Engdahl, G. Capoferri, A. Dell'Aglio, C. Larrue, F. Simonetta, J. Rositzka, M. Rhiel, G. Andrieux, D.N. Gallagher, M.S. Schröder, A. Wiederkehr, A. Sinopoli, V. Do Sacramento, A. Haydn, L. Garcia-Prat, C. Divsalar, A. Camus, L. Xu, L. Bordoli, T. Schwede, M. Porteus, J. Tamburini, J.E. Corn, T. Cathomen, T.I. Cornu, S. Urlinger and L.T. Jeker (2023) Epitope-engineered human hematopoietic stem cells are shielded from CD123-targeted immunotherapy J Exp Med, 220(12), e20231235
Pubmed - S. Aeschlimann, P. Stettler and A. Schneider (2023) DNA segregation in mitochondria and beyond: insights from the trypanosomal tripartite attachment complex Trends Biochem Sci, Epub ahead of print
Pubmed - B. Mhlekude, D. Postmus, S. Stenzel, J. Weiner 3rd, J. Jansen, F.J. Zapatero-Belinchón, R. Olmer, A. Richter, J. Heinze, N. Heinemann, B. Mühlemann, S. Schroeder, T.C. Jones, M.A. Müller, C. Drosten, A. Pich, V. Thiel, U. Martin, D. Niemeyer, G. Gerold, D. Beule and C. Goffinet (2023) Pharmacological inhibition of bromodomain and extra-terminal proteins induces an NRF-2-mediated antiviral state that is subverted by SARS-CoV-2 infection PLoS Pathogen, 19(9), e1011657
Pubmed - U. Ghoshdastider and A. Sendoel (2023) Exploring the pan-cancer landscape of posttranscriptional regulation Cell Rep, 42(10), 113172
Pubmed - L. Schmidheini, N. Mathis, K.F. Marquart, T. Rothgangl, L. Kissling, D. Böck, C. Chanez, J.P. Wang, M. Jinek and G. Schwank (2023) Continuous directed evolution of a compact CjCas9 variant with broad PAM compatibility Nat Chem Biol, Epub ahead of print
Pubmed - R. Brogli, M. Cristodero, A. Schneider and N. Polacek (2023) A ribosome-bound tRNA half stimulates mitochondrial translation during stress recovery in Trypanosoma brucei Cell Rep, Epub ahead of print
Pubmed - Y. Moon, D. Burri and M. Zavolan (2023) Identification of experimentally-supported poly(A) sites in single-cell RNA-seq data with SCINPAS NAR Genom Bioinform, 5(3), lqad079
Pubmed - M. Cortada, S. Levano, M.N. Hall and D. Bodmer (2023) mTORC2 regulates auditory hair cell structure and function iScience, 26(9), 107687
Pubmed - S. Nasif, M. Colombo, A.-C. Uldry, M.S. Schröder, S. de Brot and O. Mühlemann (2023) Inhibition of nonsense-mediated mRNA decay reduces the tumorigenicity of human fibrosarcoma cells NAR Cancer, 5(3), zcad048
Pubmed - A. Brkic, M. Leibundgut, J. Jablonska, V. Zanki, Z. Car, V. Petrovic Perokovic, A. Marsavelski, N. Ban and I. Gruic-Sovulj (2023) Antibiotic hyper-resistance in a class I aminoacyl-tRNA synthetase with altered active site signature motif Nat Commun, 14(1), 5498
Pubmed - A. Daniels, S. Fletcher, H.E.M. Kerr, A. Kratzel, R.M. Pinto, N. Kriplani, N. Craig, C.J. Hastie, P. Davies, P. Digard, V. Thiel and C. Tait-Burkard (2023) One for all-human kidney Caki-1 cells are highly susceptible to infection with corona- and other respiratory viruses J Virol, Epub ahead of print
Pubmed - S. Campagne, D. Jutzi, F. Malard, M. Matoga, K. Romane, M. Feldmuller, M. Colombo, M.-D. Ruepp and F.H.-T. Allain (2023) Molecular basis of RNA-binding and autoregulation by the cancer-associated splicing factor RBM39 Nat Commun, 14(1), 5366
Pubmed - L.-A. Gurzeler, M. Link, Y. Ibig, I. Schmidt, O. Galuba, J Schoenbett, C Gasser-Didierlaurant, C.N. Parker, X. Mao, F. Bitsch, M. Schirle, P. Couttet, F. Sigoillot, J. Ziegelmüller, A.-C. Uldry, W. Teodorowicz, N. Schmiedeberg, O. Mühlemann and J. Reinhardt (2023) Drug-induced eRF1 degradation promotes readthrough and reveals a new branch of ribosome quality control Cell Rep, 42(9), 113056
Pubmed - L.M. de Smalen, A. Börsch, A.B. Leuchtmann, J.F. Gill, D. Ritz, M. Zavolan and C. Handschin (2023) Impaired age-associated mitochondrial translation is mitigated by exercise and PGC-1a Proc Natl Acad Sci U S A 120(36), e2302360120
Pubmed - I. Guccini, G. Tang, T.T. To, L. Di Rito, S. Le Blanc, O. Strobel, M. D'Ambrosio, E. Pasquini, M. Bolis, P. Silva, H.A. Kabakci, S. Godbersen, A. Alimonti, G. Schwank and M. Stoffel (2023) Genetic ablation of ketohexokinase C isoform impairs pancreatic cancer development iScience, 26(8), 107368
Pubmed - A. Kobiita, P.N. Silva, M.W. Schmid and M. Stoffel (2023) FoxM1 coordinates cell division, protein synthesis, and mitochondrial activity in a subset of B cells during acute metabolic stress Cell Rep, 42(8), 112986
Pubmed - M. Gerber, I. Suppanz, S. Oeljeklaus, M. Niemann, S. Käser, B. Warscheid, A. Schneider and C.E. Dewar (2023) A Msp1-containing complex removes orphaned proteins in the mitochondrial outer membrane of T. brucei Life Sci Alliance, 6(11), e202302004
Pubmed - G. Dias de Melo, V. Perraud, F. Alvarez, A. Vieites-Prado, S. Kim, L. Kergoat, A. Coleon, B.S. Trüeb, M. Tichit, A. Piazza, A. Thierry, D. Hardy, N. Wolff, S. Munier, R. Koszul, E. Simon-Lorière, V. Thiel, M. Lecuit, P.-M. Lledo, N. Renier, F. Larrous and H. Bourhy (2023) Neuroinvasion and anosmia are independent phenomena upon infection with SARS-CoV-2 and its variants Nat Commun, 14(1), 4485
Pubmed - R. Gandhimathi, D. Pinotsi, M. Köhler, J. Mansfeld, C. Ashiono, T. Kleele, S. Pawar and U. Kutay (2023) Super-resolution microscopy reveals focal organization of ER-associated Y-complexes in mitosis EMBO Rep, Epub ahead of print
Pubmed - F. Alings, K. Scharmann, C. Eggers, B. Böttcher, M. Sokolowski, E. Shvetsova, P. Sharma, J. Roth, L. Rashiti, S. Glatt, S. Brunke and S.A. Leidel (2023) Ncs2* mediates in vivo virulence of pathogenic yeast through sulphur modification of cytoplasmic transfer RNA Nucleic Acids Res, Epub ahead of print
Pubmed - M. Dohnalkova, K. Krasnykov, M. Mendel, L. Li, O. Panasenko, F. Fleury-Olela, C. Broberg Vågbø, D. Homolka and R.S. Pillai (2023) Essential roles of RNA cap-proximal ribose methylation in mammalian embryonic development and fertility Cell Rep, Epub ahead of print
Pubmed - M. Pérez-Berlanga, V.I. Wiersma, A. Zbinden, L. De Vos, U. Wagner, C. Foglieni, I. Mallona, K.M. Betz, A. Cléry, J. Weber, Z. Guo, R. Rigort, P. de Rossi, R. Manglunia, E. Tantardini, S. Sahadevan, O. Stach, M. Hruska-Plochan, F.H.-T. Allain, P. Paganetti and M. Polymenidou (2023) Loss of TDP-43 oligomerization or RNA binding elicits distinct aggregation patterns EMBO J, Epub ahead of print
Pubmed - M. Blandino-Rosano, R. Andrade Louzada, J.P. Werneck-De-Castro, C. Lubaczeuski, J. Almaça, M.A. Rüegg, M.N. Hall, G. Leibowitz and E. Bernal-Mizrachi (2023) Raptor levels are critical for B-cell adaptation to a high-fat diet in male mice Mol Metab, Epub ahead of print
Pubmed - I. Beusch, B. Rao, M.K. Studer, T. Luhovska, V. Šukyte, S. Lei, J. Oses-Prieto, E. SeGraves, A. Burlingame, S. Jonas and H.D. Madhani (2023) Targeted high-throughput mutagenesis of the human spliceosome reveals its in vivo operating principles Mol Cell, Epub ahead of print
Pubmed - S. Oehler, L. Lucaroni, F. Migliorini, A. Elsayed, L. Prati, S. Puglioli, M. Matasci, K. Schira, J. Scheuermann, D. Yudin, M. Jia, N. Ban, D. Bushnell, R. Kornberg, S. Cazzamalli, D. Neri, N. Favalli and G. Bassi (2023) A DNA-encoded chemical library based on chiral 4-amino-proline enables stereospecific isozyme-selective protein recognition Nat Chem, Epub ahead of print
Pubmed - M. Zavolan (2023) Walter Keller (1938-2023): a tribute from his mentees RNA, Epub ahead of print
Pubmed - T. Welte, A. Goulois, M.B. Stadler, D. Hess, C. Soneson, A. Neagu, C. Azzi, M.J. Wisser, J. Seebacher, I. Schmidt, D. Estoppey, F. Nigsch, J. Reece-Hoyes, D. Hoepfner and H. Grosshans (2023) Convergence of multiple RNA-silencing pathways on GW182/TNRC6 Mol Cell, Epub ahead of print
Pubmed - C. Kristen-Burmann, P. Rogger, I. Berenguer Veiga, S. Riebesehl, J. Rappe, N. Ebert, C.A. Sautter, J.N. Kelly, H. Stalder, R. Ehmann, M. Huber, H. Posthaus, N. Ruggli, V. Thiel and G. Tekes (2023) Reverse Genetic Assessment of the Roles Played by the Spike Protein and ORF3 in Porcine Epidemic Diarrhea Virus Pathogenicity J Virol, Epub ahead of print
Pubmed - M. Gamerdinger, M. Jia, R. Schloemer, L. Rabl, M. Jaskolowski, K.M. Khakzar, Z. Ulusoy, A. Wallisch, A. Jomaa, G. Hunaeus, A. Scaiola, K. Diederichs, N. Ban and E. Deuerling (2023) NAC controls cotranslational N-terminal methionine excision in eukaryotes Science, 380 (6651), 1238-1243
Pubmed - A. Kratzel and V. Thiel (2023) RTN3 and RTN4: Architects of SARS-CoV-2 replication organelles J Cell Biol, (7), e202306020
Pubmed - T. Hochstoeger and J.A. Chao (2023) Towards a molecular understanding of the 5'TOP motif in regulating translation of ribosomal mRNAs Semin Cell Dev Biol, Epub ahead of print
Pubmed - R. Marcinkevics, P.N. Silva, A.-K. Hankele, C. Dörnte, S. Kadelka, K. Csik, S. Godbersen, A. Goga, L. Hasenöhrl, P. Hirschi, H. Kabakci, M.P. LaPierre, J. Mayrhofer, A.C. Title, X. Shu, N. Baiioud, S. Bernal, L. Dassisti, M.D. Saenz-de-Juano, M. Schmidhauser, G. Silvestrelli, S.Z. Ulbrich, T.J. Ulbrich, T. Wyss, D.J. Stekhoven, F.S. Al-Quaddoomi, S. Yu, M. Binder, C. Schultheiss, C. Zindel, C. Kolling, J. Goldhahn, B. Kasmapour Seighalani, P. Zjablovskaja, F. Hardung, M. Schuster, A. Richter, Y.-J. Huang, G. Lauer, H. Baurmann, J. Siong Low, D. Vaqueirinho, S. Jovic, L. Piccoli, S. Ciesek, J.E. Vogt, F. Sallusto, M. Stoffel and S.E. Ulbrich (2023) Machine learning analysis of humoral and cellular responses to SARS-CoV-2 infection in young adults Front Immunol, 14, 1158905
Pubmed - H. Vatandaslar, A. Garzia, C. Meyer, S. Godbersen, L.T.L. Brandt, E. Griesbach, J.A. Chao, T. Tuschl and M. Stoffel (2023) In vivo PAR-CLIP (viP-CLIP) of liver TIAL1 unveils targets regulating cholesterol synthesis and secretion Nat Commun, 14(1):3386
Pubmed - R. Esposito, A. Lanzós, T. Uroda, S. Ramnarayanan, I. Büchi, T. Polidori, H. Guillen-Ramirez, A. Mihaljevic, B. Mefi Merlin, L. Mela, E. Zoni, L. Hovhannisyan, F. McCluggage, M. Medo, G. Basile, D.F. Meise, S. Zwyssig, C. Wenger, K. Schwarz, A. Vancura, N. Bosch-Guiteras, Á. Andrades, A. Ming Tham, M. Roemmele, A.F. Ochsenbein, C. Riether, M. Kruithof-de Julio, Y. Zimmer, M. Medová, D. Stroka, A. Fox and R. Johnson (2023) Tumour mutations in long noncoding RNAs enhance cell fitness Nat Commun, 14(1), 3342
Pubmed - M.Y. Boontanrart, E. Mächler, S. Ponta, J.C. Nelis, V.G. Preiano and J.E. Corn (2023) Engineering of the endogenous HBD promoter increases HbA2 Elife,12, e85258
Pubmed - N. Gil, R. Ben-Tov Perry, Z. Mukamel, A. Tuck, M. Bühler and I. Ulitsky (2023) Complex regulation of Eomes levels mediated through distinct functional features of the Meteor long non-coding RNA locus Cell Rep, Epub ahead of print
Pubmed - J. Farnung, M. Muhar, J.R. Liang, K.A. Tolmachova, R.M. Benoit, J.E. Corn and J.W. Bode (2023) Semisynthetic LC3 Probes for Autophagy Pathways Reveal a Noncanonical LC3 Interacting Region Motif Crucial for the Enzymatic Activity of Human ATG3 ACS Cent Sci, 9(5), 1025-1034
Pubmed - R. Valador Fernandes and J. Lingner (2023) The THO complex counteracts TERRA R-loop-mediated telomere fragility in telomerase+ cells and telomeric recombination in ALT+ cells Nucleic Acids Res, Epub ahead of print
Pubmed - A. Meindl, M. Romberger, G. Lehmann, N. Eichner, L. Kleemann, J. Wu, J. Danner, M. Boesl, M. Mesitov, G. Meister, J. König, S.A. Leidel and J. Medenbach (2023) A rapid protocol for ribosome profiling of low input samples Nucleic Acids Res, Epub ahead of print
Pubmed - S. Nouri, J. Boudet, H. Dreher-Teo, F.H.-T. Allain, R. Glockshuber, L. Salmon and C. Giese (2023) Elongated Bacterial Pili as a Versatile Alignment Medium for NMR Spectroscopy Angew Chem Int Ed Engl, Epub ahead of print
Pubmed - M. Jaskolowski, A. Jomaa, M. Gamerdinger, S. Shrestha, M. Leibundgut, E. Deuerling and N. Ban (2023) Molecular basis of the TRAP complex function in ER protein biogenesis Nat Struct Mol Biol, Epub ahead of print
Pubmed - I.C. Frei, D. Weissenberger, C. Müller, M.N. Hall and M. Shimobayashi (2023) Hepatic mTORC2 compensates for loss of adipose mTORC2 in mediating energy storage and glucose homeostasis Am J Physiol Endocrinol Metab, Epub ahead of print
Pubmed - M. Saurer, M. Leibundgut, H. Priyanka Nadimpalli, A. Scaiola, T. Schönhut, R.G. Lee, S.J. Siira, O. Rackham, R. Dreos, T. Lenarcic, E. Kummer, D. Gatfield, A. Filipovska and N. Ban (2023) Molecular basis of translation termination at noncanonical stop codons in human mitochondria Science, 380(6644), 531-536
Pubmed - M. Flemr, M. Schwaiger, D. Hess, V. Iesmantavicius, J. Ahel, A.C. Tuck, F. Mohn and M. Bühler (2023) Mouse Nuclear RNAi-defective 2 Promotes Splicing of Weak 5' Splice Sites RNA, Epub ahead of print
Pubmed - U. Radzikowska, A. Eljaszewicz, G. Tan, N. Stocker, A. Heider, P. Westermann, S. Steiner, A. Dreher, P. Wawrzyniak, B. Rückert, J. Rodriguez-Coira, Damir Zhakparov, M. Huang, B. Jakiela, M. Sanak, M. Moniuszko, L. O'Mahony, M. Jutel, T. Kebadze, J.D. Jackson, R.M. Edwards, V. Thiel, L.S. Johnston, A.C. Akdis and M. Sokolowska (2023) Rhinovirus-induced epithelial RIG-I inflammasome suppresses antiviral immunity and promotes inflammation in asthma and COVID-19 Nat Commun, 14(1):2329
Pubmed - M. Honer, A. Polara, H. Kuwabara, H. Jacobsen, A. Pähler, T. Hartung, A. Caruso, D. Esterhazy, M. Stoffel, R.F. Dannals, D.F. Wong, E. Borroni and L.C. Gobbi (2023) RO6807936 as a Novel PET Radiotracer for in Vitro and in Vivo Visualization and Quantification of BACE1 in the Rodent and Baboon Brain J Labelled Comp Radiopharm, Epub ahead of print
Pubmed - M. Blatter, C. Meylan, A. Cléry, R. Giambruno, Y. Nikolaev, M. Heidecker, J. Arvindbhai Solanki, M.O. Diaz, D. Gabellini and F.H.-T. Allain (2023) RNA binding induces an allosteric switch in Cyp33 to repress MLL1-mediated transcription Sci Adv,9(16, eadf5330
Pubmed - M. Katsantoni, E. van Nimwegen and M. Zavolan (2023) Improved analysis of (e)CLIP data with RCRUNCH yields a compendium of RNA-binding protein binding sites and motifs Genome Biol, 24(1), 77
Pubmed - R. Abdelnabi, D. Jochmans, K. Donckers, B. Trüeb, N. Ebert, B. Weynand, V. Thiel and J. Neyts (2023) Nirmatrelvir-resistant SARS-CoV-2 is efficiently transmitted in female Syrian hamsters and retains partial susceptibility to treatment Nat Commun, 14(1):2124
Pubmed - G. Padroni, M. Bikaki, M. Novakovic, A.C. Wolter, S.H. Rüdisser, A.D. Gossert, A. Leitner and F.H.-T. Allain (2023) A hybrid structure determination approach to investigate the druggability of the nucleocapsid protein of SARS-CoV-2 Nucleic Acids Res, Epub ahead of print
Pubmed - M. Shimobayashi, A. Thomas, S. Shetty, I.C. Frei, B.K. Wölnerhanssen, D. Weissenberger, A. Vandekeere, M. Planque, N. Dietz, D. Ritz, A.C. Meyer-Gerspach, T. Maier, N. Hay, R. Peterli, S.-M. Fendt, N. Rohner and M.N. Hall (2023) Diet-induced loss of adipose hexokinase 2 correlates with hyperglycemia Elife, 2, e85103
Pubmed - A.D. Holmes, P.P. Chan, Q. Chen, P. Ivanov, L. Drouard, N. Polacek, M.A. Kay and T.M. Lowe (2023) A standardized ontology for naming tRNA-derived RNAs based on molecular origin Nat Methods, Epub ahead of print
Pubmed - T. Solberg, V. Mason, C. Wang and M. Nowacki (2023) Developmental mRNA clearance by PIWI-bound endo-siRNAs in Paramecium Cell Rep, Epub ahead of print
Pubmed - I. Cordts, A. Wachinger, C. Scialo, P. Lingor, M. Polymenidou, E. Buratti and E. Feneberg (2023) TDP-43 Proteinopathy Specific Biomarker Development Cells, 12(4), 597
Pubmed - C. Wenger, A. Harsman, M. Niemann, S. Oeljeklaus, C. von Känel, S. Calderaro, B. Warscheid and A. Schneider (2023) The Mba1 homologue of Trypanosoma brucei is involved in the biogenesis of oxidative phosphorylation complexes Mol Microbiol, Epub ahead of print
Pubmed - G. Capoferri, C.S. Walti, P. Urwyler, S. Ragozzino, J.R. Passweg, J. Halter, M. Battegay, V. Baettig, M. Weisser, B. Arnold, B. Morin, Y. Guetlin, D. Albertos Torres, G.T. Barut, V. Thiel, A. Egli, B. Drexler and N. Khanna (2023) Dynamics of antibody titers to SARS-CoV-2 and clinical outcomes after sotrovimab pre-exposure prophylaxis early after allogeneic hematopoietic stem cell transplantation Bone Marrow Transplant, Epub ahead of print
Pubmed - M. Buehler, X. Yi, W. Ge, P. Blattmann, E. Rushing, G. Reifenberger, J. Felsberg, C. Yeh, J.E. Corn, L. Regli, J. Zhang, A. Cloos, V.M. Ravi, B. Wiestler, D.H. Heiland, R. Aebersold, M. Weller, T. Guo and T. Weiss (2023) Quantitative proteomic landscapes of primary and recurrent glioblastoma reveal a protumorigeneic role for FBXO2-dependent glioma-microenvironment interactions Neuro Oncol 25(2), 290-302
Pubmed - K. Dörner, C. Ruggeri, I. Zemp and U. Kutay (2023) Ribosome biogenesis factors-from names to functions EMBO J Epub ahead of print
Pubmed - F. Günl, T. Krischuns, J.A. Schreiber, L. Henschel, M. Wahrenburg, H.C.A. Drexler, S.A. Leidel, V. Cojocaru, G. Seebohm, A. Mellmann, M. Schwemmle, S. Ludwig and L. Brunotte (2023) The ubiquitination landscape of the influenza A virus polymerase Nat Commun 14(1), 787
Pubmed - G. Franco, E. Taillebourg, E. Delfino, D. Homolka, N. Gueguen, E. Brasset, R.R. Pandey, R.S. Pillai and M.-O. Fauvarque (2023) The catalytic-dead Pcif1 regulates gene expression and fertility in Drosophila RNA, Epub ahead of print
Pubmed - P. Dave, G. Roth, E. Griesbach, D. Mateju, T. Hochstoeger and J.A. Chao (2023) Single-molecule imaging reveals translation-dependent destabilization of mRNAs Mol Cell, Epub ahead of print
Pubmed - J. Hall (2023) Future directions for medicinal chemistry in the field of oligonucleotide therapeutics RNA, Epub ahead of print
Pubmed - S. Shetty, J. Hofstetter, S. Battaglioni, D. Ritz and M.N. Hall (2023) TORC1 phosphorylates and inhibits the ribosome preservation factor Stm1 to activate dormant ribosomes EMBO J, Epub ahead of print
Pubmed - M.W.M. Meeuse, Y.P. Hauser, S. Nahar, A.A.T. Smith, K. Braun, C. Azzi, M. Rempfler and H. Grosshans (2023) C. elegans molting requires rhythmic accumulation of the Grainyhead/LSF transcription factor GRH-1 EMBO J, 42(4), e111895
Pubmed - G. Katsioudi, R. Dreos, E.S. Arpa, S. Gaspari, A. Liechti, M. Sato, C.H. Gabriel, A. Kramer, S.A. Brown and D. Gatfield (2023) A conditional Smg6 mutant mouse model reveals circadian clock regulation through the nonsense-mediated mRNA decay pathway Sci Adv, 9(2), eade2828
Pubmed - O. Olotu, M. Dowling, D. Homolka, M.N. Wojtas, P. Tran, T. Lehtiniemi, M. Da Ros, R.S. Pillai and N. Kotaja (2023) Intermitochondrial cement (IMC) harbors piRNA biogenesis machinery and exonuclease domain-containing proteins EXD1 and EXD2 in mouse spermatocytes Andrology Epub ahead of print
Pubmed - D. Jochmans, C. Liu, K. Donckers, A. Stoycheva, S. Boland, S.K. Stevens, C. De Vita, B. Vanmechelen, P. Maes, B. Trüeb, N. Ebert, V. Thiel, S. De Jonghe, L. Vangeel, D. Bardiot, A. Jekle, L.M. Blatt, L. Beigelman, J.A. Symons, P. Raboisson, P. Chaltin, A. Marchand, J. Neyts, J. Deval and K. Vandyck (2023) The Substitutions L50F, E166A, and L167F in SARS-CoV-2 3CLpro Are Selected by a Protease Inhibitor In Vitro and Confer Resistance To Nirmatrelvir mBio, Epub ahead of print
Pubmed - M. Emmenegger, E. De Cecco, D. Lamparter, R.P.B. Jacquat, J. Riou, D. Menges, T. Ballouz, D. Ebner, M.M. Schneider, I. Condado Morales, B. Dogançay, J. Guo, A. Wiedmer, J. Domange, M. Imeri, R. Moos, C. Zografou, L. Batkitar, L. Madrigal, D. Schneider, C. Trevisan, A. Gonzalez-Guerra, A. Carrella, I.L. Dubach, C.K. Xu, G. Meisl, V. Kosmoliaptsis, T. Malinauskas, N. Burgess-Brown, R. Owens, S. Hatch, J. Mongkolsapaya, G.R. Screaton, K. Schubert, J.D. Huck, F. Liu, F. Pojer, K. Lau, D. Hacker, E. Probst-Müller, C. Cervia, J. Nilsson, O. Boyman, L. Saleh, K. Spanaus, A. von Eckardstein, D.J. Schaer, N. Ban, C.-J. Tsai, J. Marino, G.F.X. Schertler, N. Ebert, V. Thiel, J. Gottschalk, B.M. Frey, R.R. Reimann, S. Hornemann, A.M. Ring, T.P.J. Knowles, M.A. Puhan, C.L. Althaus, I. Xenarios, D.I. Stuart and A. Aguzzi (2023) Continuous population-level monitoring of SARS-CoV-2 seroprevalence in a large European metropolitan region iScience, Epub ahead of print
Pubmed - Q. Liu, W. Ge, S. Martínez-Jarquín, Y. He, R. Wu, M. Stoffel and R. Zenobi (2023) Mass Spectrometry Reveals High Levels of Hydrogen Peroxide in Pancreatic Cancer Cells Angew Chem Int Ed Engl, Epub ahead of print
Pubmed - M. Dowling, D. Homolka, N. Raad, P. Gos, R.R. Pandey and R.S. Pillai (2023) In vivo PIWI slicing in mouse testes deviates from rules established in vitro RNA 29(3), 308-16
Pubmed - E.L. LaPlante, A. Stürchler, R. Fullem, D. Chen, A.C. Starner, E. Esquivel, E. Alsop, A.R. Jackson, I. Ghiran, G. Pereira, J. Rozowsky, J. Chang, M.B. Gerstein, R.P. Alexander, M.E. Roth, J.L. Franklin, R.J. Coffey, R.L. Raffai, I.M. Mansuy, S. Stavrakis, A.J. deMello, L.C. Laurent, Y.-T. Wang, C.-F. Tsai, T. Liu, J. Jones, K. Van Keuren-Jensen, E. Van Nostrand, B. Mateescu and A. Milosavljevic (2023) exRNA-eCLIP intersection analysis reveals a map of extracellular RNA binding proteins and associated RNAs across major human biofluids and carriers Cell Genom, 3(5), 100303
Pubmed
2022 Publications
2022 Publications
- R. Esposito, T. Polidori, D.F. Meise, C. Pulido-Quetglas, P. Chouvardas, S. Forster, P. Schaerer, A. Kobel, J. Schlatter, E. Kerkhof, M. Roemmele, E.S. Rice, L. Zhu, A. Lanzós, H.A. Guillen-Ramirez, G. Basile, I. Carrozzo, A. Vancura, S. Ullrich, A. Andrades, D. Harvey, P.P. Medina, P.C. Ma, S. Haefliger, X. Wang, I. Martinez, A.F. Ochsenbein, C. Riether and R. Johnson (2022) Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities Cell Genom, 2(9):100171
Pubmed - L. Nierzwicki, K.W. East, J.M. Binz, R.V. Hsu, M. Ahsan, P.R. Arantes, E. Skeens, M. Pacesa, M. Jinek, G.P. Lisi and G. Palermo (2022) Principles of target DNA cleavage and the role of Mg2+ in the catalysis of CRISPR-Cas9 Nat Catal, 5(10):910-922
Pubmed - V. Zanki, B. Bozic, M. Mocibob, N. Ban and I. Gruic-Sovulj (2022) A pair of isoleucyl-tRNA synthetases in Bacilli fulfills complementary roles to keep fast translation and provide antibiotic resistance Protein Sci, 31(9), e4418
Pubmed - C.R. Kahlert, S. Nigg, L. Onder, R. Dijkman, L. Diener, A.G. Jop Vidal, R. Rodriguez, P. Vernazza, V. Thiel, J.E. Vidal and W.C. Albrich (2022) The quorum sensing com system regulates pneumococcal colonisation and invasive disease in a pseudo-stratified airway tissue model Microbiol Res, Epub ahead of print
Pubmed - E. Lekka, A. Kokanovic, S. Mosole, G. Civenni, S. Schmidli, A. Laski, A. Ghidini, P. Iyer, C. Berk, A. Behera, C.V. Catapano and J. Hall (2022) Pharmacological inhibition of Lin28 promotes ketogenesis and restores lipid homeostasis in models of non-alcoholic fatty liver disease Nat Commun, 13(1), 7940
Pubmed - A. Vancura, A.H. Gutierrez, T. Hennig, C. Pulido-Quetglas, F.J. Slack, R. Johnson and S. Haefliger (2022) Is Evolutionary Conservation a Useful Predictor for Cancer Long Noncoding RNAs? Insights from the Cancer LncRNA Census 3 Noncoding RNA, 8(6), 82
Pubmed - W. Chiu, J. Schepers, T. Francken, L. Vangeel, K. Abbasi, D. Jochmans, S. De Jonghe, H.J. Thibaut, V. Thiel, J. Neyts, M. Laporte and P. Leyssen (2022) Development of a robust and convenient dual-reporter high-throughput screening assay for SARS-CoV-2 antiviral drug discovery Antiviral Res, Epub ahead of print
Pubmed - I. Plaisance, P. Chouvardas, Y. Sun, M. Nemir, P. Aghagolzadeh, F. Aminfar, S. Shen, W.J. Shim, F. Rochais, R. Johnson, N. Palpant and T. Pedrazzini (2022) A transposable element into the human long noncoding RNA CARMEN is a switch for cardiac precursor cell specification Cardiovasc Res, Epub ahead of print
Pubmed - R. Weber, U. Ghoshdastider, D. Spies, C. Duré, F. Valdivia-Francia, M. Forny, M. Ormiston, P.F. Renz, D. Taborsky, M. Yigit, M. Bernasconi, H. Yamahachi and A. Sendoel (2022) Monitoring the 5'UTR landscape reveals isoform switches to drive translational efficiencies in cancer Oncogene, Epub ahead of print
Pubmed - L. Eugenio Leiva, S. Elgamal, S.A. Leidel, O. Orellana, M. Ibba and A. Katz (2022) Oxidative stress strongly restricts the effect of codon choice on the efficiency of protein synthesis in Escherichia coli Front Microbiol, 13, 1042675
Pubmed - M. Quévillon Huberdeau, V.N. Shah, S. Nahar, J. Neumeier, F. Houle, A. Bruckmann, F. Gypas, K. Nakanishi, H. Grosshans, G. Meister and M.J. Simard (2022) A specific type of Argonaute phosphorylation regulates binding to microRNAs during C. elegans development Cell Rep, 41(11), 111822
Pubmed - C. Uhlemeyer, N. Müller, M. Rieck, J. Kuboth, C. Schlegel, K. Grieß, T.F. Dorweiler, S. Heiduschka, J. Eckel, M. Roden, E. Lammert, M. Stoffel and B.-F. Belgardt (2022) Selective ablation of P53 in pancreatic beta cells fails to ameliorate glucose metabolism in genetic, dietary and pharmacological models of diabetes mellitus Mol Metab, Epub ahead of print
Pubmed - M. Jambeau, K.D. Meyer, M. Hruska-Plochan, R. Tabet, C.-Z. Lee, A. Ray-Soni, C. Aguilar, K. Savage, N. Mishra, N. Cavegn, P. Borter, C.-C. Lin, K.R. Jansen-West, J. Jiang, F. Freyermuth, N. Li, P. De Rossi, M. Pérez-Berlanga, X. Jiang, L.M. Daughrity, J. Pereira, S. Narayanan, Y. Gu, S. Dhokai, I. Dalkilic-Liddle, Z. Maniecka, J. Weber, M. Workman, M. McAlonis-Downes, E. Berezovski, Y.-J. Zhang, J. Berry, B.J. Wainger, M.W. Kankel, M. Rushe, C. Hock, R.M. Nitsch, D.W. Cleveland, L. Petrucelli, T.F. Gendron, F. Montrasio, J. Grimm, M. Polymenidou and C. Lagier-Tourenne (2022) Comprehensive evaluation of human-derived anti-poly-GA antibodies in cellular and animal models of C9orf72 disease Proc Natl Acad Sci U S A, 119 (49), e2123487119
Pubmed - M. Schmitz, I. Querques, S. Oberli, C. Chanez and M. Jinek (2022) Structural basis for the assembly of the type V CRISPR-associated transposon complex Cell, Epub ahead of print
Pubmed - S. Park, D. Mossmann, Q. Chen, X. Wang, E. Dazert, M. Colombi, A. Schmidt, B. Ryback, C.K.Y. Ng, L.M. Terracciano, M.H. Heim and M.N. Hall (2022) Transcription factors TEAD2 and E2A globally repress acetyl-CoA synthesis to promote tumorigenesis Mol Cell, 82 (22), 4246-4261.e11
Pubmed - T. Kuzdere, V. Flury, T. Schalch, V. Iesmantavicius, D. Hess and M. Bühler (2022) Differential phosphorylation of Clr4SUV39H by Cdk1 accompanies a histone H3 methylation switch that is essential for gametogenesis EMBO Rep
Pubmed - G. Snieckute, A.V. Genzor, A.C. Vind, L. Ryder, M. Stoneley, S. Chamois, R. Dreos, C. Nordgaard, F. Sass, M. Blasius, A. Rodríguez López, S.H. Brynjólfsdóttir, K. Langebjerg Andersen, A.E. Willis, L.B. Frankel, S. Seier Poulsen, D. Gatfield, Z. Gerhart-Hines, C. Clemmensen and S. Bekker-Jensen (2022) Ribosome stalling is a signal for metabolic regulation by the ribotoxic stress response Cell Metab, Epub ahead of print
Pubmed - D. Niemeyer, S. Stenzel, T. Veith, S. Schroeder, K. Friedmann, F. Weege, J. Trimpert, J. Heinze, A. Richter, J. Jansen, J. Emanuel, J. Kazmierski, F. Pott, L.M. Jeworowski, R. Olmer, M.-C. Jaboreck, B. Tenner, J. Papies, F. Walper, M.L. Schmidt, N. Heinemann, E. Möncke-Buchner, M. Baumgardt, K. Hoffmann, M. Widera, T.T.N. Thao, A. Balázs, J. Schulze, C. Mache, T.C. Jones, M. Morkel, S. Ciesek, L.G. Hanitsch, M.A. Mall, A.C. Hocke, V. Thiel, K. Osterrieder, T. Wolff, U. Martin, V.M. Corman, M.A. Müller, C. Goffinet and C. Drosten (2022) SARS-CoV-2 variant Alpha has a spike-dependent replication advantage over the ancestral B.1 strain in human cells with low ACE2 expression PLoS Biol, 20(11), e3001871
Pubmed - S.M. Siegner, L. Ugalde, A. Clemens, L. Garcia-Garcia, J.A. Bueren, P. Rio, M.E. Karasu and J.E. Corn (2022) Adenine base editing efficiently restores the function of Fanconi anemia hematopoietic stem and progenitor cells Nat Commun, 13(1), 6900
Pubmed - N. Raad, D. Tandon, S. Hapfelmeier and N. Polacek (2022) The stationary phase-specific sRNA FimR2 is a multifunctional regulator of bacterial motility, biofilm formation and virulence Nucleic Acids Res, Epub ahead of print
Pubmed - D. Benjamin and M.N. Hall (2022) Combining metformin with lactate transport inhibitors as a treatment modality for cancer - recommendation proposal Front Oncol, 12, 1034397
Pubmed - G. Glousker and J. Lingner (2022) TFIIH moonlighting at telomeres Genes Dev 36(17-18), 951-953
Pubmed - K.M. Hannan, P. Soo, M.S. Wong, J.K. Lee, N. Hein, P. Poh, K.D. Wysoke, T.D. Williams, C. Montellese, L.K. Smith, S.J. Al-Obaidi, L. Núñez-Villacís, M. Pavy, J.-S. He, K.M. Parsons, K.E. Loring, T. Morrison, J. Diesch, G. Burgio, R. Ferreira, Z.-P. Feng, C.M. Gould, P.B. Madhamshettiwar, J. Flygare, T.J. Gonda, K.J. Simpson, U. Kutay, R.B. Pearson, C. Engel, N.J. Watkins, R.D. Hannan and A.J. George (2022) Nuclear stabilization of p53 requires a functional nucleolar surveillance pathway Cell Rep, 41(5):111571
Pubmed - M. Pacesa, C.-H. Lin, A. Cléry, A. Saha, P.R. Arantes, K. Bargsten, M.J. Irby, F.H.-T. Allain, G. Palermo, P. Cameron, P.D. Donohoue and M. Jinek (2022) Structural basis for Cas9 off-target activity Cell, 185(22), 4067-4081.e21
Pubmed - M.S. Kaiser, G. Milan, D.J. Ham, S. Lin, F. Oliveri, K. Chojnowska, L.A. Tintignac, N. Mittal, C.E. Zimmerli, D.J. Glass, M. Zavolan and M.A. Rüegg (2022) Dual roles of mTORC1-dependent activation of the ubiquitin-proteasome system in muscle proteostasis Commun Biol, 5(1), 1141
Pubmed - J.N. Kelly, Laura Laloli, P. V'kovski, M. Holwerda, J. Portmann, V. Thiel and R. Dijkman (2022) Comprehensive single cell analysis of pandemic influenza A virus infection in the human airways uncovers cell-type specific host transcriptional signatures relevant for disease progression and pathogenesis Front Immunol, 13, 978824
Pubmed - M. Avar, D. Heinzer, A.M. Thackray, Y. Liu, M. Hruska-Plochan, S. Sellitto, E. Schaper, D.P. Pease, J.-A. Yin, A.K. Lakkaraju, M. Emmenegger, M. Losa, A. Chincisan, S. Hornemann, M. Polymenidou, R. Bujdoso and A. Aguzzi (2022) An arrayed genome-wide perturbation screen identifies the ribonucleoprotein Hnrnpk as rate-limiting for prion propagation EMBO J, Epub ahead of print
Pubmed - A. Singh, X.X. Maurer-Alcalá, T. Solberg, L. Haeussermann, S. Gisler, M. Ignarski, E.C. Swart and M. Nowacki (2022) Chromatin remodeling is required for sRNA-guided DNA elimination in Paramecium EMBO J, Epub ahead of print
Pubmed - G.T. Barut, N.J. Halwe, A. Taddeo, J.N. Kelly, J. Schön, N. Ebert, L. Ulrich, C. Devisme, S. Steiner, B.S. Trüeb, B. Hoffmann, I. Berenguer Veiga, N.G.F. Leborgne, E. Aguiar Moreira, A. Breithaupt, C. Wylezich, D. Höper, K. Wernike, A. Godel, L. Thomann, V. Flück, H. Stalder, M. Brügger, B.I. Oliveira Esteves, B. Zumkehr, G. Beilleau, A. Kratzel, K. Schmied, S. Ochsenbein, R.M. Lang, M. Wider, C. Machahua, P. Dorn, T.M. Marti, M. Funke-Chambour, A. Rauch, M. Widera, S. Ciesek, R. Dijkman, D. Hoffmann, M.P. Alves, C. Benarafa, M. Beer and V. Thiel (2022) The spike gene is a major determinant for the SARS-CoV-2 Omicron-BA.1 phenotype Nat Commun, 13(1), 5929
Pubmed - M. M Duszczyk, H. Wischnewski, T. Kazeeva, R. Arora, F.E. Loughlin, C. von Schroetter, U. Pradère, J. Hall, C. Ciaudo and F.H.-T. Allain (2022) The solution structure of Dead End bound to AU-rich RNA reveals an unusual mode of tandem RRM-RNA recognition required for mRNA regulation Nat Commun, 13(1), 5892
Pubmed - L. Thomann and V. Thiel (2022) SARS-CoV-2 mimics a host protein to bypass defences Nature, Epub ahead of print
Pubmed - M. P LaPierre, K. Lawler, S. Godbersen, I.S. Farooqi and M. Stoffel (2022) MicroRNA-7 regulates melanocortin circuits involved in mammalian energy homeostasis Nat Commun, 13(1), 5733
Pubmed - S. Aeschlimann, A. Kalichava, B. Schimanski, B.M. Berger, C. Jetishi, P. Stettler, T. Ochsenreiter and A. Schneider (2022) Single p197 molecules of the mitochondrial genome segregation system of Trypanosoma brucei determine the distance between basal body and outer membrane PNAS, 119(40), e2204294119
Pubmed - J. Beer, S. Crotta, A. Breithaupt, A. Ohnemus, J. Becker, B. Sachs, L. Kern, M. Llorian, N. Ebert, F. Labroussaa, T.T.N. Thao, B.S. Trueeb, J. Jores, V. Thiel, M. Beer, J. Fuchs, G. Kochs, A. Wack, M. Schwemmle and D. Schnepf (2022) Impaired immune response drives age-dependent severity of COVID-19 J Exp Med, 219(12), e20220621
Pubmed - K.E. Ravichandran, L. Kaduhr, B. Skupien-Rabian, E. Shvetsova, M. Sokolowski, R.C. Krutyholowa , D. Kwasna, C. Brachmann, S. Lin, S. Guzman Perez, P. Wilk, M. Kösters, P. Grudnik, U. Jankowska, S.A. Leidel, R. Schaffrath and S. Glatt (2022) E2/E3-independent ubiquitin-like protein conjugation by Urm1 is directly coupled to cysteine persulfidation EMBO J, Epub ahead of print
Pubmed - K. Sabath and S. Jonas (2022) Take a break: Transcription regulation and RNA processing by the Integrator complex Curr Opin Struct Biol, Epub ahead of print
Pubmed - L. M. Muckenfuss, A.C. Migenda Herranz, F.M. Boneberg, M. Clerici and M. Jinek (2022) Fip1 is a multivalent interaction scaffold for processing factors in human mRNA 3' end biogenesis Elife, Epub ahead of print
Pubmed - P. Suter, E. Dazert, J. Kuipers, C.K.Y. Ng, T. Boldanova, M.N. Hall, M.H. Heim and N. Beerenwinkel (2022) Multi-omics subtyping of hepatocellular carcinoma patients using a Bayesian network mixture model PLoS Comput Biol, Epub ahead of print
Pubmed - M. Zamani, A.-M. Foroughmand, M.-R. Hajjari, B. Bakhshinejad, R. Johnson and H. Galehdari (2022) CASC11 and PVT1 spliced transcripts play an oncogenic role in colorectal carcinogenesis Front Oncol, 12, 954634
Pubmed - M. Pacesa, L. Loeff, I. Querques, L.M. Muckenfuss, M. Sawicka and M. Jinek (2022) R-loop formation and conformational activation mechanisms of Cas9 Nature, Epub ahead of print
Pubmed - C. Wang, T. Solberg, X.X. Maurer-Alcalá, E.C. Swart, F. Gao and M. Nowacki (2022) A small RNA-guided PRC2 complex eliminates DNA as an extreme form of transposon silencing Cell Rep, 40(8), 111263
Pubmed - P. Simmler, C. Cortijo, L.M. Koch, P. Galliker, S. Angori, H.A. Bolck, C. Mueller, A. Vukolic, P. Mirtschink, Y. Christinat, N.R. Davidson, K.-V. Lehmann, G. Pellegrini, C. Pauli, D. Lenggenhager, I. Guccini, T. Ringel, C. Hirt, K.F. Marquart, M. Schaefer, G. Rätsch, M. Peter, H. Moch, M. Stoffel and G. Schwank (2022) SF3B1 facilitates HIF1-signaling and promotes malignancy in pancreatic cancer Cell Rep, 40(8), 111266
Pubmed - J. Breda, A. Banerjee, R. Jayachandran, J. Pieters and M. Zavolan (2022) A novel approach to single-cell analysis reveals intrinsic differences in immune marker expression in unstimulated BALB/c and C57BL/6 macrophages FEBS Lett, Epub ahead of print
Pubmed - I.C. Frei, D. Weissenberger, D. Ritz, W. Heusermann, M. Colombi, M. Shimobayashi and M.N. Hall (2022) Adipose mTORC2 is essential for sensory innervation in white adipose tissue and whole-body energy homeostasis Mol Metab, Epub ahead of print
Pubmed - L. Möller, E.J. Aird, M.S. Schröder, L. Kobel, L. Kissling, L. van de Venn and J.E. Corn (2022) Recursive Editing improves homology-directed repair through retargeting of undesired outcomes Nat Commun, 13(1), 4550
Pubmed - M. Schaefer, A. Nabih, D. Spies, V. Hermes, M. Bodak, H. Wischnewski, P. Stalder, R.P. Ngondo, L.A. Liechti, T. Sajic, R. Aebersold, D. Gatfield and C. Ciaudo (2022) Global and precise identification of functional miRNA targets in mESCs by integrative analysis EMBO Rep, Epub ahead of print
Pubmed - F. Halloy, P. Brönnimann, J. Hall and D. Schümperli (2022) Analysis of Oligonucleotide Biodistribution and Metabolization in Experimental Animals Methods Mol Biol, 2537, 335-350
Pubmed - A.B. Eberle and O. Mühlemann (2022) Tethered Function Assays to Elucidate the Role of RNA-Binding Proteins Methods Mol Biol, 2537, 285-306
Pubmed - E. Piskadlo, B.Th. Eichenberger, L. Giorgetti and J.A. Chao (2022) Design, Labeling, and Application of Probes for RNA smFISH Methods Mol Biol, 2537, 173-183
Pubmed - S. Campagne, T. de Vries and F.H-T Allain (2022) Probing the Interactions of Splicing Regulatory Small Molecules and Proteins with U1 snRNP Using NMR Spectroscopy Methods Mol Biol, 2537, 247-262
Pubmed - H. Vatandaslar (2022) A Systematic Study on the Optimal Nucleotide Analogue Concentration and Rate Limiting Nucleotide of the SARS-CoV-2 RNA-Dependent RNA Polymerase Int J Mol Sci, 23(15), 8302
Link to Article - Y. Brüggemann, A. Kratzel, L. Almeida, J.N. Kelly, V. Thiel and S. Pfaender (2022) Conserved requirement of autophagy-related effectors during coronavirus replication Autophagy, Epub ahead of print
Pubmed - A. Taddeo, I. Berenguer Veiga, C. Devisme, R. Boss, P. Plattet, S. Weigang, G. Kochs, V. Thiel, C. Benarafa and G. Zimmer (2022) Optimized intramuscular immunization with VSV-vectored spike protein triggers a superior immune response to SARS-CoV-2 NPJ Vaccines, 7(1), 82
Pubmed - P. Brandys, X. Montagutelli, I. Merenkova, G.T. Barut, V. Thiel, N.J. Schork, B. Trüeb, L. Conquet, A. Deng, A. Antanasijevic, H.-K. Lee, M. Valière, A. Sindhu, G. Singh and J. Herold (2022) A mRNA Vaccine Encoding for a RBD 60-mer Nanoparticle Elicits Neutralizing Antibodies and Protective Immunity Against the SARS-CoV-2 Delta Variant in Transgenic K18-hACE2 Mice Front Immunol, 13, 912898
Pubmed - R. Arora, M. Bodak, L. Penouty, C. Hackman, C.Ciaudo(2022) Sequestration of LINE-1 in cytosolic aggregates by MOV10 restricts retrotransposition EMBO reports, Epub ahead of print
Pubmed - M. Blandino-Rosano, J. O. Scheys, J. P. Werneck-de-Castro, R. A. Louzada, J. Almaca, G. Leibowitz, M. A. Rüegg, M. N. Hall, E. Bernal-Mizrachi (2022) Novel roles of mTORC2 in regulation of insulin secretion by actin filament remodeling Am J Physiol Endocrinol Metab, Epub ahead of print
Pubmed - M. Buehler, X. Yi, W. Ge, P. Blattmann, E. Rushing, G. Reifenberger, J. Felsberg, C. Yeh, J.E. Corn, L. Regli, J. Zhang, A. Cloos, V.M. Ravi, B. Wiestler, D.H. Heiland, R. Aebersold, M. Weller, T. Guo and T. Weiss (2022) Quantitative proteomic landscapes of primary and recurrent glioblastoma reveal a protumorigeneic role for FBXO2-dependent glioma-microenvironment interactions Neuro Oncol, Epub ahead of print
Pubmed - E.D. Karousis and O. Mühlemann (2022) The broader sense of nonsense Trends Biochem Sci, Epub ahead of print
Pubmed - B. Hurwitz, N. Guzzi, A. Gola, V.F. Fiore, A. Sendoel, M. Nikolova, D. Barrows, T.S. Carroll, H.A. Pasolli and E. Fuchs (2022) The integrated stress response remodels the microtubule organizing center to clear unfolded proteins following proteotoxic stress eLife, 11, e77780
Pubmed - K.A. Tolmachova, J. Farnung, J.R. Liang, J.E. Corn and J.W. Bode (2022) Facile Preparation of UFMylation Activity-Based Probes by Chemoselective Installation of Electrophiles at the C-Terminus of Recombinant UFM1 ACS Cent Sci, 8(6), 756-762
Pubmed - M. Blandino-Rosano, J.O. Scheys, J.P. Werneck-de-Castro, R.A. Louzada, J. Almaca, G. Leibowitz, M.A. Ruegg, M.N. Hall and E. Bernal-Mizrachi (2022) Novel roles of mTORC2 in regulation of insulin secretion by actin filament remodeling Am J Physiol Endocrinol Metab, Epub ahead
Pubmed - M. Gultom, A. Kratzel, J. Portmann, H. Stalder, A. Chanfon Bätzner, H. Gantenbein, C. Gurtner, N. Ebert, H.H. Gad, R. Hartmann, H. Posthaus, P. Zanolari, S. Pfaender, V. Thiel and R. Dijkman (2022) Establishment of well-differentiated camelid airway cultures to study Middle East respiratory syndrome coronavirus Sci Rep, 12(1), 10340
Pubmed - B. Schimanski, S. Aeschlimann, P. Stettler, S. Käser, M. Gomez-Fabra Gala, J. Bender, B. Warscheid, F.-N. Vögtle and A. Schneider (2022) p166 links membrane and intramitochondrial modules of the trypanosomal tripartite attachment complex PLoS Pathog, 18(6), e1010207
Pubmed - G. Glousker, R. Valador Fernandes, M. Feretzaki and J. Lingner (2022) Detection of TERRA R-Loops at Human Telomeres Methods Mol Biol, 2528, 159-171
Pubmed - M. Domanski, E. Dedic, M. Escura Pérez, A. Cléry, S. Campagne, A.-C. Uldry, S. Braga, M. Heller, J. Rabl, P. Afanasyev, D. Boehringer, J. Novácek, F.H.T Allain and O. Mühlemann (2022) 40S hnRNP particles are a novel class of nuclear biomolecular condensates Nucleic Acids Res, Epub ahead of print
Pubmed - S. Bechara, L. Kabbani, X. Maurer Alcala and M. Nowacki (2022) Identification of novel, functional long non-coding RNAs involved in programmed, large scale genome rearrangements RNA, Epub ahead of print
Pubmed - J. Hall, A. Ashkinadze, J. P. Becker, A. Laski, E.-M. Manz, Š. Moravcík, S. Sjöström and M. Vincent (2022) Medicinal Chemistry of Oligonucleotide Drugs - Milestones of the Past and Visions for the Future Chimia, 76, 466
Link to Article - S. Gallo, E. Kong, I. Ferro and N. Polacek (2022) Small but Powerful: The Human Vault RNAs as Multifaceted Modulators of Pro-Survival Characteristics and Tumorigenesis Cancers, 14(11), 2787
Pubmed - K. Stojanovski, Helge Grosshans & B.D. Towbin (2022) Coupling of growth rate and developmental tempo reduces body size heterogeneity in C. elegans Nat Commun, 13(1), 3132
Pubmed - L. Subissi, A. von Gottberg, L. Thukral, N. Worp, B.B. Oude Munnink, S. Rathore, L.J. Abu-Raddad, X. Aguilera, E. Alm, B.N. Archer, H.A. Cohen, A. Barakat, W.S. Barclay, J.N. Bhiman, L. Caly, M. Chand, M. Chen, A. Cullinane, T. de Oliveira, C. Drosten, J. Druce, P. Effler, I. El Masry, A. Faye, S. Gaseitsiwe, E. Ghedin, R. Grant, B.L. Haagmans, B.L. Herring, S.S. Iyer, Z. Kassamali, M. Kakkar, R.J. Kondor, J.A. Leite, Y.-S. Leo, G.M. Leung, M. Marklewitz, S. Moyo, J. Mendez-Rico, N.M. Melhem, V. Munster, K. Nahapetyan, D.-Y. Oh, B.I. Pavlin, T.P. Peacock, M. Peiris, Z. Peng, L.L.M. Poon, A. Rambaut, J. Sacks, Y. Shen, M.M. Siqueira, S.K. Tessema, E.M. Volz, V. Thiel, S. van der Werf, S. Briand, M.D. Perkins, M.D. Van Kerkhove, M.P.G. Koopmans and A. Agrawal (2022) An early warning system for emerging SARS-CoV-2 variants Nat Med, 28(6), 1110-1115
Pubmed - W. Magis, M. A DeWitt, S.K. Wyman, J.T. Vu, S.-J. Heo, S.J. Shao, F. Hennig, Z.G. Romero, B. Campo-Fernandez, S. Said, M.S. McNeill, G.R. Rettig, Y. Sun, Y. Wang, M.A. Behlke, D.B. Kohn, D. Boffelli, M.C. Walters, J.E. Corn and D.I.K. Martin (2022) High-level correction of the sickle mutation is amplified in vivo during erythroid differentiation iScience, 25(6), 104374
Pubmed - C.E. Dewar, S. Oeljeklaus, J. Mani, W.W.D. Mühlhäuser, C. von Känel, J. Zimmermann, T. Ochsenreiter, B. Warscheid and A. Schneider (2022) Mistargeting of aggregation prone mitochondrial proteins activates a nucleus-mediated posttranscriptional quality control pathway in trypanosomes Nat Commun, 13(1), 3084
Pubmed - C. Arnan, S. Ullrich, C. Pulido-Quetglas, R. Nurtdinov, A. Esteban, J. Blanco-Fernandez, E. Aparicio-Prat, R. Johnson, S. Pérez-Lluch and R. Guigó (2022) Paired guide RNA CRISPR-Cas9 screening for protein-coding genes and lncRNAs involved in transdifferentiation of human B-cells to macrophages BMC Genomics, 23(1), 402
Pubmed - A. Wirth, A. Goetschi, U. Held, A. Sendoel, M. Stuessi-Helbling and L.C. Huber (2022) External Validation of the Modified 4C Deterioration Model and 4C Mortality Score for COVID-19 Patients in a Swiss Tertiary Hospital Diagnostics (Basel) 12(5), 1129
Pubmed - J. Rose, F. Suter, E. Furrer, A. Sendoel, M. Stüssi-Helbling and L.C. Huber (2022) Neutrophile-to-Lymphocyte Ratio (NLR) Identifies Patients with Coronavirus Infectious Disease 2019 (COVID-19) at High Risk for Deterioration and Mortality-A Retrospective, Monocentric Cohort Study Diagnostics (Basel) 12(5), 1109
Pubmed - G. Katsioudi, A. Osorio-Forero, F. Sinturel, C. Hagedorn, F. Kreppel, U. Schibler and D. Gatfield (2022) Recording of Diurnal Gene Expression in Peripheral Organs of Mice Using the RT-Biolumicorder Methods Mol Biol, 2482, 217-242
Pubmed - C. Pulido-Quetglas and R. Johnson (2022) Designing libraries for pooled CRISPR functional screens of long noncoding RNAs Mamm Genom, 33(2), 312-32
Pubmed - R. Dijkman, A.K. Verma, M. Selvaraj, R. Ghimire, H.H. Gad, R. Hartmann, S. More, S. Perlman, V. Thiel and R. Channappanavar (2022) Effective Interferon Lambda Treatment Regimen To Control Lethal MERS-CoV Infection in Mice J Virol, 96(11), e0036422
Pubmed - E. Pignatti, E. Murat Altinkilic, Konstantin Bräutigam, M. Grössl, A. Perren, M. Zavolan and C.E. Flück (2022) Cholesterol deprivation drives DHEA biosynthesis in human adrenals Endocrinology, 163(7), bqac076
Pubmed - T.J. Böddeker, K.A. Rosowski, D. Berchtold, L. Emmanouilidis, Y. Han, F.H.T. Allain, R.W. Style, L. Pelkmans and E.R. Dufresne (2022) Non-specific adhesive forces between filaments and membraneless organelles Nat Phys, 18(5), 571-578
Pubmed - U. Zinnall, M. Milek, I. Minia, C.H. Vieira-Vieira, S. Müller, G. Mastrobuoni, O.-G. Hazapis, S. Del Giudice, D. Schwefel, N. Bley, F. Voigt, J.A. Chao, S. Kempa, S. Hüttelmaier, M. Selbach and Markus Landthaler (2022) HDLBP binds ER-targeted mRNAs by multivalent interactions to promote protein synthesis of transmembrane and secreted proteins Nat Commun, 13(1), 2727
Pubmed - A. Knörlein, C.P. Sarnowski, T. de Vries, M. Stoltz, M. Götze, R. Aebersold, F.H.-T. Allain, A. Leitner and J. Hall (2022) Nucleotide-amino acid Pi-stacking interactions initiate photo cross-linking in RNA-protein complexes, Nat Commun, 13(1), 2719
Pubmed - S. Battaglioni, D. Benjamin, M. Wälchli, T. Maier and M.N. Hall (2022) mTOR substrate phosphorylation in growth control Cell, 185(11), 1814-1836
Pubmed - V.I. Wiersma, R. Rigort and M. Polymenidou (2022) Tau: a phase in the crowd EMBO J, 41(11), e111425
Pubmed - J.R. Liang and J. Corn (2022) A CRISPR view on autophagy Trends Cell Biol, Epub ahead of print
Pubmed - M. Wyss, V. Gradauskaite, N. Ebert, V. Thiel, A. Zurbriggen and P. Plattet (2022) Efficient Recovery of Attenuated Canine Distemper Virus from cDNA Virus Res, 316, 198796
Pubmed - C.K.Y. Ng, E. Dazert, T. Boldanova, M. Coto-Llerena, S. Nuciforo, C. Ercan, A. Suslov, M.-A. Meier, T. Bock, A. Schmidt, S. Ketterer, X. Wang, S. Wieland, M.S. Matter, M. Colombi, S. Piscuoglio, L.M. Terracciano, M.N. Hall and M.H. Heim (2022) Integrative proteogenomic characterization of hepatocellular carcinoma across etiologies and stages Nat Commun 13(1), 2436
Pubmed - S. De and O. Mühlemann (2022) A comprehensive coverage insurance for cells: revealing links between ribosome collisions, stress responses and mRNA surveillance RNA Biol, 19(1), 609-621
Pubmed - A. Iyer, M. Niemann, M. Serricchio, C.E. Dewar, S. Oeljeklaus, L. Farine, B. Warscheid, A. Schneider and P. Bütikofer (2022)The endoplasmic reticulum membrane protein complex localizes to the mitochondrial - endoplasmic reticulum interface and its subunits modulate phospholipid biosynthesis in Trypanosoma brucei PLos Pathog, 18(5), e1009717
Pubmed - M. Müller, M. Schaefer, T. Fäh, D. Spies, V. Hermes, R.P. Ngondo, R. Peña-Hernández, R. Santoro and C. Ciaudo (2022) Argonaute proteins regulate a specific network of genes through KLF4 in mouse embryonic stem cells Stem Cell Reports, 17(5), 1070-1080
Pubmed - M. Hersch, A. Biasini, A.C. Marques and S. Bergmann (2022) Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic labeling experiment BMC Bioinformatics, 23(1), 147
Pubmed - D.J. Ham, A. Börsch, K. Chojnowska, S. Lin, A.B. Leuchtman, A.S. Ham, M. Thürkauf, J. Delezie, R. Furrer, D. Burri, M. Sinnreich, C. Handschin, L.A. Tintignac, M. Zavolan, N. Mittal and M.A. Rüegg (2022) Distinct and additive effects of calorie restriction and rapamycin in aging skeletal muscle Nat Commun, 13(1), 2025
Pubmed - N.G. Heath, H. O'Geen, N.B. Halmai, J.E. Corn and D.J. Segal (2022) Imaging Unique DNA Sequences in Individual Cells Using a CRISPR-Cas9-Based, Split Luciferase Biosensor Front Genome Ed, 4, 867390
Pubmed - C.P. Sarnowski, M. Bikaki and A. Leitner (2022) Cross-linking and mass spectrometry as a tool for studying the structural biology of ribonucleoproteins Structure, 30(4), 441-461
Pubmed - A. Schneider (2022) Evolution and diversification of mitochondrial protein import systems Curr Opin Cell Biol, 75, 102077
Pubmed - V. Pecoraro, A. Rosina and N. Polacek (2022) Ribosome-Associated ncRNAs (rancRNAs) Adjust Translation and Shape Proteome, Noncoding RNA, 8(2), 22
Pubmed - L. Li, K. Krasnykov, D. Homolka, P. Gos, M. Mendel, R.J. Fish, R.R. Pandey and R.S. Pillai (2022) The XRN1-regulated RNA helicase activity of YTHDC2 ensures mouse fertility independently of m6A recognition Mol Cell, 82(9), 1678-1690.e12
Pubmed - C.E. Dewar, S. Oeljeklaus, C. Wenger, B. Warscheid and A. Schneider (2022) Characterisation of a highly diverged mitochondrial ATP synthase F o subunit in Trypanosoma brucei J Biol Chem, 298(4), 101829
Pubmed - L.H.H. Aung, P. Li, C. Perez-Cruz, N. Polacek and M.J.E. Resendiz (2022) Editorial: Oxidative Damage of RNA: Structure, Function, and Biological Implications - From Nucleotides to Short and Long RNAs in Chemistry and Biology Front Mol Biosci, 9, 853725
Pubmed - M. Müller, T. Fäh, M. Schaefer, V. Hermes, J. Luitz, P. Stalder, R. Arora, R.P. Ngondo and C. Ciaudo (2022) AGO1 regulates pericentromeric regions in mouse embryonic stem cells Life Sci Alliance, 5(6), e202101277
Pubmed - S. Ghosh, M. Ataman, M. Bak, A. Börsch, A. Schmidt, K. Buczak, G. Martin, B. Dimitriades, C. J Herrmann, A. Kanitz and M. Zavolan (2022) CFIm-mediated alternative polyadenylation remodels cellular signaling and miRNA biogenesis Nucleic Acids Res, 50(6), 3096-3114
Pubmed - A. Goga and M. Stoffel (2022) Therapeutic RNA-silencing oligonucleotides in metabolic diseases Nat Rev Drug Discov, 21(6), 417-439
Pubmed - A. Jomaa, M. Gamerdinger, H.-H. Hsieh, A. Wallisch, V. Chandrasekaran, Z. Ulusoy, A. Scaiola, R.S. Hegde, S.-O. Shan, N. Ban and E. Deuerling (2022) Mechanism of signal sequence handover from NAC to SRP on ribosomes during ER-protein targeting Science, 375 (6583), 839-844
Pubmed - L. Streese, P. Demougin, P. Iborra, A. Kanitz, A. Deiseroth, J.M. Kröpfl, A. Schmidt-Trucksäss, M. Zavolan and H. Hanssen (2022) Untargeted sequencing of circulating microRNAs in a healthy and diseased older population Sci Rep, 12 (1), 2991
Pubmed - I. Rzeszutek, E.C. Swart, S. Pabian-Jewula, A. Russo and M. Nowacki (2022) Early developmental, meiosis-specific proteins - Spo11, Msh4-1, and Msh5 - Affect subsequent genome reorganization in Paramecium tetraurelia Biochim Biophys Acta Mol Cell Res, 1869(6), 119239
Pubmed - Y. Gonskikh, V. Pecoraro and N. Polacek (2022) Mammalian In Vitro Translation Systems Methods Mol Biol, 2428, 101-111
Pubmed - S. Sahadevan, M. Pérez-Berlanga and M. Polymenidou (2022) Identification of RNA-RBP Interactions in Subcellular Compartments by CLIP-Seq Methods Mol Biol, 2428, 305-323
Pubmed - G.G. Rossetti, M.A. Ossorio, S. Rempel, A. Kratzel, V.S. Dionellis, S. Barriot, L. Tropia, C. Gorgulla, H. Arthanari, V. Thiel, P. Mohr, R. Gamboni and T. D. Halazonetis (2022) Non-covalent SARS-CoV-2 M pro inhibitors developed from in silico screen hits Sci Rep, 12(1), 2505
Pubmed - K. Dörner, L. Badertscher, B. Horváth, R. Hollandi, C. Molnár, T. Fuhrer, R. Meier, M. Sárazová, J. van den Heuvel, N. Zamboni, P. Horvath and U. Kutay (2022) Genome-wide RNAi screen identifies novel players in human 60S subunit biogenesis including key enzymes of polyamine metabolism Nucleic Acids Res, 50(5), 2872-2888
Pubmed - N.S. Ravi, B. Wienert, S.K. Wyman, H.W. Bell, A. George, G. Mahalingam, J.T. Vu, K. Prasad, B.P. Bandlamudi, N. Devaraju, V. Rajendiran, N. Syedbasha, A.A. Pai, Y. Nakamura, R. Kurita, M. Narayanasamy, P. Balasubramanian, S. Thangavel, S. Marepally, S.R. Velayudhan, A. Srivastava, M.A. DeWitt, M. Crossley, J.E. Corn and K.M. Mohankumar (2022) Identification of novel HPFH-like mutations by CRISPR base editing that elevate the expression of fetal hemoglobin Elife, 11, e65421
Pubmed - A.J. Hume, B. Heiden, J. Olejnik, E.L. Suder, S. Ross, W.A. Scoon, E. Bullitt, M. Ericsson, M.R. White, J. Turcinovic, T.T.N. Thao, R.M. Hekman, J.E. Kaserman, J. Huang, K.-D. Alysandratos, G.E. Toth, F. Jakab, D.N. Kotton, A.A. Wilson, A. Emili, V. Thiel, J.H. Connor, G. Kemenesi, D. Cifuentes and E. Mühlberger (2021) Recombinant Lloviu virus as a tool to study viral replication and host responses PLoS Pathogen, 18(2), e1010268
Pubmed - T. de Vries, W. Martelly, S. Campagne, K. Sabath, C.P. Sarnowski, J. Wong, A. Leitner, S. Jonas, S. Sharma and F. H.-T. Allain (2022) Sequence-specific RNA recognition by an RGG motif connects U1 and U2 snRNP for spliceosome assembly Proc Natl Acad Sci U S A, 119(6), e2114092119
Pubmed - R. Pan, E. Kindler, L. Cao, Y. Zhou, Z. Zhang, Q. Liu, N. Ebert, R. Züst, Y. Sun, A.E. Gorbalenya, S. Perlman, V. Thiel, Y. Chen and D. Guo (2022) N7-Methylation of the Coronavirus RNA Cap Is Required for Maximal Virulence by Preventing Innate Immune Recognition mBio, 13(1), e0366221
Pubmed - T. Lenarcic, M. Niemann, D.J.F. Ramrath, S. Calderaro, T. Flügel, M. Saurer, M. Leibundgut, D. Boehringer, C. Prange, E.K. Horn, A. Schneider and N. Ban (2022) Mitoribosomal small subunit maturation involves formation of initiation-like complexes Proc Natl Acad Sci U S A, 119(3), e2114710118
Pubmed - J.Y. Tan and A.C. Marques (2022)The activity of human enhancers is modulated by the splicing of their associated lncRNAs PLoS Comput Biol, 18(1), e1009722.
Pubmed - G. Grigolon, E. Araldi, R. Erni, J.Y. Wu, C. Thomas, M. La Fortezza, B. Laube, D. Pöhlmann, M. Stoffel, K. Zarse, E.M. Carreira, M. Ristow and F. Fischer (2022) Grainyhead 1 acts as a drug-inducible conserved transcriptional regulator linked to insulin signaling and lifespan Nat Commun, 13(1), 107
Pubmed - L.-A. Gurzeler, J. Ziegelmüller, O. Mühlemann and E.D. Karousis (2022) Production of human translation-competent lysates using dual centrifugation RNA Biol, 19(1), 78-88
Pubmed - M. Fasnacht, S. Gallo, P. Sharma, M. Himmelstoß, P.A. Limbach, J. Willi and N. Polacek (2022) Dynamic 23S rRNA modification ho5C2501 benefits Escherichia coli under oxidative stress Nucleic Acids Res, 50(1), 473-489
Pubmed - A. Hill, D. van Leeuwen, V. Schlösser, A. Behera, B. Mateescu and J. Hall (2022) Chemically synthesized, self-assembling small interfering RNA-prohead RNA molecules trigger Dicer-independent gene silencing Chemistry, 28(8), e202103995
Pubmed - A.M. Jobbins, S. Campagne, R. Weinmeister, C.M. Lucas, A.R. Gosliga, A. Clery, L. Chen, L.P. Eperon, M.J. Hodson, A.J. Hudson, F.H.-T. Allain and I.C. Eperon (2022) Exon-independent recruitment of SRSF1 is mediated by U1 snRNP stem-loop 3 EMBO J, 41(1), e107640
Pubmed - W. Ge, A. Goga, Y. He, P.N. Silva, C.K. Hirt, K. Herrmanns, I. Guccini, S. Godbersen, G. Schwank and M. Stoffel (2022) miR-802 Suppress Acinar-to-Ductal Reprogramming during Early Pancreatitis and Pancreatic Carcinogenesis Gastroenterology, 162(1), 269-284
Pubmed - D. Mateju and J.A. Chao (2022) Stress granules: Regulators or by-products? FEBS J, 289(2), 363-373
Pubmed - L. Ulrich, N.J. Halwe, A. Taddeo, N. Ebert, J. Schön, C. Devisme, B.S. Trüeb, B. Hoffmann, M. Wider, X. Fan, M. Bekliz, M. Essaidi-Laziosi, M.L. Schmidt, D. Niemeyer, V.M. Corman, A. Kraft, A. Godel, L. Laloli, J.N. Kelly, B.M. Calderon, A. Breithaupt, C. Wylezich, I. Berenguer Veiga, M. Gultom, S. Osman, B. Zhou, K. Adea, B. Meyer, C. Eberhardt, L. Thomann, M. Gsell, F. Labroussaa, J. Jores, A. Summerfield, C. Drosten, I.A. Eckerle, D.E. Wentworth, R. Dijkman, D. Hoffmann, V. Thiel, M. Beer and C. Benarafa (2022) Enhanced fitness of SARS-CoV-2 variant of concern Alpha but not Beta Nature, 602 (7896), 307-313
Pubmed - C. Riepe, E. Zelin, P.A. Frankino, Z.A. Meacham, S. Fernandez, N.T. Ingolia and J.E. Corn (2021) Double stranded DNA breaks and genome editing trigger loss of ribosomal protein RPS27A FEBS J, 289(11), 3101-3114
Pubmed - I. Ferro, J. Gavini, S. Gallo, L. Bracher, M. Landolfo, D. Candinas, D.M. Stroka and N. Polacek (2021)The human vault RNA enhances tumorigenesis and chemoresistance through the lysosome in hepatocellular carcinoma Autophagy, 18(1), 191-203
Pubmed
2021 Publications
2021 Publications
- A. Börsch and M. Zavolan (2021) Transcription factor motif activity as a biomarker of muscle aging Am J Aging Sci Res, 2(1), 19-23
Pubmed - A. Kratzel, J.N. Kelly, P. V'kovski, J. Portmann, Y. Brüggemann, D. Todt, N. Ebert, N. Shrestha, P. Plattet, C.A. Staab-Weijnitz, A. von Brunn, E. Steinmann, R. Dijkman, G. Zimmer, S. Pfaender and V. Thiel (2021) A genome-wide CRISPR screen identifies interactors of the autophagy pathway as conserved coronavirus targets PLoS Biol, 19(12), e3001490
Pubmed - S. Hutten, S. Usluer, B. Bourgeois, F. Simonetti, H.M. Odeh, C.M. Fare, M. Czuppa, M. Hruska-Plochan, M. Hofweber, M. Polymenidou, J. Shorter, D. Edbauer, T. Madl, and D. Dormann (2021) Nuclear Import Receptors Directly Bind to Arginine-Rich Dipeptide Repeat Proteins and Suppress Their Pathological Interactions Cell Rep, 33(12), 108538
Pubmed - R. Liu, S.D. Kasowitz, D. Homolka, N.A. Leu, J.T. Shaked, G. Ruthel, D. Jain, H. Lin, S. Keeney, M. Luo, R.S. Pillai and P.J. Wang (2021) YTHDC2 is essential for pachytene progression and prevents aberrant microtubule-driven telomere clustering in male meiosis Cell Rep, 37(11), 110110
Pubmed - K. Tabata, V. Prasad, D. Paul, J.-Y. Lee, M.-T. Pham, W.-I. Twu, C.J. Neufeldt, M. Cortese, B. Cerikan, Y. Stahl, S. Joecks, C.S. Tran, C. Lüchtenborg, P. V'kovski, K. Hörmann, A.C. Müller, C. Zitzmann, U. Haselmann, J. Beneke, L. Kaderali, H. Erfle, V. Thiel, V. Lohmann, G. Superti-Furga, B. Brügger and R. Bartenschlager (2021) Convergent use of phosphatidic acid for hepatitis C virus and SARS-CoV-2 replication organelle formation Nat Commun, 12(1), 7276
Pubmed - A. Duchon, S. Santos, J. Chen, M. Brown, O.A. Nikolaitchik, S. Tai, J.A. Chao, E.O. Freed, V.K. Pathak and W.-S. Hu (2021) Plasma Membrane Anchoring and Gag:Gag Multimerization on Viral RNA Are Critical Properties of HIV-1 Gag Required To Mediate Efficient Genome Packaging mBio, 12(6), e0325421
Pubmed - A. Kroupova, F. Ackle, I. Asanovic, S. Weitzer, F.M. Boneberg, M. Faini, A. Leitner, A. Chui, R. Aebersold, J. Martinez and M. Jinek (2021) Molecular architecture of the human tRNA ligase complex Elife, 10, e71656
Pubmed - J. Trimpert, J.M. Adler, K. Eschke, A. Abdelgawad, T.C. Firsching, N. Ebert, T.T.N. Thao, A.D. Gruber, V. Thiel, N. Osterrieder and D. Kunec (2021) Live attenuated virus vaccine protects against SARS-CoV-2 variants of concern B.1.1.7 (Alpha) and B.1.351 (Beta) Sci Adv, 7(49), eabk0172
Pubmed - A.U. Müller, E. Kummer, C.M. Schilling, N. Ban and E. Weber-Ban (2021) Transcriptional control of mycobacterial DNA damage response by sigma adaptation Sci Adv, 7(49), eabl4064
Pubmed - N. Krauer, R. Rauscher and N. Polacek (2021) tRNA Synthetases Are Recruited to Yeast Ribosomes by rRNA Expansion Segment 7L but Do Not Require Association for Functionality Noncodig RNA, 7(4), 73
Pubmed - N.S. Ogando, P. El Kazzi, J.C. Zevenhoven-Dobbe, B.W. Bontes, A. Decombe, C.C. Posthuma, V. Thiel, B. Canard, F. Ferron, E. Decroly and E.J. Snijder (2021) Structure-function analysis of the nsp14 N7-guanine methyltransferase reveals an essential role in Betacoronavirus replication Proc Natl Acad Sci U S A, 118(49), e2108709118
Pubmed - I. Querques, M. Schmitz, S. Oberli, C. Chanez and M. Jinek (2021) Target site selection and remodelling by type V CRISPR-transposon systems Nature, 599(7885), 497-502
Pubmed - P. De Rossi, A.J. Lewis, J. Furrer, L. De Vos, T. Demeter, A. Zbinden, W. Zhong, V.I. Wiersma, C. Scialo, J. Weber, Z. Guo, S. Scaramuzza, M. Di Fabrizio, C. Böing, D. Castaño-Díez, A. Al-Amoudi, M. Pérez-Berlanga, T. Lashley, H. Stahlberg and M. Polymenidou (2021) FTLD-TDP assemblies seed neoaggregates with subtype-specific features via a prion-like cascade EMBO Rep, 22(12), e53877
Pubmed - H. Cui, A.U. Müller, M. Leibundgut, J. Tian, N. Ban and E. Weber-Ban (2021) Structures of prokaryotic ubiquitin-like protein Pup in complex with depupylase Dop reveal the mechanism of catalytic phosphate formation Nat Commun 12(1), 6635
Pubmed - W. Kang, B. Fromm, A.J. Houben, E. Høye, D. Bezdan, C. Arnan, K. Thrane, M. Asp, R. Johnson, I. Biryukova and M.R. Friedländer (2021) MapToCleave: High-throughput profiling of microRNA biogenesis in living cells Cell Rep, 37(7), 110015
Pubmed - D. Klose, A. Holla, C. Gmeiner, D. Nettels, I. Ritsch, N. Bross, M. Yulikov, F.H.-T. Allain, B. Schuler and G. Jeschke (2021) Resolving distance variations by single-molecule FRET and EPR spectroscopy using rotamer libraries Biophys J, 20(21), 4842-4858
Pubmed - J. Cable, E. Heard, T. Hirose, K.V. Prasanth, L.-L. Chen, J.E. Henninger, S.A. Quinodoz, D.L. Spector, S.D. Diermeier, A.M. Porman, D. Kumar, M.W. Feinberg, X. Shen, J.P. Unfried, R. Johnson, C.-K. Chen, J.E. Wilusz, A. Lempradl, S.E. McGeary, L. Wahba, A.M. Pyle, A.E. Hargrove, M.D. Simon, M. Marcia, R.K. Przanowska, H.Y. Chang, S.R. Jaffrey, L. M. Contreras, Q. Chen, J. Shi, J.T. Mendell, L. He, E. Song, J.L. Rinn, M.K. Lalwani, M.C. Kalem, E.B. Chuong, L.E. Maquat and X. Liu (2021) Noncoding RNAs: biology and applications-a Keystone Symposia report Ann N Y Acad Sci, 1506(1), 118-141
Pubmed - C.-Y.G. Lin, A.C.Näger, T. Lunardi, A. Vancevska, G. Lossaint and J. Lingner (2021)The human telomeric proteome during telomere replication Nucleic Acids Res, 49(21), 12119-12135
Pubmed - A. Fahmi, M. Brügger, T. Démoulins, B. Zumkehr, B.I. Oliveira Esteves, L. Bracher, C. Wotzkow, F. Blank, V. Thiel, D. Baud and M.P. Alves (2021) SARS-CoV-2 can infect and propagate in human placenta explants Cell Rep Med, 2(12), 100456
Pubmed - S.P. Methot, J. Padeken, G. Brancati, P. Zeller, C.E. Delaney, D. Gaidatzis, H. Kohler, A. van Oudenaarden, H. Grosshans and S.M. Gasser (2021) H3K9me selectively blocks transcription factor activity and ensures differentiated tissue integrity Nat Cell Biol, 23(11), 1163-1175
Pubmed - G. Holzer, P. De Magistris, C. Gramminger, R. Sachdev, A. Magalska, A. Schooley, A. Scheufen, B. Lennartz, M. Tatarek-Nossol, H. Lue, M.I. Linder, U. Kutay, C. Preisinger, D. Moreno-Andres and W. Antonin (2021) The nucleoporin Nup50 activates the Ran guanine nucleotide exchange factor RCC1 to promote NPC assembly at the end of mitosis EMBO J, 40(23), e108788
Pubmed - M. Götze, C.P. Sarnowski, T. de Vries, A. Knörlein, F.H.-T. Allain, J. Hall, R. Aebersold and A. Leitner (2021) Single Nucleotide Resolution RNA-Protein Cross-Linking Mass Spectrometry: A Simple Extension of the CLIR-MS Workflow Analytical Chemistry, 93(44), 14626-14634
Pubmed - J.A. Ruland, A.M. Krüger, K. Dörner, R. Bhatia, S. Wirths, D. Poetes, U. Kutay, J.P. Siebrasse and U. Kubitscheck (2021) Nuclear export of the pre-60S ribosomal subunit through single nuclear pores observed in real time Nat Commun 12(1), 6211
Pubmed - V.I. Wiersma and M. Polymenidou (2021) Sharing is caring: The benefits of distributing protein aggregates among microglial networks Neuron, 109(20), 3228-3230
Pubmed - I. Ricardo-Lax, J.M. Luna, T.T.N. Thao, J. Le Pen, Y. Yu, H.-H. Hoffmann, W.M. Schneider, B.S. Razooky, J. Fernandez-Martinez, F. Schmidt, Y. Weisblum, B.S. Trüeb, I. Berenguer Veiga, K. Schmied, N. Ebert, E. Michailidis, A. Peace, F.J. Sánchez-Rivera, S.W. Lowe, M.P. Rout, T. Hatziioannou, P.D. Bieniasz, J.T. Poirier, M.R. MacDonald, V. Thiel and C.M. Rice (2021) Replication and single-cycle delivery of SARS-CoV-2 replicons Science, 374(6571), 1099-1106
Pubmed - K. Makasheva, L.C. Bryan, C. Anders, S. Panikulam, M. Jinek and B. Fierz (2021) Multiplexed Single-Molecule Experiments Reveal Nucleosome Invasion Dynamics of the Cas9 Genome Editor J Am Chem Soc, 143(40), 16313-16319
Pubmed - A. Rosa, C. Ciaudo, P. Sumazin and F. Fazi (2021) Editorial: The RNA Revolution in Embryonic Development and Cell Differentiation in Health and Disease Front Cell Dev Biol, 9, 715341
Pubmed - C. Fenwick, P. Turelli, L. Perez, C. Pellaton, L. Esteves-Leuenberger, A. Farina, J. Campos, E. Lana, F. Fiscalini, C. Raclot, F. Pojer, K. Lau, D. Demurtas, M. Descatoire, V.S. Joo, M. Foglierini, A. Noto, R. Abdelnabi, C.S. Foo, L. Vangeel, J. Neyts, W. Du, B.-J. Bosch, G. Veldman, P. Leyssen, V. Thiel, R. LeGrand, Y. Lévy, D. Trono and G. Pantaleo (2021) A highly potent antibody effective against SARS-CoV-2 variants of concern Cell Rep, 37(2), 109814
Pubmed - F. Gruhl, P. Janich, H. Kaessmann and D. Gatfield (2021) Circular RNA repertoires are associated with evolutionarily young transposable elements eLife, 10, e67991
Pubmed - D. Burri and M. Zavolan (2021) Shortening of 3' UTRs in most cell types composing tumor tissues implicates alternative polyadenylation in protein metabolism RNA, 27(12), 1459-1470
Pubmed - T. Hagen, A. Laski, A. Brümmer, A. Pruška, V. Schlösser, A. Cléry, F.H.-T. Allain, R. Zenobi, S. Bergmann and J. Hall (2021) Inosine Substitutions in RNA Activate Latent G-Quadruplexes J Am Chem Soc, 143(37), 15120-15130
Pubmed - Y. Kim, C. Eggers, E. Shvetsova, L. Kleemann, O. Sin and S.A. Leidel (2021) Analysis of codon-specific translation by ribosome profiling Methods Enzymol 658, 191-223
Pubmed - M. Wälchli, K. Berneiser, F. Mangia, S. Imseng, L.-M. Craigie, E. Stuttfeld, M.N. Hall and T. Maier (2021) Regulation of human mTOR complexes by DEPTOR eLife 10, e70871
Pubmed - Q. Liu, W. Ge, T. Wang, J. Lan, S. Martínez-Jarquín, C. Wolfrum, M. Stoffel and R. Zenobi (2021) High-throughput Single-cell Mass Spectrometry Reveals Abnormal Lipid Metabolism in Pancreatic Ductal Adenocarcinoma Angew Chem Int Ed Engl, 60(46), 24534-24542
Pubmed - J. Mitchel and J.A. Chao (2021) Single-molecule mRNA and translation imaging in neurons Biochem Soc Trans, 49(5), 2221-2227
Pubmed - S. Schroeder, C. Mache, H. Kleine-Weber, V.M. Corman, D. Muth, A. Richter, D. Fatykhova, Z.A. Memish, M.L. Stanifer, S. Boulant, M. Gultom, R. Dijkman, S. Eggeling, A. Hocke, S. Hippenstiel, V. Thiel, S. Pöhlmann, T Wolff, M.A. Müller and C. Drosten (2021) Functional comparison of MERS-coronavirus lineages reveals increased replicative fitness of the recombinant lineage 5 Nat Commun, 12(1), 5324
Pubmed - P.D. Donohoue, M. Pacesa, E. Lau, B. Vidal, M.J. Irby, D.B. Nyer, T. Rotstein, L. Banh, M.S. Toh, J. Gibson, B. Kohrs, K. Baek, A.L.G. Owen, E.M. Slorach, M. van Overbeek, C.K. Fuller, A.P. May, M. Jinek and P. Cameron (2021) Conformational control of Cas9 by CRISPR hybrid RNA-DNA guides mitigates off-target activity in T cells Mol Cell, 81(17), 3637-3649.e5
Pubmed - C. Wenger and A. Schneider (2021) Minimal peptide length required to span the mitochondrial protein translocases in Trypanosoma brucei Mol Biochem Parasitol, 244, 111393
Pubmed - G. Glousker and J. Lingner (2021) Challenging endings: How telomeres prevent fragility Bioessays, 43(10), e2100157
Pubmed - R. Valador Fernandes, M. Feretzaki and J. Lingner (2021) The makings of TERRA R-loops at chromosome ends Cell Cycle, 20(18), 1745-1759
Pubmed - C. Harvey, S. Klassa, E. Finol, J. Hall and A. Hill (2021) Chimeric flaviviral RNA-siRNA molecules resist degradation by the exoribonuclease Xrn1 and trigger gene silencing in mammalian cells, Chembiochem, 22(21), 3099-3106
Pubmed - P. Sharma, J. Wu, B.S. Nilges and S.A. Leidel (2021) Humans and other commonly used model organisms are resistant to cycloheximide-mediated biases in ribosome profiling experiments Nat Commun, 12(1), 5094
Pubmed - S. Velagapudi, L. Rohrer, F. Poti, R. Feuerborn, D. Perisa, D. Wang, G. Panteloglou, A. Potapenko, M. Yalcinkaya, A.J. Hülsmeier, B. Hesse, A. Lukasz, M. Liu, J.S. Parks, C. Christoffersen, M. Stoffel, M. Simoni, J.-R. Nofer and A. von Eckardstein (2021) Apolipoprotein M and Sphingosine-1-Phosphate Receptor 1 Promote the Transendothelial Transport of High-Density Lipoprotein Arterioscler Thromb Vasc Biol, 41(10), e468-e479
Pubmed - E.D. Karousis, F. Gypas, M. Zavolan and O. Mühlemann (2021) Nanopore sequencing reveals endogenous NMD-targeted isoforms in human cells Genome Biol, 22(1), 223
Pubmed - B.T. Eichenberger, Y. Zhan, M. Rempfler, L. Giorgetti and J.A. Chao (2021) deepBlink: threshold-independent detection and localization of diffraction-limited spots. Nucleic Acids Res, 49(13), 7292-7297
Pubmed - L. Emmanouilidis, L. Esteban-Hofer, G. Jeschke and F.H. Allain (2021) Structural biology of RNA-binding proteins in the context of phase separation: What NMR and EPR can bring? Curr Opin Struct Biol, 70, 132-138
Pubmed - F. Halloy, A.C. Hill and J. Hall (2021) Efficient synthesis of 2'-O-methoxyethyl oligonucleotide - cationic peptide conjugates ChemMedChem, 16(22), 3391-3395
Pubmed - C. Dimitrakopoulos, S.K. Hindupur, M. Colombi, D. Liko, C.K.Y. Ng, S. Piscuoglio, J. Behr, A.L. Moore, J. Singer, H.-J. Ruscheweyh, M.S. Matter, D. Mossmann, L.M. Terracciano, M.N. Hall and N. Beerenwinkel (2021) Multi-omics data integration reveals novel drug targets in hepatocellular carcinoma BMC Genomics, 22(1), 592
Pubmed - C. Teufel, E. Horvath, A. Peter, C. Ercan, S. Piscuoglio, M.N. Hall, D. Finke and F.M. Lehmann (2021) mTOR signaling mediates ILC3-driven immunopathology Mucosal Immunol, 14(6), 1323-1334
Pubmed - J. van den Heuvel, C. Ashiono, L.C. Gillet, K. Dörner, E. Wyler, I. Zemp and U. Kutay (2021) Processing of the ribosomal ubiquitin-like fusion protein FUBI-eS30/FAU is required for 40S maturation and depends on USP36 Elife, 10:e70560
Pubmed - A. Vancura, A. Lanzós, N. Bosch-Guiteras, M. Torres Esteban, A.H. Gutierrez, S.Haefliger and R. Johnson (2021) Cancer LncRNA Census 2 (CLC2): an enhanced resource reveals clinical features of cancer lncRNAs NAR Cancer, 3(2):zcab013
Pubmed - J. Trimpert, K. Dietert, T.C Firsching, N. Ebert, T.T.N. Thao, D. Vladimirova, S. Kaufer, F. Labroussaa, A. Abdelgawad, A. Conradie, T. Höfler, J.M. Adler, L.D. Bertzbach, J. Jores, A.D. Gruber, V. Thiel, N. Osterrieder and D. Kunec (2021) Development of safe and highly protective live-attenuated SARS-CoV-2 vaccine candidates by genome recoding Cell Rep, 36(5):109493
Pubmed - M. Emmenegger, E. De Cecco, M. Hruska-Plochan, T. Eninger, M.M. Schneider, M. Barth, E. Tantardini, P. de Rossi, M. Bacioglu, R.G. Langston, A. Kaganovich, N. Bengoa-Vergniory, A. Gonzalez-Guerra, M. Avar, D. Heinzer, R. Reimann, L.M. Häsler, T.W. Herling, N.S. Matharu, N. Landeck, K. Luk, R. Melki, P.J. Kahle, S. Hornemann, T.P.J. Knowles, M.R. Cookson, M. Polymenidou, M. Jucker and A. Aguzzi (2021) LAG3 is not expressed in human and murine neurons and does not modulate a-synucleinopathies EMBO Mol Med, 13(9), e14745
Pubmed - U. Kutay, R. Jühlen and W. Antonin (2021) Mitotic disassembly and reassembly of nuclear pore complexes Trends Cell Biol, 31(12), 1019-1033
Pubmed - J. Nörpel, S. Cavadini, A.D. Schenk, A. Graff-Meyer, D. Hess, J. Seebacher, J.A. Chao and V. Bhaskar (2021) Structure of the human C9orf72-SMCR8 complex reveals a multivalent protein interaction architecture PLoS Biol, 19(7):e3001344
Pubmed - R. Gao, D. Buechel, R.K.R. Kalathur, M.F. Morini, M. Coto-Llerena, C. Ercan, S. Piscuoglio, Q. Chen, T. Blumer, X. Wang, E. Dazert, M.H. Heim, M.N. Hall, F. Tang and G. Christofori (2021) USP29-mediated HIF1a stabilization is associated with Sorafenib resistance of hepatocellular carcinoma cells by upregulating glycolysis Oncogenesis, 10(7), 52
Pubmed - M. Krepl, F.F. Damberger, C. von Schroetter, D. Theler, P. Pokorná, F.H.-T. Allain and J. Šponer (2021) Recognition of N6-Methyladenosine by the YTHDC1 YTH Domain Studied by Molecular Dynamics and NMR Spectroscopy: The Role of Hydration J Phys Chem B, 125(28):7691-7705
Pubmed - A. Jomaa, S. Eitzinger, Z. Zhu, S. Chandrasekar, K. Kobayashi, S.-O. Shan and N. Ban (2021) Molecular mechanism of cargo recognition and handover by the mammalian signal recognition particle Cell Rep, 36(2), 109350
Pubmed - S. Reber, D. Jutzi, H. Lindsay, A. Devoy, J. Mechtersheimer, B. Rocha Levone, M. Domanski, E. Bentmann, D. Dormann, O. Mühlemann, S.M.L. Barabino and M.-D. Ruepp (2021) The phase separation-dependent FUS interactome reveals nuclear and cytoplasmic function of liquid-liquid phase separation, Nucleic Acids Res, 49(13):7713-7731
Pubmed - Y. Park, J. Park, H.J. Hwang, L. Kim, K. Jeong, H.K. Song, S.C. Rufener, O. Mühlemann and Y.K. Kim (2021) Translation mediated by the nuclear cap-binding complex is confined to the perinuclear region via a CTIF-DDX19B interaction Nucleic Acids Res, 49(14), 8261-8276
Pubmed - N.F. Läubli, M.S. Gerlt, A. Wüthrich, R.T.M. Lewis, N. Shamsudhin, U. Kutay, D. Ahmed, J. Dual and B.J. Nelson (2021) Embedded Microbubbles for Acoustic Manipulation of Single Cells and Microfluidic Applications Anal Chem, 93(28), 9760-9770
Pubmed - M. Callon, A.A. Malär, S. Pfister, V. Rímal, M.E. Weber, T. Wiegand, J. Zehnder, M. Chávez, R. Cadalbert, R. Deb, A. Däpp, M.-L. Fogeron, A. Hunkeler, L. Lecoq, A. Torosyan, D. Zyla, R. Glockshuber, S. Jonas, M. Nassal, M. Ernst, A. Böckmann and B.H. Meier (2021) Biomolecular solid-state NMR spectroscopy at 1200 MHz: the gain in resolution J Biomol NMR, 75(6-7), 255-272
Pubmed - Y. Shimada, S.H. Carl, M. Skribbe, V. Flury, T. Kuzdere, G. Kempf and M. Bühler (2021) An enhancer screen identifies new suppressors of small-RNA-mediated epigenetic gene silencing PloS Genetics, 17(6):e1009645
Pubmed - M. Gultom, M. Licheri, L. Laloli, M. Wider, M. Strässle, P. V'kovski, S. Steiner, A. Kratzel, T. Thi Nhu Thao, L. Probst, H. Stalder, J. Portmann, M. Holwerda, N. Ebert, N. Stokar-Regenscheit, C. Gurtner, P. Zanolari, H. Posthaus, S. Schuller, A. Vicente-Santos, A. Moreira-Soto, E. Corrales-Aguilar, N. Ruggli, G. Tekes, V. von Messling, B. Sawatsky, V. Thiel and R. Dijkman (2021) Susceptibility of Well-Differentiated Airway Epithelial Cell Cultures from Domestic and Wild Animals to Severe Acute Respiratory Syndrome Coronavirus 2 Emerg Infect Dis, 27(7), 1811-1820
Pubmed - P. Bawankar, T. Lence, C. Paolantoni, I.U. Haussmann, M. Kazlauskiene, D. Jacob, J.B. Heidelberger, F.M. Richter, M.P. Nallasivan, V. Morin, N. Kreim, P. Beli, M. Helm, M. Jinek, M. Soller and J.-Y. Roignant (2021) Hakai is required for stabilization of core components of the m6A mRNA methylation machinery Nat Commun,12(1), 3778
Pubmed - S. Muralidharan, M. Shimobayashi, S. Ji, B. Burla, M.N. Hall, M.R. Wenk and F. Torta (2021) A reference map of sphingolipids in murine tissues Cell Rep, 35(11), 109250
Pubmed - J. Reuther, L. Schneider, I. Iacovache, A. Pircher, W.H. Gharib, B. Zuber and N. Polacek (2021) A small ribosome-associated ncRNA globally inhibits translation by restricting ribosome dynamics RNA Biol, (12), 2617-2632
Pubmed - A.C. Title, P.N. Silva, S. Godbersen, L. Hasenöhrl and M. Stoffel (2021) The miR-200-Zeb1 axis regulates key aspects of B-cell function and survival in vivo Mol Metab, 53, 101267
Pubmed - S. Tetter, N. Terasaka, A. Steinauer, R.J. Bingham, S. Clark, A.J.P. Scott, N. Patel, M. Leibundgut, E. Wroblewski, N. Ban, P.G. Stockley, R. Twarock and D. Hilvert (2021) Evolution of a virus-like architecture and packaging mechanism in a repurposed bacterial protein Science, 372(6547), 1220-1224
Pubmed - M. Simeoni, T. Cavinato, D. Rodriguez and D. Gatfield (2021) I(nsp1)ecting SARS-CoV-2-ribosome interactions Commun Biol, (1), 715
Pubmed - F. Konings, M.D. Perkins, J.H. Kuhn, M.J. Pallen, E.J. Alm, B.N. Archer, A. Barakat, T. Bedford, J.N. Bhiman, L. Caly, L.L. Carter, A. Cullinane, T. de Oliveira, J. Druce, I. El Masry, R. Evans, G.F. Gao, A.E. Gorbalenya, E. Hamblion, B.L. Herring, E. Hodcroft, E.C. Holmes, M. Kakkar, S. Khare, M.P.G. Koopmans, B. Korber, J. Leite, D. MacCannell, M. Marklewitz, S. Maurer-Stroh, J.A. Mendez Rico, V.J. Munster, R. Neher, B.O. Munnink, B.I. Pavlin, M. Peiris, L. Poon, O. Pybus, A. Rambaut, P. Resende, L. Subissi, V. Thiel, S. Tong, S. van der Werf, A. von Gottberg, J. Ziebuhr and M.D. Van Kerkhove (2021) SARS-CoV-2 Variants of Interest and Concern naming scheme conducive for global discourse Nat Microbiol, 6(7), 821-823
Pubmed - A. Goga, B. Yagabasan, K. Herrmanns, S. Godbersen, P.N. Silva, R. Denzler, M. Zünd, M. Furter, G. Schwank, S. Sunagawa, W.-D. Hardt and M. Stoffel (2021) miR-802 regulates Paneth cell function and enterocyte differentiation in the mouse small intestine Nature Commun, 12(1), 3339
Pubmed - N.C. Stephan, A.B. Ries, D. Boehringer and N. Ban (2021) Structural basis of successive adenosine modifications by the conserved ribosomal methyltransferase KsgA Nucleic Acids Res, 49(11):6389-6398
Pubmed - J. Lei, Y. Ma-Lauer, Y. Han, M. Thoms, R. Buschauer, J. Jores, V. Thiel, R. Beckmann, W. Deng, H Leonhardt, R Hilgenfeld and A. von Brunn (2021) The SARS-unique domain (SUD) of SARS-CoV and SARS-CoV-2 interacts with human Paip1 to enhance viral RNA translation EMBO J, 40(11), e102277
Pubmed - H. Amine, N. Ripin, S. Sharma, G. Stoecklin, F.H. Allain, B. Séraphin and F. Mauxion (2021) A conserved motif in human BTG1 and BTG2 proteins mediates interaction with the poly(A) binding protein PABPC1 to stimulate mRNA deadenylation RNA Biol, 18(12), 2450-2465
Pubmed - M. Fasnacht and N. Polacek (2021) Oxidative Stress in Bacteria and the Central Dogma of Molecular Biology Front Mol Biosci, 8, 671037
Pubmed - P.R. Bhatt, A. Scaiola, G. Loughran, M. Leibundgut, A. Kratzel, R. Meurs, R. Dreos, K. M O'Connor, A. McMillan, J.W. Bode, V. Thiel, D. Gatfield, J.F. Atkins and N. Ban (2021) Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome Science, 372(6548):1306-1313
Pubmed - L. Contu, G. Balistreri, M. Domanski, A.-C. Uldry and O. Mühlemann (2021) Characterisation of the Semliki Forest Virus-host cell interactome reveals the viral capsid protein as an inhibitor of nonsense-mediated mRNA decay PLoS Pathog, 17(5), e1009603
Pubmed - S. Sahadevan, K.M. Hembach, E. Tantardini, M. Pérez-Berlanga, M. Hruska-Plochan, S. Megat, J. Weber, P. Schwarz, L. Dupuis, M.D. Robinson, P. De Rossi and M. Polymenidou (2021) Synaptic FUS accumulation triggers early misregulation of synaptic RNAs in a mouse model of ALS Nat Commun, 12(1), 3027
Pubmed - J. Scekic-Zahirovic, I. Sanjuan-Ruiz, V. Kan, S. Megat, P. De Rossi, S. Dieterlé, R. Cassel, M. Jamet, P. Kessler, D. Wiesner, L. Tzeplaeff, V. Demais, S. Sahadevan, K.M. Hembach, H.-P. Muller, G. Picchiarelli, N. Mishra, S. Antonucci, S. Dirrig-Grosch, J. Kassubek, V. Rasche, A. Ludolph, A.-L. Boutillier, F. Roselli, M. Polymenidou, C. Lagier-Tourenne, S. Liebscher and L. Dupuis (2021) Cytoplasmic FUS triggers early behavioral alterations linked to cortical neuronal hyperactivity and inhibitory synaptic defects Nat Commun, 12(1), 3028
Pubmed - J.H. Lee, A. Jomaa, S.Y. Chung, Y.-H. Hwang Fu, R. Qian, X. Sun, H.-H. Hsieh, S. Chandrasekar, X. Bi, S. Mattei, D. Boehringer, S. Weiss, N. Ban and S.-O. Shan (2021) Receptor compaction and GTPase rearrangement drive SRP-mediated cotranslational protein translocation into the ER Sci Adv, 7(21), eabg0942
Pubmed - S. Shetty and M.N. Hall (2021) More writing: mTORC1 promotes m6A mRNA methylation Mol Cell, 81(10), 2057-2058
Pubmed - T. Rothgangl, M.K. Dennis, P.J.C. Lin, R. Oka, D. Witzigmann, L. Villiger, W. Qi, M. Hruzova, L. Kissling, D. Lenggenhager, C. Borrelli, S. Egli, N. Frey, N. Bakker, J.A. Walker 2nd, A.P. Kadina, D.V. Victorov, M. Pacesa, S. Kreutzer, Z. Kontarakis, A. Moor, M. Jinek, D. Weissman, M. Stoffel, R. van Boxtel, K. Holden , N. Pardi, B. Thöny, J. Häberle, Y.K. Tam, S.C. Semple and G. Schwank (2021) In vivo adenine base editing of PCSK9 in macaques reduces LDL cholesterol levels Nature Biotechnol, 39(8):949-957
Pubmed - A.L. Malinowska, A. Laski and J. Hall (2021) Design and Application of Mini-libraries of the miRNA Probes for an Efficient and Versatile miRNA-mRNA Cross-linking Chemistry, 27(39):10193-10200
Pubmed - K.J. Duda, R.W. Ching, L. Jerabek, N. Shukeir, G. Erikson, B. Engist, M. Onishi-Seebacher, V. Perrera, F. Richter, G. Mittler, K. Fritz, M. Helm, P. Knuckles, M. Bühler and T. Jenuwein (2021) m6A RNA methylation of major satellite repeat transcripts facilitates chromatin association and RNA:DNA hybrid formation in mouse heterochromatin Nucleic Acids Res, 49(10):5568-5587
Pubmed - C. Tsiairis and H. Grosshans (2021) Gene expression oscillations in C. elegans underlie a new developmental clock Curr Top Dev Biol, 144, 19-43
Pubmed - M.S. Svetlov, T.O. Koller, S. Meydan, V. Shankar, D. Klepacki, N. Polacek, N.R. Guydosh, N. Vázquez-Laslop, D.N. Wilson and A.S. Mankin (2021) Context-specific action of macrolide antibiotics on the eukaryotic ribosome Nat Commun,12(1), 2803
Pubmed - D.S. de Jesus, T.C.S. Mak, Y.-F. Wang, Y. von Ohlen, Y. Bai, E. Kane, P. Chabosseau, C.M. Chahrour, W. Distaso, V. Salem, A. Tomas, M. Stoffel, G.A. Rutter and M. Latreille (2021) Dysregulation of a Pdx1/Ovol2/Zeb2 axis in dedifferentiated B-cells triggers the induction of genes associated with epithelial-mesenchymal transition in diabetes Mol Metab, 53:101248
Pubmed - V. Bhaskar, A. Graff-Meyer, A.D. Schenk, S. Cavadini, O. von Loeffelholz, S. Kundhavai Natchiar, C.G. Artus-Revel, H.-R. Hotz, G. Bretones, B.P. Klaholz and J.A. Chao (2021) Dynamics of uS19 C-Terminal Tail during the Translation Elongation Cycle in Human Ribosomes Cell Rep, 31(1),07473
Pubmed - J. Breda, M. Zavolan and E. van Nimwegen (2021) Bayesian inference of gene expression states from single-cell RNA-seq data Nat Biotechnol, 39(8):1008-1016
Pubmed - M. Mendel, K. Delaney, R.R. Pandey, K.-M. Chen, J.M. Wenda, C. Broberg Vågbø, F.A. Steiner, D. Homolka and R.S. Pillai (2021) Splice site m6A methylation prevents binding of U2AF35 to inhibit RNA splicing Cell, 184(12):3125-3142.e25
Pubmed - I. Ritsch, L. Esteban-Hofer, E. Lehmann, L. Emmanouilidis, M. Yulikov, F.H.-T. Allain and G. Jeschke (2021) Characterization of Weak Protein Domain Structure by Spin-Label Distance Distributions Front Mol Biosci, 8, 636599
Pubmed - O. García-Nicolás, P. V'kovski, F. Zettl, G. Zimmer, V. Thiel and A. Summerfield (2021) No Evidence for Human Monocyte-Derived Macrophage Infection and Antibody-Mediated Enhancement of SARS-CoV-2 Infection Front Cell Infect Microbiol, 11, 644574
Pubmed - I. Asanovic, E. Strandback, A. Kroupova, D. Pasajlic, A. Meinhart, P. Tsung-Pin, N. Djokovic, D. Anrather, T. Schuetz, M.J. Suskiewicz, S. Sillamaa, T. Köcher, R. Beveridge, K. Nikolic, A. Schleiffer, M. Jinek, M. Hartl, T. Clausen, J. Penninger, P. Macheroux, S. Weitzer and J. Martinez (2021) The oxidoreductase PYROXD1 uses NAD(P) + as an antioxidant to sustain tRNA ligase activity in pre-tRNA splicing and unfolded protein response Mol Cell, 81(12):2520-2532.e16
Pubmed - L. Plassart, R. Shayan, C. Montellese, D. Rinaldi, N. Larburu, C. Pichereaux, C. Froment, S. Lebaron, M.-F. O'Donohue, U. Kutay, J. Marcoux, P.-E. Gleizes amd C. Plisson-Chastang (2021) The final step of 40S ribosomal subunit maturation is controlled by a dual key lock Elife, 10:e61254
Pubmed - E. Kummer, K.N. Schubert, T. Schoenhut, A. Scaiola and N. Ban (2021) Structural basis of translation termination, rescue, and recycling in mammalian mitochondria Mol Cell, 81(12):2566-2582.e6
Pubmed - J. Lei, Y. Ma-Lauer, Y. Han, M. Thoms, R. Buschauer, J. Jores, V. Thiel, R. Beckmann, W. Deng, H. Leonhardt, R. Hilgenfeld and A. von Brunn (2021) The SARS-unique domain (SUD) of SARS-CoV and SARS-CoV-2 interacts with human Paip1 to enhance viral RNA translation EMBO J, 40(11):e102277
Pubmed - A. Stevaert, B. Krasniqi, B. Van Loy, T. Nguyen, J. Thomas, J. Vandeput, D. Jochmans, V. Thiel, R. Dijkman, W. Dehaen, A. Voet and L. Naesens (2021) Betulonic Acid Derivatives Interfering with Human Coronavirus 229E Replication via the nsp15 Endoribonuclease J Med Chem, 64(9):5632-5644
Pubmed - R.K. Gudipati, K. Braun, F. Gypas, D. Hess, J. Schreier, S.H. Carl, R.F. Ketting and H. Grosshans (2021) Protease-mediated processing of Argonaute proteins controls small RNA association Mol Cell, 81(11):2388-2402.e8
Pubmed - K.E. Bohnsack, R. Ficner, M.T. Bohnsack and S. Jonas (2021) Regulation of DEAH-box RNA helicases by G-patch proteins Biol Chem, 402(5), 561-579
Pubmed - R. Böhm, S. Imseng, R.P. Jakob, M.N. Hall, T. Maier and S. Hiller (2021)The dynamic mechanism of 4E-BP1 recognition and phosphorylation by mTORC1 Mol Cell, 81(11):2403-2416.e5
Pubmed - M. Strässle, L. Laloli, M. Gultom, P. V'kovski, M.H. Stoffel, S. Crespo Pomar, A. Chanfon Bätzner, N. Ebert, F. Labroussaa, R. Dijkman, J. Jores and V. Thiel (2021) Establishment of caprine airway epithelial cells grown in an air-liquid interface system to study caprine respiratory viruses and bacteria Vet Microbiol, 257:109067
Pubmed - M. Coto-Llerena, N. Tosti, S. Taha-Mehlitz, V. Kancherla, V. Paradiso, J. Gallon, G. Bianco, A. Garofoli, S. Ghosh, F. Tang, C. Ercan, G.M. Christofori, M.S. Matter, R.A. Droeser, M. Zavolan, S.D. Soysal, M. von Flüe, O. Kollmar, L.M. Terracciano, C.K.Y. Ng and S. Piscuoglio (2021) Transcriptional Enhancer Factor Domain Family member 4 Exerts an Oncogenic Role in Hepatocellular Carcinoma by Hippo-Independent Regulation of Heat Shock Protein 70 Family Members Hepatol Commun, 5(4), 661-674
Pubmed - A. Stukalov, V. Girault, V. Grass, O. Karayel, V. Bergant, C. Urban, D.A. Haas, Y. Huang, L. Oubraham, A. Wang, M. Sabri Hamad, A. Piras, F.M. Hansen, M.C. Tanzer, I. Paron, L. Zinzula, T. Enghleitner, M. Reinecke, T.M. Lavacca, R. Ehmann, R. Wölfel, J. Jores, B. Kuster, U. Protzer, R. Rad, J. Ziebuhr, V. Thiel, P. Scaturro, M. Mann and A. Pichlmair (2021) Multilevel proteomics reveals host perturbations by SARS-CoV-2 and SARS-CoV Nature, 594(7862):246-252
Pubmed - S. Ghosh, A. Börsch, S. Ghosh and M. Zavolan (2021) The transcriptional landscape of a hepatoma cell line grown on scaffolds of extracellular matrix proteins BMC Genomics, 22(1), 238
Pubmed - M. Kösters, J. Leufken and S.A. Leidel (2021) SMITER-A Python Library for the Simulation of LC-MS/MS Experiments Genes (Basel), 12(3), 396
Pubmed - P. V'kovski, M. Gultom, J.N. Kelly, S. Steiner, J. Russeil, B. Mangeat, E. Cora, J. Pezoldt, M. Holwerda, A. Kratzel, L. Laloli, M. Wider, J. Portmann, T. Tran, N. Ebert, H. Stalder, R. Hartmann, V. Gardeux, D. Alpern, B. Deplancke, V. Thiel and R. Dijkman (2021) Disparate temperature-dependent virus-host dynamics for SARS-CoV-2 and SARS-CoV in the human respiratory epithelium PLoS Biol, 19(3):e3001158
Pubmed - F. Halloy, P.S. Iyer, A. Ghidini, V. Lysenko, J. Barman-Aksözen, C.-P. Grubenmann, J. Jucker, N. Wildner-Verhey van Wijk, M.-D. Ruepp, E.I. Minder, A.-.E. Minder, X. Schneider-Yin, A.P.A. Theocharides, D. Schümperli and J. Hall (2021) Repurposing of glycine transport inhibitors for the treatment of erythropoietic protoporphyria Cell Chem Biol, S2451-9456(21)00106-9
Pubmed - S. Pawar and U. Kutay (2021) The Diverse Cellular Functions of Inner Nuclear Membrane Proteins Cold Spring Harb Perspect Biol, a040477
Pubmed - J.M. Malecki, M.-F. Odonohue, Y. Kim, M.E. Jakobsson, L. Gessa, R. Pinto, J. Wu, E. Davydova, A. Moen, J.V. Olsen, B. Thiede, P.-E. Gleizes, S.A. Leidel and P.Ø. Falnes (2021) Human METTL18 is a histidine-specific methyltransferase that targets RPL3 and affects ribosome biogenesis and function Nucleic Acids Res, 49(6), 3185-3203
Pubmed - B.R. Levone, S.C. Lenzken, M. Antonaci, A. Maiser, A. Rapp, F. Conte, S. Rebe, J. Mechtersheimer, A.E. Ronchi, O. Mühlemann, H. Leonhardt, M.C. Cardoso, M.-D. Ruepp and S.M.L. Barabino (2021) FUS-dependent liquid-liquid phase separation is important for DNA repair initiation J Cell Biol, 220(5):e202008030
Pubmed - L. Emmanouilidis, L. Esteban-Hofer, F.F. Damberger, T. de Vries, C.K.X. Nguyen, L. Fábregas Ibáñez, S. Mergenthal, E. Klotzsch, M. Yulikov, G. Jeschke and F.H.-T. Allain (2021) NMR and EPR reveal a compaction of the RNA-binding protein FUS upon droplet formation Nat Chem Biol, 17(5):608-614
Pubmed - S. Campagne, T. de Vries, F. Malard, P. Afanasyev, G. Dorn, E. Dedic, J. Kohlbrecher, D. Boehringer, A. Cléry and F.H.-T. Allain (2021) An in vitro reconstituted U1 snRNP allows the study of the disordered regions of the particle and the interactions with proteins and ligands Nucleic Acids Research, 49(11):e63
Pubmed - R. Baik, S.K. Wyman, S. Kabir and J.E. Corn (2021) Genome editing to model and reverse a prevalent mutation associated with myeloproliferative neoplasms PLoS One,16(3), e0247858
Pubmed - S.M. Siegner, M.E. Karasu, M.S. Schröder, Z. Kontarakis and J.E. Corn (2021) PnB Designer: a web application to design prime and base editor guide RNAs for animals and plants BMC Bioinformatics, 22(1), 101
Pubmed - B. Agerer, M. Koblischke, V. Gudipati, L.F. Montaño-Gutierrez, M. Smyth, A. Popa, J.-W. Genger, L. Endler, D.M. Florian, V. Mühlgrabner, M. Graninger, S.W. Aberle, A.-M. Husa, L.E. Shaw, A. Lercher, P. Gattinger, R. Torralba-Gombau, D. Trapin, T. Penz, D. Barreca, I. Fae, S. Wenda, M. Traugott, G. Walder, W.F. Pickl, V. Thiel, F. Allerberger, H. Stockinger, E. Puchhammer-Stöckl, W. Weninger, G. Fischer, W. Hoepler, E. Pawelka, A. Zoufaly, R. Valenta, C. Bock, W. Paster, R. Geyeregger, M. Farlik, F. Halbritter, J.B. Huppa, J.H. Aberle and A. Bergthaler (2021) SARS-CoV-2 mutations in MHC-I-restricted epitopes evade CD8 + T cell responses Sci Immunol, 6(57), eabg6461
Pubmed - E. Mentegari, F. Bertoletti, M. Kissova, E. Zucca, S. Galli, G. Tagliavini, A. Garbelli, A. Maffia, S. Bione, E. Ferrari, F. d'Adda di Fagagna, S. Francia, S. Sabbioneda, L.-Y. Chen, J. Lingner, V. Bergoglio, J.-S. Hoffmann, U. Hübscher, E. Crespan and G. Maga (2021) A Role for Human DNA Polymerase Lambda in Alternative Lengthening of Telomeres Int J Mol Sci, 22(5), 2365
Pubmed - B. Zhou, T.T.N. Thao, D. Hoffmann, A. Taddeo, N. Ebert, F. Labroussaa, A. Pohlmann, J. King, S. Steiner, J.N. Kelly, J. Portmann, N.J. Halwe, L. Ulrich, B.S. Trüeb, X. Fan, B. Hoffmann, L. Wang, L. Thomann, X. Lin, H. Stalder, B. Pozzi, S. de Brot, N. Jiang, D. Cui, J. Hossain, M. Wilson, M. Keller, T.J. Stark, J.R. Barnes, R. Dijkman, J. Jores, C. Benarafa, D.E. Wentworth, V. Thiel and M. Beer (2021) SARS-CoV-2 spike D614G change enhances replication and transmission Nature, 592(7852), 122-127
Pubmed - E. Kummer, N. Ban (2021) Mechanisms and regulation of protein synthesis in mitochondria Nat Rev Mol Cell Biol, 22(5):307-325
Pubmed - A. Börsch, D.J. Ham, N. Mittal, L.A. Tintignac, E. Migliavacca, J.N. Feige, M.A. Rüegg, M. Zavolan (2021) Molecular and phenotypic analysis of rodent models reveals conserved and species-specific modulators of human sarcopenia Commun Biol, 4(1):194
Pubmed - N. Bosch-Guiteras, T. Uroda, H.A. Guillen-Ramirez, R. Riedo, A. Gazdhar, R. Esposito, C. Pulido-Quetglas, Y. Zimmer, M. Medová, R. Johnson (2021) Enhancing CRISPR deletion via pharmacological delay of DNA-PKcs Genome Res, 31(3), 461-471
Pubmed - N. Raad, H. Luidalepp, M. Fasnacht, N. Polacek (2021) Transcriptome-Wide Analysis of Stationary Phase Small ncRNAs in E. coli Int J Mol Sci, 22(4):1703
Pubmed - C. Ciaudo (2021) Non-canonical functions of the microprocessor Nat Rev Mol Cell Biol, 22(6):372
Pubmed - S. Rout, S. Oeljeklaus, A. Makki, J. Tachezy, B. Warscheid, A. Schneider (2021) Determinism and contingencies shaped the evolution of mitochondrial protein import Proc Natl Acad Sci U S A,118(6):e2017774118
Pubmed - L. Villiger, T. Rothgangl, D. Witzigmann, R. Oka, P.J.C. Lin, W. Qi, S. Janjuha, C. Berk, F. Ringnalda, M.B. Beattie, M. Stoffel, B. Thöny, J. Hall, H. Rehrauer, R. van Boxtel, Y.K. Tam and G. Schwank (2021) In vivo cytidine base editing of hepatocytes without detectable off-target mutations in RNA and DNA Nat Biomed Eng, 5(2), 179-189
Pubmed - M. Termathe and S.A. Leidel (2021) Urm1: A Non-Canonical UBL Biomolecules,11(2), 139
Pubmed - S. Schulze, A. Bienfait Igiraneza, M. Kösters, J. Leufken, S.A. Leidel, B.A. Garcia, C. Fufezan and M. Pohlschroder (2021) Enhancing Open Modification Searches via a Combined Approach Facilitated by Ursgal J Proteome Res, 20(4), 1986-1996
Pubmed - V. Bhaskar, J. Desogus, A. Graff-Meyer, A.D. Schenk, S. Cavadini, J.A. Chao (2021) Dynamic association of human Ebp1 with the ribosome RNA, 27(4), 411-419
Pubmed - A. Cléry, M. Krepl, C.K.X. Nguyen, A. Moursy, H. Jorjani, M. Katsantoni, M. Okoniewski, N. Mittal, M. Zavolan, J. Sponer, F.H.T. Allain (2021) Structure of SRSF1 RRM1 bound to RNA reveals an unexpected bimodal mode of interaction and explains its involvement in SMN1 exon7 splicing Nat Commun, 12(1), 428
Pubmed - M. Cristodero, R. Brogli, O. Joss, B. Schimanski, A. Schneider and N. Polacek (2021) tRNA 3' shortening by LCCR4 as a response to stress in Trypanosoma brucei Nucleic Acids Res, 49(3):1647-1661
Pubmed - M.-L. Pinel-Marie, R. Brielle, C. Riffaud, N. Germain-Amiot, N. Polacek and B. Felden (2021) RNA antitoxin SprF1 binds ribosomes to attenuate translation and promote persister cell formation in Staphylococcus aureus Nat Microbiol, 6(2), 209-220
Pubmed - S. Carbonell Sala B. Uszczynska-Ratajczak, J. Lagarde, R. Johnson, Roderic Guigó (2021) Annotation of Full-Length Long Noncoding RNAs with Capture Long-Read Sequencing (CLS) Methods Mol Biol, 2254, 133-159
Pubmed - A. Frankish, M. Diekhans, I. Jungreis, J. Lagarde, J.E. Loveland, J.M. Mudge, C. Sisu, J.C. Wright, J. Armstrong, I. Barnes, A. Berry, A. Bignell, C. Boix, S. Carbonell Sala, F. Cunningham, T. Di Domenico, S. Donaldson, I.T. Fiddes, C. García Girón, J.M. Gonzalez, T. Grego, M. Hardy, T. Hourlier, K.L. Howe, T. Hunt, O.G. Izuogu, R. Johnson, F.J. Martin, L. Martínez, S. Mohanan, P. Muir, F.C.P. Navarro, A. Parker, B. Pei, F. Pozo, F. Calvet Riera, M. Ruffier, B.M. Schmitt, E. Stapleton, M.-M. Suner, I. Sycheva, B. Uszczynska-Ratajczak, M.Y. Wolf, J. Xu, Y.T. Yang, A. Yates, D. Zerbino, Y. Zhang, J.S. Choudhary, M. Gerstein, R. Guigó, T.J.P. Hubbard, M. Kellis, B. Paten, M.L. Tress, P. Flicek (2021) GENCODE 2021 Nucleic Acids Res, 49(D1):D916-D923
Pubmed - A.C. Tuck and M. Bühler (2021) Long Non-coding RNA Depletion Using Self-Cleaving Ribozymes Methods Mol Biol 2167, 287-301
Pubmed
2020 Publications
2020 Publications
- L. Casalino, L. Nierzwicki, M. Jinek, G Palermo (2020) Catalytic Mechanism of Non-Target DNA Cleavage in CRISPR-Cas9 Revealed by Ab Initio Molecular Dynamics ACS Catal, 10(22):13596-13605
Pubmed - M. Ijavi, R.W. Style, L. Emmanouilidis, A. Kumar, S.M. Meier, A.L. Torzynski, F.H.T. Allain, Y. Barral, M.O. Steinmetz and E.R. Dufresne (2020) Surface tensiometry of phase separated protein and polymer droplets by the sessile drop method Soft Matter, 17(6):1655-1662
Pubmed - H. Ho-Xuan, G. Lehmann, P. Glazar, F. Gypas, N. Eichner, K. Heizler, H.J. Schlitt, M. Zavolan, N. Rajewsky, G. Meister, C. Hackl (2020) Gene Expression Signatures of a Preclinical Mouse Model during Colorectal Cancer Progression under Low-Dose Metronomic Chemotherapy Cancers (Basel), 13(1):E49
Pubmed - R.P. Ngondo, M. Cohen-Tannoudji, C. Ciaudo (2020) Fast In Vitro Procedure to Identify Extraembryonic Differentiation Defect of Mouse Embryonic Stem Cells STAR Protoc, 1(3):100127
Pubmed - S. Hutten, S. Usluer, B. Bourgeois, F. Simonetti, H.M. Odeh, C.M. Fare, M. Czuppa, M. Hruska-Plochan, M. Hofweber, M. Polymenidou, J. Shorter, D. Edbauer, T. Madl, D. Dormann (2020) Nuclear Import Receptors Directly Bind to Arginine-Rich Dipeptide Repeat Proteins and Suppress Their Pathological Interactions Cell Rep, 33(12):108538
Pubmed - P.F. Renz, D. Spies, P. Tsikrika, A. Wutz, T.A. Beyer, C. Ciaudo (2020) Inhibition of FGF and TGF-beta Pathways in hESCs Identify STOX2 as a Novel SMAD2/4 Cofactor Biology (Basel), 9(12):470
Pubmed - A. Katz, S.A. Leidel, M. Ibba (2020) Editorial: Microbial Regulation of Translation Front Genet, 11, 61694
Pubmed - N. Luithle, J. Uit de Bos, R. Hovius, D. Maslennikova, R.T. Lewis, R. Ungricht, B. Fierz, U. Kutay (2020) Torsin ATPases influence chromatin interaction of the Torsin regulator LAP1 Elife, 9:e63614
Pubmed - D. Mateju, B. Eichenberger, F. Voigt, J. Eglinger, G. Roth, J.A. Chao (2020) Single-Molecule Imaging Reveals Translation of mRNAs Localized to Stress Granules Cell, 183(7):1801-1812.e13
Pubmed - D. Jutzi, S. Campagne, R. Schmidt, S. Reber, J. Mechtersheimer, F. Gypas, C. Schweingruber, M. Colombo, C. von Schroetter, F.E. Loughlin, A. Devoy, E. Hedlund, M. Zavolan, F.H. Allain, M.D. Ruepp (2020) Aberrant interaction of FUS with the U1 snRNA provides a molecular mechanism of FUS induced amyotrophic lateral sclerosis Nat Commun, 11(1):6341
Pubmed - Y. Wang, C. Soneson, A.L. Malinowska, A. Laski, S. Ghosh, A. Kanitz, L.F.R. Gebert, M.D. Robinson and J. Hall (2020) MiR-CLIP reveals iso-miR selective regulation in the miR-124 targetome Nucleic Acids Res, 49(1):25-37
Pubmed - A. Biasini, B. Abdulkarim, S. de Pretis, J.Y. Tan, R. Arora, H. Wischnewski, R. Dreos, M. Pelizzola, C. Ciaudo and A.C. Marques (2020) Translation is required for miRNA-dependent decay of endogenous transcripts EMBO J, 40(3):e104569
Pubmed - A. Schneider (2020) A short history of guide RNAs: The intricate path that led to the discovery of a basic biological concept EMBO Rep, 21(12):e51918
Pubmed - M. Holwerda, P. V'kovski, M. Wider, V. Thiel and R. Dijkman (2020) Identification of an Antiviral Compound from the Pandemic Response Box that Efficiently Inhibits SARS-CoV-2 Infection In Vitro Microorganisms, 8(12), E1872
Pubmed - M. Gasbarri, P. V'kovski, G. Torriani, V. Thiel, F. Stellacci, C. Tapparel and V. Cagno (2020) SARS-CoV-2 Inhibition by Sulfonated Compounds Microorganisms, 8(12), E1894
Pubmed - F. Hufsky, N. Beerenwinkel, I.M. Meyer, S. Roux, G.M. Cook, C.M. Kinsella, K. Lamkiewicz, M. Marquet, D. F. Nieuwenhuijse, I. Olendraite, S. Paraskevopoulou, F. Young, R. Dijkman, B. Ibrahim, J. Kelly, P.L. Mercier, M. Marz, A. Ramette and V. Thiel (2020) The International Virus Bioinformatics Meeting 2020 Viruses, 12(12), E1398
Pubmed - L. Stoll, A. Rodríguez-Trejo, C. Guay, F. Brozzi, M.B. Bayazit, S. Gattesco, V. Menoud, J. Sobel, A.C. Marques, M.T. Venø, J.L.S. Esguerra, M. Barghouth, M. Suleiman, L. Marselli, J. Kjems, L. Eliasson, E. Renström, K. Bouzakri, M. Pinget, P. Marchetti and R. Regazzi (2020) A circular RNA generated from an intron of the insulin gene controls insulin secretion Nat Commun, 11(1), 5611
Pubmed - M.P. LaPierre, S. Godbersen, M.T. Esteban, A.N. Schad, M. Treier, U. Ghoshdastider, M. Stoffel (2020) MicroRNA-7a2 regulates prolactin in developing lactotrophs and prolactinoma cells Endocrinology, 162(2):bqaa220
Pubmed - D. Lacabanne, J. Boudet, A.A. Malär, P. Wu, R. Cadalbert, L. Salmon, F.H.-T. Allain, B.H. Meier and T. Wiegand (2020) Protein Side-Chain-DNA Contacts Probed by Fast Magic-Angle Spinning NMR J Phys Chem B, 124(49):11089-11097
Pubmed - S. Shikha, J.L. Huot, A. Schneider, M. Niemann (2020) tRNA import across the mitochondrial inner membrane in T. brucei requires TIM subunits but is independent of protein import Nucleic Acids Res, 48(21):12269-12281
Pubmed - M. Ameismeier, I. Zemp, J. van den Heuvel, M. Thoms, O. Berninghausen, U. Kutay and R. Beckmann (2020) Structural basis for the final steps of human 40S ribosome maturation Nature, 587(7835):683-687
Pubmed - K. Leppek, K. Fujii, N. Quade, T.T. Susanto, D. Boehringer, T. Lenarcic, S. Xue, N.R. Genuth, N. Ban and M. Barna (2020) Gene- and Species-Specific Hox mRNA Translation by Ribosome Expansion Segments Mol Cell, 80(6):980-995.e13
Pubmed - Y. Zhang, L.M. Prach, T.E. O'Brien, F. DiMaio, D.M. Prigozhin, J.E. Corn, T. Alber, J.B. Siegel, D.J. Tantillo (2020) Crystal Structure and Mechanistic Molecular Modeling Studies of Mycobacterium tuberculosis Diterpene Cyclase Rv3377c Biochemistry, 59(47):4507-4515
Pubmed - Z.Y. Wang, E. Leushkin, A. Liechti, S. Ovchinnikova, K. Mößinger, T. Brüning, C. Rummel, F. Grützner, M. Cardoso-Moreira, P. Janich, D. Gatfield, B. Diagouraga, B. de Massy, M.E. Gill, A.H.F.M. Peters, S. Anders, H. Kaessmann (2020) Transcriptome and translatome co-evolution in mammals Nature, 588(7839):642-647
Pubmed - W. Ahmed and J. Lingner (2020) PRDX1 Counteracts Catastrophic Telomeric Cleavage Events That Are Triggered by DNA Repair Activities Post Oxidative Damage Cell Rep, 33(5), 108347
Pubmed - A. Scaiola, F. Mangia, S. Imseng, D. Boehringer, K. Berneiser, M. Shimobayashi, E. Stuttfeld, M.N. Hall, N. Ban, T. Maier (2020) The 3.2-Å resolution structure of human mTORC2 Sci Adv, 6(45):eabc1251
Pubmed - L. Stoll, A. Rodríguez-Trejo, C. Guay, F. Brozzi, M.B. Bayazit, S. Gattesco, V. Menoud, J. Sobel, A.C. Marques, M.T. Venø, J.L.S. Esguerra, M. Barghouth, M. Suleiman, L. Marselli, J. Kjems, L. Eliasson, E. Renström, K. Bouzakri, M. Pinget, P. Marchetti, R. Regazzi (2020) A circular RNA generated from an intron of the insulin gene controls insulin secretion Nat Commun, 11(1):5611
Pubmed - H. Renner, M. Grabos, K.J. Becker, T.E. Kagermeier, J. Wu, M. Otto, S. Peischard, D. Zeuschner, Y. TsyTsyura, P. Disse, J. Klingauf, S.A. Leidel, G. Seebohm, H.R. Schöler, J.M. Bruder (2020) A fully automated high-throughput workflow for 3D-based chemical screening in human midbrain organoids Elife, 9:e52904
Pubmed - P. V'kovski, A. Kratzel, S. Steiner, H. Stalder, V. Thiel (2020) Coronavirus biology and replication: implications for SARS-CoV-2 Nat Rev Microbiol, 19(3):155-170
Pubmed - R. Fan, Y.S. Kim, J. Wu, R. Chen, D. Zeuschner, K. Mildner, K. Adachi, G. Wu, S. Galatidou, J. Li, H.R. Schöler, S.A. Leidel, I. Bedzhov (2020) Wnt/Beta-catenin/Esrrb signalling controls the tissue-scale reorganization and maintenance of the pluripotent lineage during murine embryonic diapause Nat Commun, 11(1):5499
Pubmed - C. Berk, Y. Wang, A. Laski, S. Tsagkris, J. Hall (2020) Ligation of 2', 3'-cyclic phosphate RNAs for the identification of microRNA binding sites FEBS Lett, 595(2):230-240
Pubmed - A. Saha, P.R. Arantes, R.V. Hsu, Y.B. Narkhede, M. Jinek, G. Palermo (2020) Molecular Dynamics Reveals a DNA-Induced Dynamic Switch Triggering Activation of CRISPR-Cas12a J Chem Inf Model, 60(12):6427-6437
Pubmed - A. Ghidini, A. Cléry, F. Halloy, F.H.T. Allain, J. Hall (2020) RNA-PROTACs - degraders of RNA-binding proteins Angew Chem Int Ed Engl, 60(6):3163-3169
Pubmed - G. Glousker, A.S. Briod, M. Quadroni and J. Lingner (2020) Human shelterin protein POT1 prevents severe telomere instability induced by homology-directed DNA repair EMBO J, 39(23):e104500
Pubmed - M. Feretzaki, M. Pospisilova, R. Valador Fernandes, T. Lunardi, L. Krejci and J. Lingner (2020) RAD51-dependent recruitment of TERRA lncRNA to telomeres through R-loops Nature, 587(7833):303-308
Pubmed - X.J. Meng and V. Thiel (2020) Emerging and Re-emerging Porcine Viruses Virus Res, 290:198198
Pubmed - A. Zbinden, M. Pérez-Berlanga, P. De Rossi, M. Polymenidou (2020) Phase Separation and Neurodegenerative Diseases: A Disturbance in the Force Dev Cell, 55(1):45-68
Pubmed - D. Dalcher, J.Y. Tan, C. Bersaglieri, R. Peña-Hernández, E. Vollenweider, S. Zeyen, M.W. Schmid, V. Bianchi, S. Butz, M. Roganowicz, R. Kuzyakiv, T. Baubec, A.C. Marques and R. Santoro (2020) BAZ2A safeguards genome architecture of ground-state pluripotent stem cells EMBO J, 39(23), e105606
Pubmed - L.E. Leiva, A. Pincheira, S. Elgamal, S.D. Kienast, V. Bravo, J. Leufken, D. Gutiérrez, S.A. Leidel, M. Ibba, A. Katz (2020) Modulation of Escherichia coli Translation by the Specific Inactivation of tRNAGly Under Oxidative Stress Front Genet, 18;11:856
Pubmed - R. Ancar, Y. Li, E. Kindler, D.A. Cooper, M. Ransom, V. Thiel, S.R. Weiss, J.R. Hesselberth and D.J. Barton (2020) Physiologic RNA Targets and Refined Sequence Specificity of Coronavirus EndoU RNA, 26(12):1976-1999
Pubmed - D.V. Chartoumpekis, P.G. Ziros, I. Georgakopoulos-Soares, A.A.T. Smith, A.C. Marques, M. Ibberson, P.A. Kopp, I. Habeos, I.P. Trougakos, N.K.H. Khoo, G.P. Sykiotis (2020) The Transcriptomic Response of the Murine Thyroid Gland to Iodide Overload and the Role of the Nrf2 Antioxidant System Antioxidants (Basel), 18;9(9). pii: E884
Pubmed - G. Annibaldis, M. Domanski, R. Dreos, L. Contu, S. Carl, N. Kläy and O. Mühlemann (2020) Readthrough of stop codons under limiting ABCE1 concentration involves frameshifting and inhibits nonsense-mediated mRNA decay Nucleic Acids Res, 48(18):10259-10279
Pubmed - D.J. Ham, A. Börsch, S. Lin, M. Thürkauf, M. Weihrauch, J.R. Reinhard, J. Delezie, F. Battilana, X. Wang, M.S. Kaiser, M. Guridi, M. Sinnreich, M.M. Rich, N. Mittal, L.A. Tintignac, C. Handschin, M. Zavolan and M.A. Rüegg (2020) The neuromuscular junction is a focal point of mTORC1 signaling in sarcopenia Nat Commun, 11(1), 4510
Pubmed - K. Schubert, E.D. Karousis, A. Jomaa, A. Scaiola, B. Echeverria, L.A. Gurzeler, M. Leibundgut, V. Thiel, O. Mühlemann and N. Ban (2020) SARS-CoV-2 Nsp1 binds the ribosomal mRNA channel to inhibit translation Nat Struct Mol Biol, 27(10):959-966
Pubmed - M. Pabis, M. Termath, K.E. Ravichandran, S.D. Kienast, R. Krutyholowa, M. Sokolowski, U. Jankowska, P. Grudnik, S.A. Leidel and S. Glatt (2020) Molecular basis for the bifunctional Uba4-Urm1 sulfur-relay system in tRNA thiolation and ubiquitin-like conjugation EMBO J, 39(19):e105087
Pubmed - W. Fu and M.N. Hall (2020) Regulation of mTORC2 Signaling Genes, 11(9):1045
Pubmed - J.J. Shin, M.S. Schröder, F. Caiado, S.K. Wyman, N.L. Bray, M. Bordi, M.A. Dewitt, J.T. Vu , W.T. Kim, D. Hockemeyer, M.G. Manz and J.E. Corn (2020) Controlled Cycling and Quiescence Enables Efficient HDR in Engraftment-Enriched Adult Hematopoietic Stem and Progenitor Cells Cell Rep, 32(9), 108093
Pubmed - P.F. Renz, F.V. Francia and A. Sendoel (2020) Some like it translated: Small ORFs in the 5'UTR Exp Cell Res, 396(1):112229
Pubmed - T.T.N. Thao, F. Labroussaa, N. Ebert, J. Jores and V. Thiel (2020) In-Yeast Assembly of Coronavirus Infectious cDNA Clones Using a Synthetic Genomics Pipeline Methods Mol Biol, 2203, 167-184
Pubmed - P. V'kovski, S. Steiner and V. Thiel (2020) Proximity Labeling for the Identification of Coronavirus-Host Protein Interactions Methods Mol Biol, 2203, 187-204
Pubmed - R.R. Pandey, E. Delfino, D. Homolka, A. Roithova, K.M. Chen, L. Li, G. Franco, C.B. Vågbø, E. Taillebourg, M.O. Fauvarque, R.S. Pillai (2020) The Mammalian Cap-Specific m6Am RNA Methyltransferase PCIF1 Regulates Transcript Levels in Mouse Tissues Cell Reports, 32(7):108038
Pubmed - S. Ghosh, J.C. Guimaraes, M. Lanzafame, A. Schmidt, A.P. Syed, B. Dimitriades, A. Börsch, S. Ghosh, N. Mittal, T. Montavon, A.L. Correia, J. Danner, G. Meister, L.M. Terracciano, S. Pfeffer, S. Piscuoglio, M. Zavolan (2020) Prevention of dsRNA-induced interferon signaling by AGO1x is linked to breast cancer cell proliferation EMBO J, 39(18):e103922
Pubmed - M. Polymenidou (2020) A Gut Feeling about C9ORF72 Trends Immunol, 41(9):755-757
Pubmed - E.D. Karousis, L.A. Gurzeler, G. Annibaldis, R. Dreos, O. Mühlemann (2020) Human NMD ensues independently of stable ribosome stalling Nat Commun, 11(1):4134
Pubmed - H. Hörnberg, E. Pérez-Garci, D. Schreiner, L. Hatstatt-Burklé, F. Magara, S. Baudouin, A. Matter, K. Nacro, E. Pecho-Vrieseling, P. Scheiffele (2020) Rescue of oxytocin response and social behaviour in a mouse model of autism Nature, 584(7820):252-256
Pubmed - M.Y. Boontanrart, M.S. Schröder, G.M. Stehli, M. Banovic, S.K. Wyman, R.J. Lew, M. Bordi, B.G. Gowen, M.A. DeWitt, J.E. Corn (2020) ATF4 Regulates MYB to Increase gamma-Globin in Response to Loss of beta-Globin Cell Rep, 32(5):107993
Pubmed - M. Bühler, A.C. Tuck (2020) Scaling up dissection of functional RNA elements Nat Struct Mol Biol, 27(9):771-773
Pubmed - P.H. Pinto, A. Kroupova, A. Schleiffer, K. Mechtler, M. Jinek, S. Weitzer, J. Martinez (2020) ANGEL2 is a member of the CCR4 family of deadenylases with 2',3'-cyclic phosphatase activity Science 369(6503):524-530
Pubmed - S. Pfaender, K.B. Mar, E. Michailidis, A. Kratzel, I.N. Boys, P. V'kovski, W. Fan, J.N. Kelly, D. Hirt, N. Ebert, H. Stalder, H. Kleine-Weber, M. Hoffmann, H. Heinrich Hoffmann, M. Saeed, R. Dijkman, E. Steinmann, M. Wight-Carter, M.B. McDougal, N.W. Hanners, S. Pöhlmann, T. Gallagher, D. Todt, G. Zimmer, C.M. Rice, J.W. Schoggins, V. Thiel (2020) LY6E impairs coronavirus fusion and confers immune control of viral disease Nat Microbiol, 5(11):1330-1339
Pubmed - N. Polacek, P. Ivanov (2020) The regulatory world of tRNA fragments beyond canonical tRNA biology RNA Biol, 17(8):1057-1059
Pubmed - A.B. Arpat, A. Liechti, M. De Matos, R. Dreos, P. Janich, D. Gatfield (2020) Transcriptome-wide sites of collided ribosomes reveal principles of translational pausing Genome Res, 30(7):985-999
Pubmed - V. Bhaskar, M. Jia, J.A. Chao (2020) A Single-Molecule RNA Mobility Assay to Identify Proteins that Link RNAs to Molecular Motors Methods Mol Biol, 2166:269-282
Pubmed - M.W. Meeuse, Y.P. Hauser, L.J. Morales Moya, G.J. Hendriks, J. Eglinger, G. Bogaarts, C. Tsiairis and H. Grosshans (2020) Developmental function and state transitions of a gene expression oscillator in Caenorhabditis elegans Mol Syst Biol, 16(7), e9498
Pubmed - M. Jaskolowski, D.J.F. Ramrath, P. Bieri, M. Niemann, S. Mattei, S. Calderaro, M. Leibundgut, E.K. Horn, D. Boehringer, A. Schneider, N. Ban (2020) Structural Insights into the Mechanism of Mitoribosomal Large Subunit Biogenesis Mol Cell, 79(4):629-644.e4
Pubmed - P. Dave and J.A. Chao (2020) Insights into mRNA degradation from single-molecule imaging in living cells Curr Opin Struct Biol, 65:89-95
Pubmed - G.A. Ruiz Buendía, M. Leleu, F. Marzetta, L. Vanzan, J.Y. Tan, V. Ythier, E.L. Randall, A.C. Marques, T. Baubec, R. Murr, I. Xenarios and V. Dion (2020) Three-dimensional chromatin interactions remain stable upon CAG/CTG repeat expansion Sci Adv, 6(27), eaaz4012
Pubmed - K. Sabath, M.L. Stäubli, S. Marti, A. Leitner, M. Moes and S. Jonas (2020) INTS10-INTS13-INTS14 form a functional module of Integrator that binds nucleic acids and the cleavage module Nat Commun, 11(1), 3422
Pubmed - A. Kobiita, S. Godbersen, E. Araldi, U. Ghoshdastider, M.W. Schmid, G. Spinas, H. Moch and M. Stoffel (2020) The Diabetes Gene JAZF1 Is Essential for the Homeostatic Control of Ribosome Biogenesis and Function in Metabolic Stress Cell Rep, 32(1), 107846
Pubmed - A. Biasini, A.A.T. Smith, B. Abdulkarim, M. Ferreira da Silva, J.Y. Tan and A.C. Marques (2020) The Contribution of lincRNAs at the Interface between Cell Cycle Regulation and Cell State Maintenance iScience, 23(7), 101291
Pubmed - E. Kummer and N. Ban (2020) Structural insights into mammalian mitochondrial translation elongation catalyzed by mtEFG1 EMBO J, 39(15):e104820
Pubmed - A.S. Wang, L.C. Chen, R.A. Wu, Y. Hao, D.T. McSwiggen, A.B. Heckert, C.D. Richardson, B.G. Gowen, K.R. Kazane, J.T. Vu, S.K. Wyman, J.J. Shin, X. Darzacq, J.C. Walter and J.E. Corn (2020) The Histone Chaperone FACT Induces Cas9 Multi-turnover Behavior and Modifies Genome Manipulation in Human Cells Mol Cell, 79(2), 221-233.e5
Pubmed - A. Kratzel, D. Todt, P. V'kovski, S. Steiner, M. Gultom, T.T.N. Thao, N. Ebert, M. Holwerda, J. Steinmann, D. Niemeyer, R. Dijkman, G. Kampf, C. Drosten, E. Steinmann, V. Thiel and S. Pfaender (2020) Inactivation of Severe Acute Respiratory Syndrome Coronavirus 2 by WHO-Recommended Hand Rub Formulations and Alcohols Emerg Infect Dis, 26(7), 1592-1595
Pubmed - A. Kratzel, S. Steiner, D. Todt, P. V'kovski, Y. Brueggemann, J. Steinmann, E. Steinmann, V. Thiel and S. Pfaender (2020) Temperature-dependent surface stability of SARS-CoV-2 J Infect, 81(3):452-482
Pubmed - S.H. Carl, L. Duempelmann, Y. Shimada and M. Bühler (2020) A fully automated deep learning pipeline for high-throughput colony segmentation and classification Biol Open, bio.052936
Pubmed - J. Humphrey, N. Birsa, C. Milioto, M. McLaughlin, A.M. Ule, D. Robaldo, A.B. Eberle, R. Kräuchi, M. Bentham, A.L. Brown, S. Jarvis, C. Bodo, M.G. Garone, A. Devoy, G. Soraru, A. Rosa, I. Bozzoni, E.M.C. Fisher, O. Mühlemann, G. Schiavo, M.D. Ruepp, A.M. Isaacs, V. Plagnol and P. Fratta (2020) FUS ALS-causative mutations impair FUS autoregulation and splicing factor networks through intron retention Nucleic Acids Res,48(12), 6889-6905
Pubmed - J.C. Rose, N.A. Popp, C.D. Richardson, J.J. Stephany, J. Mathieu, C.T. Wei, J.E. Corn, D.J. Maly and D.M. Fowler (2020) Suppression of unwanted CRISPR-Cas9 editing by co-administration of catalytically inactivating truncated guide RNAs Nat Commun, 11(1), 2697
Pubmed - I. Rzeszutek, X.X. Maurer-Alcalá and M. Nowacki (2020) Programmed genome rearrangements in ciliates Cell Mol Life Sci, 77(22):4615-4629
Pubmed - D. Wrona, O. Pastukhov, R.S. Pritchard, F. Raimondi, J. Tchinda, M. Jinek, U. Siler and J. Reichenbach (2020) CRISPR-Directed Therapeutic Correction at the NCF1 Locus Is Challenged by Frequent Incidence of Chromosomal Deletions Mol Ther Methods Clin Dev, 17, 936-943
Pubmed - F. Yang, Y. Lan, R.R. Pandey, D. Homolka, S.L. Berger, R.S. Pillai, M.S. Bartolomei and P.J. Wang (2020) TEX15 associates with MILI and silences transposable elements in male germ cells Genes Dev, 34(11-12), 745-750
Pubmed - T.T.N. Thao, F. Labroussaa, N. Ebert, P. V'kovski, H. Stalder, J. Portmann, J. Kelly, S. Steiner, M. Holwerda, A. Kratzel, M. Gultom, K. Schmied, L. Laloli, L. Hüsser, M. Wider, S. Pfaender, D. Hirt, V. Cippà, S. Crespo-Pomar, S. Schröder, D. Muth, D. Niemeyer, V. Corman, M.A. Müller, C. Drosten, R. Dijkman, J. Jores and V. Thiel (2020) Rapid reconstruction of SARS-CoV-2 using a synthetic genomics platform Nature, 582(7813), 561-565
Pubmed - B. Wienert, D.N. Nguyen, A. Guenther, S.J. Feng, M.N. Locke, S.K. Wyman, J. Shin, K.R. Kazane, G.L. Gregory, M.A.M. Carter, F. Wright, B.R. Conklin, A. Marson, C.D. Richardson and J.E. Corn (2020) Timed inhibition of CDC7 increases CRISPR-Cas9 mediated templated repair Nat Commun, 11(1), 2109
Pubmed - A. Loffreda, M. Nizzardo, A. Arosio, M.D. Ruepp, R.A. Calogero, S. Volinia, M. Galasso, C. Bendotti, C. Ferrarese, C. Lunetta, M. Rizzuti, A. Ronchi, O. Mühlemann, L. Tremolizzo, S. Corti and S.M.L. Barabino (2020) miR-129-5p: A key factor and therapeutic target in amyotrophic lateral sclerosis Prog Neurobiol, 190, 101803
Pubmed - K. Davies and M. Jinek (2020) The CRISPR-RNA World: An Interview with Martin Jinek CRISPR J, 3(2), 68-72
Pubmed - B. Wienert, S.K. Wyman, C.D. Yeh, B.R. Conklin and J.E. Corn (2020) CRISPR off-target detection with DISCOVER-seq Nat Protoc, 15(5), 1775-1799E
Pubmed - F. Halloy, P.S. Iyer, P. Cwiek, A. Ghidini, J. Barman-Aksözen, N. Wildner-Verhey van Wijk, A.P.A. Theocharides, E.I. Minder, X. Schneider-Yin, D. Schümperli and J. Hall (2020) Delivery of oligonucleotides to bone marrow to modulate ferrochelatase splicing in a mouse model of erythropoietic protoporphyria Nucleic Acids Res, 48(9), 658-4671
Pubmed - L. Bracher, I. Ferro, C. Pulido-Quetglas, M.D. Ruepp, R. Johnson and N. Polacek (2020) Human vtRNA1-1 Levels Modulate Signaling Pathways and Regulate Apoptosis in Human Cancer Cells Biomolecules, 10(4), 614
Pubmed - C. Berk, G. Civenni, Y. Wang, C. Steuer, C.V. Catapano and J. Hall (2020) Pharmacodynamic and Pharmacokinetic Properties of Full Phosphorothioate Small Interfering RNAs for Gene Silencing In Vivo Nucleic Acid Ther, 31(3):237-244
Pubmed - C. Guay, B. Abdulkarim, J.Y. Tan, G. Dubuis, S. Rütti, D. Ross Laybutt, C. Widmann, R. Regazzi and A.C. Marques (2020) Loss-of-function of the long non-coding RNA A830019P07Rik in mice does not affect insulin expression and secretion Sci Rep, 10(1), 6413
Pubmed - V. Bhaskar, A. Graff-Meyer, A.D. Schenk, S. Cavadini, O. von Loeffelholz, S.K. Natchiar, C.G. Artus-Revel, H.R. Hotz, G. Bretones, B.P. Klaholz and J.A. Chao (2020) Dynamics of uS19 C-Terminal Tail during the Translation Elongation Cycle in Human Ribosomes Cell Rep, 31(1), 107473
Pubmed - D. Faktorová, R.E.R. Nisbet, J.A. Fernández Robledo, E. Casacuberta, L. Sudek, A.E. Allen, M. Jr. Ares M, C. Aresté, C. Balestreri, A.C. Barbrook, P. Beardslee, S. Bender, D.S. Booth, F.Y. Bouget, C. Bowler, S.A. Breglia, C. Brownlee, G. Burger, H. Cerutti, R. Cesaroni, M.A. Chiurillo, T. Clemente, D.B. Coles, J.L. Collier, E.C. Cooney, K. Coyne, R. Docampo, C.L. Dupont, V. Edgcomb, E. Einarsson, P.A. Elustondo, F. Federici, V. Freire-Beneitez, N.J. Freyria, K. Fukuda, P.A. García, P.R. Girguis, F. Gomaa, S.G. Gornik, J. Guo, V. Hampl, Y. Hanawa, E.R. Haro-Contreras, E. Hehenberger, A. Highfield, Y. Hirakawa, A. Hopes, C.J. Howe, I. Hu, J. Ibañez, N.A.T. Irwin, Y. Ishii, N.E. Janowicz, A.C. Jones, A. Kachale, K. Fujimura-Kamada, B. Kaur, J.Z. Kaye, E. Kazana, P.J. Keeling, N. King, L.A. Klobutcher, N. Lander, I. Lassadi, Z. Li, S. Lin, J.C. Lozano, F. Luan, S. Maruyama, T. Matute, C. Miceli, J. Minagawa, M. Moosburner, S.R. Najle, D. Nanjappa, I.C. Nimmo, L. Noble, A.M.G. Novák Vanclová, M. Nowacki, I. Nuñez, A. Pain, A. Piersanti, S. Pucciarelli, J. Pyrih, J.S. Rest, M. Rius, D. Robertson, A. Ruaud, I. Ruiz-Trillo, M.A. Sigg, P.A. Silver, C.H. Slamovits, G. Jason Smith, B.N. Sprecher, R. Stern, E.C. Swart, A.D. Tsaousis, L. Tsypin, A. Turkewitz, J. Turnšek, M. Valach, V. Vergé, P. von Dassow, T. von der Haar, R.F. Waller, L. Wang, X. Wen, G. Wheeler, A. Woods, H. Zhang, T. Mock, A.Z. Worden and J. Lukeš (2020) Genetic tool development in marine protists: emerging model organisms for experimental cell biology Nat Methods, 17(5), 481-494
Pubmed - V. Castelo-Szekely and D. Gatfield (2020) Emerging roles of translational control in circadian timekeeping J Mol Biol, 432(12), 3483-3497
Pubmed - S. Shikha and A. Schneider (2020) The single CCA-adding enzyme of T. brucei has distinct functions in the cytosol and in mitochondria J Biol Chem, 295(18), 6138-6150
Pubmed - Y. Gonskikh, M. Gerstl, M. Kos, N. Borth, M. Schosserer, J. Grillari and N. Polacek (2020) Modulation of mammalian translation by a ribosome-associated tRNA half RNA Biol, 17(8):1125-1136
Pubmed - C. Azzi, F. Aeschimann, A. Neagu and H. Grosshans (2020) A branched heterochronic pathway directs juvenile-to-adult transition through two LIN-29 isoforms Elife, 9, e53387
Pubmed - C. Garcia-Doval, F. Schwede, C. Berk, J.T. Rostøl, O. Niewoehner, O. Tejero, J. Hall, L.A. Marraffini and M. Jinek (2020) Activation and self-inactivation mechanisms of the cyclic oligoadenylate-dependent CRISPR ribonuclease Csm6 Nat Commun, 11(1), 1596
Pubmed - M. Niemann and A. Schneider (2020) A Scalable Purification Method for Mitochondria from Trypanosoma brucei Methods Mol Biol, 2116, 611-626
Pubmed - M. Schäfer and C. Ciaudo (2020) Prediction of the miRNA interactome - Established methods and upcoming perspectives Comput Struct Biotechnol J, 18, 548-557
Pubmed - S. Emming, N. Bianchi, S. Polletti, C. Balestrieri, C. Leoni, S. Montagner, M. Chirichella, N. Delaleu, G. Natoli and S. Monticelli (2020) A molecular network regulating the proinflammatory phenotype of human memory T lymphocytes Nat Immunol, 21, 388-399
Pubmed - I. Aphasizheva, J. Alfonzo, J. Carnes, I. Cestari, J. Cruz-Reyes, H.U. Göringer, S. Hajduk, J. Lukeš, S. Madison-Antenucci, D.A. Maslov, S.M. McDermott, T. Ochsenreiter, L.K. Read, R. Salavati, A. Schnaufer, A. Schneider, L. Simpson, K. Stuart, V. Yurchenko, Z.H. Zhou, A. Zíková, L. Zhang, S. Zimmer and R. Aphasizhev (2020) Lexis and Grammar of Mitochondrial RNA Processing in Trypanosomes Trends Parasitol, 36(4), 337-355
Pubmed - M.K. Studer, L. Ivanovic, M.E. Weber, S. Marti and S. Jonas (2020) Structural basis for DEAH-helicase activation by G-patch proteins Proc Natl Acad Sci U S A, 117(13), 7159-7170
Pubmed - A. Biasini and A.C. Marques (2020) A Protocol for Transcriptome-Wide Inference of RNA Metabolic Rates in Mouse Embryonic Stem Cells Front Cell Dev Biol, 8, 97
Pubmed - C. Maris, S. Jayne, F.F. Damberger, I. Beusch, G. Dorn, S. Ravindranathan and F.H. Allain (2020) A transient alpha-helix in the N-terminal RNA recognition motif of polypyrimidine tract binding protein senses RNA secondary structure Nucleic Acids Res, 48(8), 4521-4537
Pubmed - J.R. Liang, E. Lingeman, T. Luong, S. Ahmed, M. Muhar, T. Nguyen, J.A. Olzmann and J.E. Corn (2020) A Genome-wide ER-phagy Screen Highlights Key Roles of Mitochondrial Metabolism and ER-Resident UFMylation Cell, 180(6), 1160-1177.e20
Pubmed - T. Wiegand, D. Lacabanne, A. Torosyan, J. Boudet, R. Cadalbert, F.H. Allain, B.H. Meier and A. Böckmann (2020) Sedimentation Yields Long-Term Stable Protein Samples as Shown by Solid-State NMR Front Mol Biosci, 7,17
Pubmed - C. Montellese, J. van den Heuvel, C. Ashiono, K. Dörner, A. Melnik, S. Jonas, I. Zemp, P. Picotti, L.C. Gillet and U. Kutay (2020) USP16 counteracts mono-ubiquitination of RPS27a and promotes maturation of the 40S ribosomal subunit Elife, 9, e54435
Pubmed - A. González, M.N. Hall, S.C. Lin and D.G. Hardie (2020) AMPK and TOR: The Yin and Yang of Cellular Nutrient Sensing and Growth Control Cell Metab, 31(3), 472-492
Pubmed - J.C. Guimaraes, N. Mittal, A. Gnann, D. Jedlinski, A. Riba, K. Buczak, A. Schmidt and M. Zavolan (2020) A rare codon-based translational program of cell proliferation Genome Biol, 21(1), 44
Pubmed - C. von Känel, S.A. Muñoz-Gómez, S. Oeljeklaus, C. Wenger, B. Warscheid, J.G. Wideman, A. Harsman and A. Schneider (2020) Homologue replacement in the import motor of the mitochondrial inner membrane of trypanosomes Elife, 9, e52560
Pubmed - J.Y. Tan, A. Biasini, R.S. Young and A.C. Marques (2020) Splicing of enhancer-associated lincRNAs contributes to enhancer activity Life Sci Alliance, 3(4), e202000663
Pubmed - A. Vancevska, W. Ahmed, V. Pfeiffer, M. Feretzaki, S.J. Boulton and J. Lingner (2020) SMCHD1 promotes ATM-dependent DNA damage signaling and repair of uncapped telomeres EMBO J, 39(7), e102668
Pubmed - A. Haas, B.S. Nilges, S.A. Leidel and K.H. Klempnauer KH (2020) PDCD4 controls the G1/S-phase transition in a telomerase-immortalized epithelial cell line and affects the expression level and translation of multiple mRNAs Sci Rep, 10(1), 2758
Pubmed - L. Quero, A.N. Tiaden, E. Hanser, J. Roux, A. Laski, J. Hall and D. Kyburz (2020) miR-221-3p Drives the Shift of M2-Macrophages to a Pro-Inflammatory Function by Suppressing JAK3/STAT3 Activation Front Immunol, 10, 3087
Pubmed - J. Carlevaro-Fita, A. Lanzós, L. Feuerbach, C. Hong, D. Mas-Ponte, J.S. Pedersen, PCAWG Drivers and Functional Interpretation Group, Johnson R and PCAWG Consortium (2020) Cancer LncRNA Census reveals evidence for deep functional conservation of long noncoding RNAs in tumorigenesis Commun Biol, 3(1), 56
Pubmed - E. Rheinbay, M.M. Nielsen, F. Abascal, J.A. Wala, O. Shapira, G. Tiao, H. Hornshøj, J.M. Hess, R.I. Juul, Z. Lin, L. Feuerbach, R. Sabarinathan, T. Madsen, J. Kim, L. Mularoni, S. Shuai, A. Lanzós, C. Herrmann, Y.E. Maruvka, C. Shen, S.B. Amin, P. Bandopadhayay, J. Bertl, K.A. Boroevich, J. Busanovich, J. Carlevaro-Fita, D. Chakravarty, C.W.Y. Chan, D. Craft, P. Dhingra, K. Diamanti, N.A. Fonseca, A. Gonzalez-Perez, Q. Guo, M.P. Hamilton, N.J. Haradhvala, C. Hong, K. Isaev, T.A. Johnson, M. Juul, A. Kahles, A. Kahraman, Y. Kim, J. Komorowski, K. Kumar, S. Kumar, D. Lee, K.V. Lehmann, Y. Li, E.M. Liu, L. Lochovsky, K. Park, O. Pich, N.D. Roberts, G. Saksena, S.E. Schumacher, N. Sidiropoulos, L. Sieverling, N. Sinnott-Armstrong, C. Stewart, D. Tamborero, J.M.C. Tubio, H.M. Umer, L. Uusküla-Reimand, C. Wadelius, L. Wadi, X. Yao, C.Z. Zhang, J. Zhang, J.E. Haber, A. Hobolth, M. Imielinski, M. Kellis, M.S. Lawrence, C. von Mering, H. Nakagawa, B.J. Raphael, M.A. Rubin, C. Sander, L.D. Stein, J.M. Stuart, T. Tsunoda, D.A. Wheeler, R. Johnson, J. Reimand, M. Gerstein, E. Khurana, P.J. Campbell, N. López-Bigas, PCAWG Drivers and Functional Interpretation Working Group, PCAWG Structural Variation Working Group, J. Weischenfeldt, R. Beroukhim, I. Martincorena, J.S. Pedersen, G. Getz and PCAWG Consortium (2020) Analyses of non-coding somatic drivers in 2,658 cancer whole genomes Nature, 578(7793), 102-111
Pubmed - A.C. Tuck, A. Rankova, A.B. Arpat, L.A. Liechti, D. Hess, V. Iesmantavicius, V. Castelo-Szekely, D. Gatfield and M. Bühler (2020) Mammalian RNA Decay Pathways Are Highly Specialized and Widely Linked to Translation Mol Cell, 77(6), 1222-1236.e13
Pubmed - M. Müller, F. Fazi and C. Ciaudo (2020) Argonaute Proteins: From Structure to Function in Development and Pathological Cell Fate Determination Front Cell Dev Biol, 7, 360
Pubmed - M. Heusel, M. Frank, M. Köhler, S. Amon, F. Frommelt, G. Rosenberger, I. Bludau, S. Aulakh, M.I. Linder, Y. Liu, B.C. Collins, M. Gstaiger, U. Kutay and R. Aebersold (2020) A Global Screen for Assembly State Changes of the Mitotic Proteome by SEC-SWATH-MS Cell Syst, 10(2), 133-155.e6
Pubmed - D. Hasler, R. Meduri, M. Bak, G. Lehmann, L. Heizinger, X. Wang, Z.T. Li, F.M. Sement, A. Bruckmann, A.C. Dock-Bregeon, R. Merkl, R. Kalb, E. Grauer, E. Kunstmann, M. Zavolan, M.F. Liu, U. Fischer and G. Meister (2020) The Alazami Syndrome-Associated Protein LARP7 Guides U6 Small Nuclear RNA Modification and Contributes to Splicing Robustness Mol Cell, 77(5), 1014-1031.e13
Pubmed - V. Shankar, R. Rauscher, J. Reuther, W.H. Gharib, M. Koch and N. Polacek (2020) rRNA expansion segment 27Lb modulates the factor recruitment capacity of the yeast ribosome and shapes the proteome Nucleic Acids Res, 48(6), 3244-3256
Pubmed - L. Duempelmann, M. Skribbe and M. Bühler (2020) Small RNAs in the Transgenerational Inheritance of Epigenetic Information Trends Genet, 36(3), 203-214
Pubmed - S.E. Allen and M. Nowacki (2020) Roles of non-coding RNAs in ciliate genome architecture J Mol Biol, 432(15), 4186-4198
Pubmed - D. Liko, A. Rzepiela, V. Vukojevic, M. Zavolan and M.N. Hall (2020) Loss of TSC complex enhances gluconeogenesis via upregulation of Dlk1-Dio3 locus miRNAs Proc Natl Acad Sci U S A, 117(3), 1524-1532
Pubmed - X. Ding, S. Willenborg, W. Bloch, S.A. Wickström, P. Wagle, S. Brodesser, A. Roers, A. Jais, J.C. Brüning, M.N. Hall, M.A. Rüegg and S.A. Eming (2020) Epidermal mTORC2 controls lipid synthesis and filaggrin processing in epidermal barrier formation J Allergy Clin Immunol, 145(1), 283-300.e8
Pubmed - N.T. Ross, F. Lohmann, S. Carbonneau, A. Fazal, W.A. Weihofen, S. Gleim, M. Salcius, F. Sigoillot, M. Henault, S.H. Carl, J.B. Rodríguez-Molina, H.R. Miller, S.M. Brittain, J. Murphy, M. Zambrowski, G. Boynton, Y. Wang, A. Chen, G.J. Molind, J.H. Wilbertz, C.G. Artus-Revel, M. Jia, F.A. Akinjiyan, J. Turner, J. Knehr, W. Carbone, S. Schuierer, J.S. Reece-Hoyes, K. Xie, C. Saran, E.T. Williams, G. Roma, M. Spencer, J. Jenkins, E.L. George, J.R. Thomas, G. Michaud, M. Schirle, J. Tallarico, L.A. Passmore, J.A. Chao and R.E.J. Beckwith (2020) CPSF3-dependent pre-mRNA processing as a druggable node in AML and Ewing's sarcoma Nat Chem Biol, 16(1), 50-59
Pubmed - R. Pinto, C.B. Vågbø, M.E. Jakobsson, Y. Kim, M.P. Baltissen, M.F. O'Donohue, U.H. Guzmán, J.M. Malecki, J. Wu, F. Kirpekar, J.V. Olsen, P.E. Gleizes, M. Vermeulen, S.A. Leidel, G. Slupphaug and PØ Falnes (2020) The human methyltransferase ZCCHC4 catalyses N6-methyladenosine modification of 28S ribosomal RNA Nucleic Acids Res, 48(2), 830-846
Pubmed - C.J. Herrmann, R. Schmidt, A. Kanitz, P. Artimo, A.J. Gruber and M. Zavolan (2020) PolyASite 2.0: a consolidated atlas of polyadenylation sites from 3' end sequencing Nucleic Acids Res, 48(D1), D174-D179
Pubmed - J. Bergadà-Pijuan, C. Pulido-Quetglas, A. Vancura and R. Johnson (2020) CASPR, an analysis pipeline for single and paired guide RNA CRISPR screens, reveals optimal target selection for long noncoding RNAs Bioinformatics, 36(6), 1673-1680
Pubmed - A. Schneider (2019) Evolution of mitochondrial protein import - lessons from trypanosomes Biol Chem, 401(6-7), 663-676
Pubmed
2019 Publications
2019 Publications
- H. Wu, L. Li, K.M. Chen, D. Homolka, P. Gos, F. Fleury-Olela, A.A. McCarthy and R.S. Pillai (2019) Decapping Enzyme NUDT12 Partners with BLMH for Cytoplasmic Surveillance of NAD-Capped RNAs Cell Rep, 29(13), 4422-4434.e13
Pubmed - E.A. Coe, J.Y. Tan, M. Shapiro, P. Louphrasitthiphol, A.R. Bassett, A.C. Marques, C.R. Goding and K.W. Vance (2019) The MITF-SOX10 regulated long non-coding RNA DIRC3 is a melanoma tumour suppressor PLoS Genet, 15(12), e1008501
Pubmed - J. Hall (2019) Phosphorus - Friend of the Medicinal Chemist Chimia, 73(12), 1035-1036
Pubmed - M. Jinek (2019) Uncut but Primed for Change CRISPR J, 2(6), 352-354
Pubmed - F. Tang, R. Gao, B. Jeevan-Raj, C.B. Wyss, R.K.R. Kalathur, S. Piscuoglio, C.K.Y. Ng, S.K. Hindupur, S. Nuciforo, E. Dazert, T. Bock, S. Song, D. Buechel, M.F. Morini, A. Hergovich, P. Matthias, D.S. Lim, L.M. Terracciano, M.H. Heim, M.N. Hall and G. Christofori (2019) LATS1 but not LATS2 represses autophagy by a kinase-independent scaffold function Nat Commun, 10(1), 5755
Pubmed - C.D. Yeh, C.D. Richardson and J.E. Corn (2019) Advances in genome editing through control of DNA repair pathways Nat Cell Biol, 21(12), 1468-1478
Pubmed - C. Heissenberger, L. Liendl, F. Nagelreiter, Y. Gonskikh, G. Yang, E.M. Stelzer, T.L. Krammer, L. Micutkova, S. Vogt, D.P. Kreil, G. Sekot, E. Siena, I. Poser, E. Harreither, A. Linder, V. Ehret, T.H. Helbich, R. Grillari-Voglauer, P. Jansen-Dürr, M. Koš, N. Polacek, J. Grillari and M. Schosserer (2019) Loss of the ribosomal RNA methyltransferase NSUN5 impairs global protein synthesis and normal growth Nucleic Acids Res, 47(22), 11807-11825
Pubmed - S. Campagne, S. Boigner, S. Rüdisser, A. Moursy, L. Gillioz, A. Knörlein, J. Hall, H. Ratni, A. Cléry and F.H. Allain (2019) Structural basis of a small molecule targeting RNA for a specific splicing correction Nat Chem Biol, 15(12), 1191-1198
Pubmed - F.H. Allain and M. Jinek (2019 ) Editorial overview: Protein-nucleic acid interactions - cryo-EM, what else? Curr Opin Struct Biol, 59, vi-viii
Pubmed - A.U. Müller, M. Leibundgut, N. Ban and E. Weber-Ban (2019) Structure and functional implications of WYL domain-containing bacterial DNA damage response regulator PafBC Nat Commun 10(1),4653
Pubmed - K.C. Nikolaou, H. Vatandaslar, C. Meyer, M.W. Schmid, T. Tuschl and M. Stoffel (2019) The RNA-Binding Protein A1CF Regulates Hepatic Fructose and Glycerol Metabolism via Alternative RNA Splicing Cell Rep 29(2),283-300.e8
Pubmed - J. Bergsch, F.H. Allain and G. Lipps (2019) Recent advances in understanding bacterial and archaeoeukaryotic primases Curr Opin Struct Biol, 59, 159-167
Pubmed - S. Wang, A. Jomaa, M. Jaskolowski, C.I. Yang, N. Ban and S.O. Shan (2019) The molecular mechanism of cotranslational membrane protein recognition and targeting by SecA Nat Struct Mol Biol, 26(10), 919-929
Pubmed - J. Biswas, V.L. Patel, V. Bhaskar, J.A. Chao, R.H. Singer and C. Eliscovich (2019) The structural basis for RNA selectivity by the IMP family of RNA-binding proteins Nat Commun 10(1), 4440
Pubmed - J. Lorent, E.P. Kusnadi, V. van Hoef, R.J. Rebello, M. Leibovitch, J. Ristau, S. Chen, M.G. Lawrence, K.J. Szkop, B. Samreen, P. Balanathan, F. Rapino, P. Close, P. Bukczynska, K. Scharmann, I. Takizawa, G.P. Risbridger, L.A. Selth, S.A. Leidel, Q. Lin, I. Topisirovic, O. Larsson and L. Furic (2019) Translational offsetting as a mode of estrogen receptor alpha-dependent regulation of gene expression EMBO J, 38(23), e101323
Pubmed - C. Eichenberger, S. Oeljeklaus, J. Bruggisser, J. Mani, B. Haenni, I. Kaurov, M. Niemann, B. Zuber, J. Lukeš, H. Hashimi, B. Warscheid, B. Schimanski and A. Schneider (2019) The highly diverged trypanosomal MICOS complex is organized in a non-essential integral membrane and an essential peripheral module Mol Microbiol, 112(6), 1731-1743
Pubmed - M. Saurer, D.J.F. Ramrath, M. Niemann, S. Calderaro, C. Prange, S. Mattei, A. Scaiola, A. Leitner, P. Bieri, E.K. Horn, M. Leibundgut, D. Boehringer, A. Schneider and N. Ban (2019) Mitoribosomal small subunit biogenesis in trypanosomes involves an extensive assembly machinery Science, 365(6458), 1144-1149
Pubmed - R.D. Luteijn, S.A. Zaver, B.G. Gowen, S.K. Wyman, N.E. Garelis, L. Onia, S.M. McWhirter, G.E. Katibah, J.E. Corn, J.J. Woodward and D.H. Raulet (2019) SLC19A1 transports immunoreactive cyclic dinucleotides Nature, 573(7774), 434-438
Pubmed - L.J.T. Kaaij, F. Mohn, R.H. van der Weide, E. de Wit E and M. Bühler (2019) The ChAHP Complex Counteracts Chromatin Looping at CTCF Sites that Emerged from SINE Expansions in Mouse Cell,178(6),1437-1451.e14
Pubmed - J. Xue, E. Scotti and M. Stoffel (2019) CDK8 Regulates Insulin Secretion and Mediates Postnatal and Stress-Induced Expression of Neuropeptides in Pancreatic Beta Cells Cell Rep, 28(11), 2892-2904.e7
Pubmed - A. Kumar, M. Clerici, L.M. Muckenfuss, L.A. Passmore and M. Jinek (2019) Mechanistic insights into mRNA 3'-end processing Curr Opin Struct Biol, 59, 143-150
Pubmed - C.E. Dumeau, Monfort A, L. Kissling, D.C Swarts, M. Jinek and A. Wutz (2019) Introducing gene deletions by mouse zygote electroporation of Cas12a/Cpf1 Transgenic Res, 28(5-6), 525-535
Pubmed - M. Mendel and R.S. Pillai (2019) Nxf3: a middleman with the right connections for unspliced piRNA precursor export Genes Dev, 33(17-18):1095-1097
Pubmed - M. Weisser and N. Ban (2019) Extensions, Extra Factors, and Extreme Complexity: Ribosomal Structures Provide Insights into Eukaryotic Translation Cold Spring Harb Perspect Biol, 11(9), pii:a032367
Pubmed - D. Homolka and R.S. Pillai (2019) An RNA exporter that enforces a no-export policy Nat Struct Mol Biol, 26(9), 758-759
Pubmed - T. Hagen, A.L. Malinowska, H.L. Lightfoot, M. Bigatti and J. Hall (2019) Site-Specific Fluorophore Labeling of Guanosines in RNA G-Quadruplexes ACS Omega 4(5), 8472-8479
Pubmed - G. Bottoni, A. Katarkar, B. Tassone, S. Ghosh, A. Clocchiatti, S. Goruppi, P. Bordignon, P. Jafari, F. Tordini, T. Lunardi, W. Hoetzenecker, V. Neel, J. Lingner and G. Paolo Dotto (2019) CSL controls telomere maintenance and genome stability in human dermal fibroblasts Nat Commun, 10(1),3884
Pubmed - M. Diether, Y. Nikolaev, F.H. Allain and U. Sauer (2019) Systematic mapping of protein-metabolite interactions in central metabolism of Escherichia coli Mol Syst Biol, 15 (8), e9008
Pubmed - E.I. Kessi-Pérez, F. Salinas, A. González, Y. Su, J.M. Guillamón, M.N. Hall, L.F. Larrondo and C. Martínez (2019) KAE1 Allelic Variants Affect TORC1 Activation and Fermentation Kinetics in Saccharomyces cerevisiae Front Microbiol, 10, 1686
Pubmed - F. Voigt, J. Eglinger and J.A. Chao (2019) Quantification of mRNA Turnover in Living Cells: A Pipeline for TREAT Data Analysis Methods Mol Biol, 2038,75-88
Pubmed - M. Gamerdinger, K. Kobayashi, A. Wallisch, S.G. Kreft, C. Sailer, R. Schlömer, N. Sachs, A. Jomaa, F. Stengel, N. Ban and E. Deuerling (2019) Early Scanning of Nascent Polypeptides inside the Ribosomal Tunnel by NAC Mol Cell, 75(5), 996-1006.e8
Pubmed - Y. Nikolaev, N. Ripin, M. Soste, P. Picotti, D. Iber and F.H. Allain (2019) Systems NMR: single-sample quantification of RNA, proteins and metabolites for biomolecular network analysis Nat Methods, 16(8), 743-749
Pubmed - T. Welte, A.C. Tuck, P. Papasaikas, S.H. Carl, M. Flemr, P. Knuckles, A. Rankova, M. Bühler and H. Großhans (2019) The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1 Genes Dev, 33(17-18), 1221-1235
Pubmed - R.R. Pandey and R.S. Pillai (2019) Counting the Cuts: MAZTER-Seq Quantifies m(6)A Levels Using a Methylation-Sensitive Ribonuclease Cell,178(3), 515-517
Pubmed - J.L Huot, S. Shikha and A. Schneider (2019) Inducible orthogonal aminoacylation demonstrates that charging is required for mitochondrial tRNA import in Trypanosoma brucei Sci Rep, 9(1), 10836
Pubmed - M. Feretzaki, P. Renck Nunes and J. Lingner (2019) Expression and differential regulation of human TERRA at several chromosome ends RNA, 25(11), 1470-1480
Pubmed - H.L. Lightfoot, T. Hagen, N.J. Tatum and J. Hall (2019) The diverse structural landscape of quadruplexes FEBS Lett, 593(16), 2083-2102
Pubmed - A. Riba, N. Di Nanni, N. Mittal, E. Arhné, A. Schmidt and M. Zavolan (2019) Protein synthesis rates and ribosome occupancies reveal determinants of translation elongation rates Proc Natl Acad Sci U S A, 116(30), 15023-15032
Pubmed - S. Kabir, J. Cidado, C. Andersen, C. Dick, P.C. Lin, T. Mitros, H. Ma, S.H. Baik, M.A. Belmonte, L. Drew and J.E. Corn (2019) The CUL5 ubiquitin ligase complex mediates resistance to CDK9 and MCL1 inhibitors in lung cancer cells Elife, pii: e44288
Pubmed - A.J. Gruber and M. Zavolan (2019) Alternative cleavage and polyadenylation in health and disease Nat Rev Genet, 20(10), 599-614
Pubmed - A. Leitner, G. Dorn and F.H. Allain (2019) Combining Mass Spectrometry (MS) and Nuclear Magnetic Resonance (NMR) Spectroscopy for Integrative Structural Biology of Protein-RNA Complexes Cold Spring Harb Perspect Biol 11(7), pii: a032359
Pubmed - N. Ranjan and S.A. Leidel (2019) The epitranscriptome in translation regulation: mRNA and tRNA modifications as the two sides of the same coin? FEBS Lett, 593(13), 1483-1493
Pubmed - J. Carlevaro-Fita, L. Liu, Y. Zhou, S. Zhang, P. Chouvardas, R. Johnson and J. Li (2019) LnCompare: gene set feature analysis for human long non-coding RNAs Nucleic Acids Res, 47(W1), W523-W529
Pubmed - D. Benjamin and M.N. Hall (2019) Lactate jump-starts mTORC1 in cancer cells EMBO Rep, 20(6), e48302
Pubmed - A. Cléry, L. Gillioz, C.K.X. Nguyen and F. H.-T. Allain (2019) A Step-by-Step Guide to Study Protein-RNA Interactions Chimia 73(6), 406-414
Pubmed - S. Shikha, R. Brogli, A. Schneider and N. Polacek (2019) tRNA Biology in Trypanosomes Chimia 73(6), 395-405
Pubmed - M. Tusup, L.E. French, M. De Matos, D. Gatfield, T. Kundig and S. Pascolo (2019) Design of in vitro Transcribed mRNA Vectors for Research and Therapy Chimia 73(6):391-394
Pubmed - T. Afroz, M. Pérez-Berlanga and M. Polymenidou (2019) Structural Transition, Function and Dysfunction of TDP-43 in Neurodegenerative Diseases Chimia 73(6), 380-390
Pubmed - L. Contu, S. Steiner, V. Thiel and O. Mühlemann (2019) The Role of Stress Granules and the Nonsense-mediated mRNA Decay Pathway in Antiviral Defence Chimia 73(6),374-379
Pubmed - P. Röthlisberger, C. Berk C and J. Hall (2019) RNA Chemistry for RNA Biology Chimia 73(6), 368-373
Pubmed - J.A. Schröder and P.E. Jullien (2019) The Diversity of Plant Small RNAs Silencing Mechanisms Chimia 73(6), 362-367
Pubmed - E. Maciel and I.M. Mansuy (2019) Extracellular Vesicles and their miRNA Cargo: A Means of Communication between Soma and Germline in the Mammalian Reproductive System Chimia, 73(6), 356-361
Pubmed - O. Mühlemann and F. H.-T. Allain (2019) Editorial Chimia 73(6), 353
Pubmed - V. Schlösser and J. Hall (2019) Labeling microRNA precursors for Dicer assays Anal Biochem, 579, 35-37
Pubmed - B. Trinh B, M. Hepprich, M.J. Betz, T. Burkard, C. Cavelti-Weder, E. Seelig, F. Meienberg, D.V. Kratschmar, F. Beuschlein, M. Reincke, A. Odermatt, M.N. Hall, M.Y. Donath and M.M. Swierczynska (2019) Treatment of Primary Aldosteronism with mTORC1 Inhibitors J Clin Endocrinol Metab, 104(10), 4703-4714
Pubmed - J. Barman-Aksözen, F. Halloy, P.S. Iyer, D. Schümperli, A.E. Minder, J. Hall, E.I. Minder and X. Schneider-Yin (2019) Delta-aminolevulinic acid synthase 2 expression in combination with iron as modifiers of disease severity in erythropoietic protoporphyria Mol Genet Metab, 128(3), 304-308
Pubmed - X.X. Maurer-Alcalá and M. Nowacki (2019) Evolutionary origins and impacts of genome architecture in ciliates Ann N Y Acad Sci, 1447(1), 110-118
Pubmed - J.W. Hegge, D.C. Swarts, S.D. Chandradoss, T.J. Cui, J. Kneppers, M. Jinek, C. Joo and J. van der Oost (2019) DNA-guided DNA cleavage at moderate temperatures by Clostridium butyricum Argonaute Nucleic Acids Res, 47(11), 5809-5821
Pubmed - T.M. Sirey, K. Roberts, W. Haerty, O. Bedoya-Reina, S. Rogatti-Granados, J.Y. Tan, N. Li, L.C. Heather, R.N. Carter, S. Cooper, A.J. Finch, J. Wills, N.M Morton, A.C. Marques and C.P. Ponting (2019) The long non-coding RNA Cerox1 is a post transcriptional regulator of mitochondrial complex I catalytic activity Elife 8, e45051
Pubmed - C.G. Ricci, J.S. Chen, Y. Miao, M. Jinek, J.A. Doudna, J.A. McCammon and G. Palermo (2019) Deciphering Off-Target Effects in CRISPR-Cas9 through Accelerated Molecular Dynamics ACS Cent Sci 5(4), 651-662
Pubmed - F. Voigt, J.V. Gerbracht, V. Boehm, I. Horvathova, J. Eglinger, J.A. Chao and N.H. Gehring (2019) Detection and quantification of RNA decay intermediates using XRN1-resistant reporter transcripts Nat Protoc, 14(5), 1603-1633
Pubmed - B. Wienert, S.K. Wyman, C.D. Richardson, C.D. Yeh, P. Akcakaya, M.J. Porritt, M. Morlock, J.T. Vu, K.R. Kazane, H.L. Watry, L.M. Judge, B.R. Conklin, M. Maresca and J.E. Corn (2019) Unbiased detection of CRISPR off-targets in vivo using DISCOVER-Seq Science 364(6437), 286-289
Pubmed - V. Castelo-Szekely, M. De Matos, M. Tusup, S. Pascolo, J. Ule and D. Gatfield (2019) Charting DENR-dependent translation reinitiation uncovers predictive uORF features and links to circadian timekeeping via Clock Nucleic Acids Res, 47(10), 5193-5209
Pubmed - P. Denichenko, M. Mogilevsky, A. Cléry, T. Welte, J. Biran, O. Shimshon, G.D. Barnabas, M. Danan-Gotthold, S. Kumar, E. Yavin, E.Y. Levanon, F.H. Allain, T. Geiger, G. Levkowitz and R. Karni (2019) Specific inhibition of splicing factor activity by decoy RNA oligonucleotides Nat Commun 10(1):1590
Pubmed - B.J. Walder, C. Berk, W.C. Liao, A.J. Rossini, M. Schwarzwälder, U. Pradere, J. Hall, A. Lesage, C. Copéret and L. Emsley (2019) One- and Two-Dimensional High-Resolution NMR from Flat Surfaces ACS Cent Sci 5(3),515-523
Pubmed - F. Boneberg, T. Brandmann, L. Kobel, J. van den Heuvel, K. Bargsten, L. Bammert, U. Kutay and M. Jinek (2019) Molecular mechanism of the RNA helicase DHX37 and its activation by UTP14 in ribosome biogenesis RNA, 25(6), 685-701
Pubmed - F. Aeschimann, A. Neagu, M. Rausch and H. Grosshans (2019) let-7 coordinates the transition to adulthood through a single primary and four secondary targets Life Sci Alliance 2(2),pii: e201900335
Pubmed - L. Duempelmann, F. Mohn, Y. Shimada, D. Oberti, A. Andriollo, S. Lochs and M. Bühler (2019) Inheritance of a Phenotypically Neutral Epimutation Evokes Gene Silencing in Later Generations Mol Cell, 74(3), 534-541.e4
Pubmed - B. Blasco-Moreno, L. de Campos-Mata, R. Böttcher, J. García-Martínez, J. Jungfleisch, D.D. Nedialkova, S. Chattopadhyay, M.E. Gas, B. Oliva, J.E. Pérez-Ortín, S.A. Leidel, M. Choder and J. Díez (2019)The exonuclease Xrn1 activates transcription and translation of mRNAs encoding membrane proteins Nat Commun 10(1),1298
Pubmed - D. Jacob, K. Thüring, A. Galliot, V. Marchand, A. Galvanin, A. Ciftci, K. Scharmann, M. Stock, J.Y. Roignant, S.A. Leidel, Y. Motorin, R. Schaffrath, R. Klassen and M. Helm (2019) Absolute quantification of noncoding RNA by microscale thermophoresis Angew Chem Int Ed Engl, 58(28), 9565-9569
Pubmed - D. Mayer, F.F. Damberger, M. Samarasimhareddy, M. Feldmueller, Z. Vuckovic, T. Flock, B. Bauer, E. Mutt, F. Zosel, F.H.T. Allain, J. Standfuss, G.F.X. Schertler, X. Deupi, M.E. Sommer, M. Hurevich, A. Friedler and D.B. Veprintsev (2019 )Distinct G protein-coupled receptor phosphorylation motifs modulate arrestin affinity and activation and global conformation Nat Commun 10(1),1261
Pubmed - J. Carlevaro-Fita and R. Johnson (2019) Global Positioning System: Understanding Long Noncoding RNAs through Subcellular Localization Mol Cell 73(5), 869-883
Pubmed - R. Esposito, N. Bosch, A. Lanzós, T. Polidori, C. Pulido-Quetglas and R. Johnson (2019) Hacking the Cancer Genome: Profiling Therapeutically Actionable Long Non-coding RNAs Using CRISPR-Cas9 Screening Cancer Cell, 35(4), 545-557
Pubmed - K. Suda, A. Kaneko, M. Shimobayashi, A. Nakashima, M. Tatsuya, M.N. Hall and T. Ushimaru (2019) TORC1 regulates autophagy induction in response to proteotoxic stress in yeast and human cells Biochem Biophys Res Commun 511(2), 434-439
Pubmed - S. Subramania, L.M. Gagné, S. Campagne, V. Fort, J. O'Sullivan, K. Mocaer, M. Feldmüller, J.Y. Masson, F.H.T. Allain, S.M. Hussein and M.É. Huot (2019) SAM68 interaction with U1A modulates U1 snRNP recruitment and regulates mTor pre-mRNA splicing Nucleic Acids Res, 47(8), 4181-4197
Pubmed - N. Ripin, J. Boudet, M.M. Duszczyk, A. Hinniger, M. Faller, M. Krepl, A. Gadi, R.J. Schneider, J. Šponer J, N.C. Meisner-Kober and F.H. Allain (2019) Molecular basis for AU-rich element recognition and dimerization by the HuR C-terminal RRM Proc Natl Acad Sci U S A 116(8):2935-2944
Pubmed - A. Sendoel, D. Subasic, L. Ducoli, M. Keller, E. Michel, I. Kohler, K.D. Singh, X. Zheng, A. Brümmer, J. Imig, S. Kishore, Y. Wu, A. Kanitz, A. Kaech, N. Mittal, A.M. Matia-González, A.P. Gerber, M. Zavolan, R. Aebersold, J. Hall, F.H. Allain and M.O. Hengartner (2019) MINA-1 and WAGO-4 are part of regulatory network coordinating germ cell death and RNAi in C. elegans Cell Death Differ, 26(10), 2157-2178
Pubmed - V. Paunescu, M. Zavolan and T. Oprea (2019) In memoriam: Francisc Schneider (1933-2017) J Cell Mol Med, 23(4), 3045-3046
Pubmed - L. Kissling, A. Monfort, D.C. Swarts, A. Wutz and M. Jinek (2019) Preparation and electroporation of Cas12a/Cpf1-guide RNA complexes for introducing large gene deletions in mouse embryonic stem cells Methods Enzymol 616,241-263
Pubmed - A. Kanitz, A.P. Syed, K. Kaji and M. Zavolan (2019) Conserved regulation of RNA processing in somatic cell reprogramming BMC Genomics 20(1),100
Pubmed - Y. Miyake, J.J. Keusch, L. Decamps, H. Ho-Xuan, S. Iketani, H. Gut, U. Kutay, A. Helenius and Y. Yamauchi (2019) Influenza virus uses transportin 1 for vRNP debundling during cell entry Nat Microbiol 4(4),578-586
Pubmed - N. Savic, F.C. Ringnalda, C. Berk, K. Bargsten, J. Hall, M. Jinek and G. Schwank (2019) In vitro Generation of CRISPR-Cas9 Complexes with Covalently Bound Repair Templates for Genome Editing in Mammalian Cells Bio Protoc 9(1), pii: e3136
Pubmed - J.H. Wilbertz, F. Voigt, I. Horvathova, G. Roth, Y. Zhan and J.A. Chao (2019) Single-Molecule Imaging of mRNA Localization and Regulation during the Integrated Stress Response Mol Cell 73(5),946-958.e7
Pubmed - D.C. Swarts and M. Jinek (2019) Mechanistic Insights into the cis- and trans-Acting DNase Activities of Cas12a Mol Cell 73(3),589-600.e4
Pubmed - J. Li, I. Vázquez-García, K. Persson, A. González, J.X. Yue, B. Barré, M.N. Hall, A. Long, J. Warringer, V. Mustonen and G. Liti (2019) Shared molecular targets confer resistance over short and long evolutionary timescales Mol Biol Evol, 36(4), 691-708
Pubmed - R. Fricker, R. Brogli, H. Luidalepp, L. Wyss, M. Fasnacht, O. Joss, M. Zywicki, M. Helm, A. Schneider, M. Cristodero and N. Polacek (2019) A tRNA half modulates translation as stress response in Trypanosoma brucei Nat Commun10(1):118
Pubmed - S. Campagne, M. Krepl, J. Sponer and F.H. Allain (2019 ) Combining NMR Spectroscopy and Molecular Dynamic Simulations to Solve and Analyze the Structure of Protein-RNA Complexes Methods Enzymol 614,393-422
Pubmed - J. Boudet, J.C. Devillier, T. Wiegand, L. Salmon, B.H. Meier, G. Lipps and F.H. Allain (2019) A Small Helical Bundle Prepares Primer Synthesis by Binding Two Nucleotides that Enhance Sequence-Specific Recognition of the DNA Template Cell 176(1-2):154-166.e13
Pubmed - L. Pereira, F. Aeschimann, C. Wang, H. Lawson, E. Serrano-Saiz, D.S. Portman, H. Grosshans and O. Hobert (2019) Timing mechanism of sexually dimorphic nervous system differentiation Elife 8, pii: e42078
Pubmed - M.M. Swierczynska, M.J. Betz, M. Colombi, E. Dazert, P. Jenö, S. Moes, C. Pfaff, K. Glatz, M. Reincke, F. Beuschlein, M.Y. Donath and M.N. Hall (2019) Proteomic Landscape of Aldosterone-Producing Adenoma Hypertension 73(2),469-480
Pubmed - F.E. Loughlin, P.J. Lukavsky, T. Kazeeva, S. Reber, E.M. Hock, M. Colombo, C. Von Schroetter, P. Pauli, A. Cléry, O. Mühlemann, M. Polymenidou, M.D. Ruepp and F.H. Allain (2019)The Solution Structure of FUS Bound to RNA Reveals a Bipartite Mode of RNA Recognition with Both Sequence and Shape Specificity Mol Cell 73(3), 490-504.e6
Pubmed - J. Carlevaro-Fita, T. Polidori, M. Das, C. Navarro, T.I. Zoller and R. Johnson (2019) Ancient exapted transposable elements promote nuclear enrichment of human long noncoding RNAs Genome Res 29(2), 208-222
Pubmed - L. Champion, S. Pawar, N. Luithle, R. Ungricht and U. Kutay (2019) Dissociation of membrane-chromatin contacts is required for proper chromosome segregation in mitosis Mol Biol Cell 30(4),427-440
Pubmed - F. Laferrière, Z. Maniecka, M. Pérez-Berlanga, M. Hruska-Plochan, L. Gilhespy, E.M. Hock, U. Wagner, T. Afroz, P.J. Boersema, G. Barmettler, S.C. Foti, Y.T. Asi, A.M. Isaacs, A. Al-Amoudi, A. Lewis, H. Stahlberg, J. Ravits, F. De Giorgi, F. Ichas, E. Bezard, P. Picotti, T. Lashley and M. Polymenidou (2019) TDP-43 extracted from frontotemporal lobar degeneration subject brains displays distinct aggregate assemblies and neurotoxic effects reflecting disease progression rates Nat Neurosci 22(1), 65-77
Pubmed - A. Kroupova, A. Ivascu, M.M. Reimão-Pinto, S.L. Ameres and M. Jinek (2019) Structural basis for acceptor RNA substrate selectivity of the 3' terminal uridylyl transferase Tailor Nucleic Acids Res., 47(2), 1030-1042
Pubmed - A. Frankish, M. Diekhans, A. M. Ferreira, R. Johnson, I. Jungreis, J. Loveland, J. M. Mudge, C. Sisu, J. Wright, J. Armstrong, I. Barnes, A. Berry, A. Bignell, S. Carbonell Sala, J. Chrast, F. Cunningham, T. Di Domenico, S. Donaldson, I. T. Fiddes, C. Garcia Giron, J. M. Gonzalez, T. Grego, M. Hardy, T. Hourlier, T. Hunt, O. G. Izuogu, J. Lagarde, F. J. Martin, L. Martinez, S. Mohanan, P. Muir, F. C. P. Navarro, A. Parker, B. Pei, F. Pozo, M. Ruffier, B. M. Schmitt, E. Stapleton, M. M. Suner, I. Sycheva, B. Uszczynska-Ratajczak, J. Xu, A. Yates, D. Zerbino, Y. Zhang, B. Aken, J. S. Choudhary, M. Gerstein, R. Guigo, T. J. P. Hubbard, M. Kellis, B. Paten, A. Reymond, M. L. Tress and P. Flicek (2019) GENCODE reference annotation for the human and mouse genomes Nucleic Acids Res, 47(D1), D766-D773
Pubmed - J.H. Wilbertz and J. A. Chao (2019) Caught in the Act? Quantifying Biochemistry Inside and Outside of Biomolecular Condensates Biochemistry, 58(3), 142-143
Pubmed - L. Landvogt, J.A. Ruland, C. Montellese, J. P. Siebrasse, U. Kutay and U. Kubitscheck (2019) Observing and tracking single small ribosomal subunits in vivo Methods, 153, 63-70
Pubmed - A. Jawaid, B. T. Woldemichael, E. A. Kremer, F. Laferriere, N. Gaur, T. Afroz, M. Polymenidou and I. M. Mansuy (2019) Memory Decline and Its Reversal in Aging and Neurodegeneration Involve miR-183/96/182 Biogenesis Mol Neurobiol, 56(5), 3451-3462
Pubmed - E. I. Kessi-Perez, F. Salinas, J. Molinet, A. Gonzalez, S. Muniz, J. M. Guillamon, M. N. Hall, L. F. Larrondo and C. Martinez (2019) Indirect monitoring of TORC1 signalling pathway reveals molecular diversity among different yeast strains Yeast, 36(1), 65-74
Pubmed - E.D. Karousis and O. Mühlemann (2019) Nonsense-Mediated mRNA Decay Begins Where Translation Ends Cold Spring Harb Perspect Biol, 11(2), a032862
Pubmed
2018 Publications
2018 Publications
- M. Bodak, J. Yu and C. Ciaudo (2018) Regulation of LINE-1 Elements by miR-128 Is Not Conserved in Mouse Embryonic Stem CellsFront Genet 9,683
Pubmed - G. Palermo, J.S. Chen, C.G. Ricci, I. Rivalta, M. Jinek, V.S. Batista, J.A. Doudna and J.A. McCammon (2018) Key role of the REC lobe during CRISPR-Cas9 activation by 'sensing', 'regulating', and 'locking' the catalytic HNH domainQ Rev Biophys 51, e91
Pubmed - D. Benjamin, D. Robay, S.K. Hindupur, J. Pohlmann, M. Colombi, M.Y. El-Shemerly, S.M. Maira, C. Moroni, H.A. Lane and M.N. Hall (2018) Dual Inhibition of the Lactate Transporters MCT1 and MCT4 Is Synthetic Lethal with Metformin due to NAD+ Depletion in Cancer CellsCell Rep 25(11), 3047-3058.e4
Pubmed - J.A. Chao and T. Lionnet (2018) Imaging the Life and Death of mRNAs in Single Cells Cold Spring Harb Perspect Biol 10(12), a032086
Pubmed - A. Jawaid, R. Khan, M. Polymenidou and P.E. Schulz (2018) Disease-modifying effects of metabolic perturbations in ALS/FTLDMol Neurodegener 13(1), 63
Pubmed - A. Schneider (2018) Mitochondrial protein import in trypanosomatids: Variations on a theme or fundamentally different? PLoS Pathog 14(11), e1007351
Pubmed - N. Ban (2018) Thomas Steitz 1940-2018 Nat Struct Mol Biol, 25(12), 1065-1066
Pubmed - A. Kroupova, A. Ivascu, M.M. Reimão-Pinto, S.L. Ameres and M. Jinek (2019) Structural basis for acceptor RNA substrate selectivity of the 3' terminal uridylyl transferase Tailor Nucleic Acids Res., 47(2), 1030-1042
Pubmed - D. Mossmann, S. Park and M.N. Hall (2018) mTOR signalling and cellular metabolism are mutual determinants in cancer Nat Rev Cancer, 18(12), 744-757
Pubmed - M. Vancová, B. Schimanski B, L.R. Cadena, J. Heller, T. Bílý, D. Potešil, C. Eichenberger, H. Bruce, S. Oeljeklaus, B. Warscheid, Z. Zdráhal, A. Schneider, J. Lukeš and H. Hashimi (2018) The Diverged Trypanosome MICOS Complex as a Hub for Mitochondrial Cristae Shaping and Protein Import Curr Biol 28(21), 3393-3407
Pubmed - A. C. Title, S. J. Hong, N. D. Pires, L. Hasenohrl, S. Godbersen, N. Stokar-Regenscheit, D. P. Bartel and M. Stoffel (2018) Genetic dissection of the miR-200-Zeb1 axis reveals its importance in tumor differentiation and invasion Nature Communications 9(1), 4671
Pubmed - A. Singh, A. Vancura, R. K. Woycicki, D. J. Hogan, A. G. Hendrick and M. Nowacki (2018) Determination of the presence of 5-methylcytosine in Paramecium tetraureliaPLoS One 13(10), e0206667
Pubmed - T. Nishimura, H. Fakim, T. Brandmann, J. Y. Youn, A. C. Gingras, M. Jinek and M. R. Fabian (2018) Human MARF1 is an endoribonuclease that interacts with the DCP1:2 decapping complex and degrades target mRNAsNucleic Acids Res, 46(22), 12008-12021
Pubmed - R. R. Pandey, D. Homolka, O. Olotu, R. Sachidanandam, N. Kotaja and R. S. Pillai (2018) Exonuclease Domain-Containing 1 Enhances MIWI2 piRNA Biogenesis via Its Interaction with TDRD12Cell Rep 24(13), 3423-3432
Pubmed - S. K. Martin, S. Fitter, N. El Khawanky, R. H. Grose, C. R. Walkley, L. E. Purton, M. A. Ruegg, M. N. Hall, S. Gronthos and A. C. W. Zannettino (2018) mTORC1 plays an important role in osteoblastic regulation of B-lymphopoiesisSci Rep 8(1), 14501
Pubmed - C. M. Miton, S. Jonas, G. Fischer, F. Duarte, M. F. Mohamed, B. van Loo, B. Kintses, S. C. L. Kamerlin, N. Tokuriki, M. Hyvonen and F. Hollfelder (2018) Evolutionary repurposing of a sulfatase: A new Michaelis complex leads to efficient transition state charge offset Proc Natl Acad Sci U S A 115(31), E7293-E7302
Pubmed - K. Essig, N. Kronbeck, J.C. Guimaraes, C. Lohs, A. Schlundt, A. Hoffmann, G. Behrens, S. Brenner, J. Kowalska, C. Lopez-Rodriguez, J. Jemielity, H. Holtmann, K. Reiche, J. Hackermüller, M. Sattler, M. Zavolan and V. Heissmeyer (2018) Roquin targets mRNAs in a 3'-UTR-specific manner by different modes of regulationNat Commun 9(1), 3810
Pubmed - A. Schneider and T. Ochsenreiter, (2018) Failure is not an option - mitochondrial genome segregation in trypanosomesJ Cell Sci 131(18), 221820
Pubmed - J. Bischerour, S. Bhullar, C. Denby Wilkes, V. Régnier, N. Mathy, E. Dubois, A. Singh, E. Swart, O. Arnaiz, L. Sperling, M. Nowacki and M. Bétermier (2018) Six domesticated PiggyBac transposases together carry out programmed DNA elimination in ParameciumElife 7, 37927
Pubmed - A.J. Gruber, F. Gypas, A. Riba, R. Schmidt and M. Zavolan (2018) Terminal exon characterization with TECtool reveals an abundance of cell-specific isoformsNat Methods, 15(10), 832-836
Pubmed - M. Mendel, K. M. Chen, D. Homolka, P. Gos, R.R. Pandey, A. A. McCarthy and R. S. Pillai (2018) Methylation of Structured RNA by the m(6)A Writer METTL16 Is Essential for Mouse Embryonic Development Mol Cell, 71(6), 986-1000.e11
Pubmed - D. J. F. Ramrath, M. Niemann, M. Leibundgut, P. Bieri, C. Prange, E.K. Horn, A. Leitner, D. Boehringer, A. Schneider and N. Ban (2018) Evolutionary shift toward protein-based architecture in trypanosomal mitochondrial ribosomesScience, 362(6413), eaau7735
Pubmed - S. Schütz, E. Michel, F. F. Damberger, M. Oplová, C. Peña, A. Leitner, R. Aebersold, F.H. Allain and V.G.Panse (2018) Molecular basis for disassembly of an importin:ribosomal protein complex by the escortin Tsr2 Nat Commun 9(1), 3669
Pubmed - M. Zavolan and A. P. Gerber (2018) Mirroring the multifaceted role of RNA and its partners in gene expression FEBS Lett 592(17), 2825-2827
Pubmed - S. Bhullar, C. Denby Wilkes, O. Arnaiz, M. Nowacki, L. Sperling and E. Meyer (2018) A mating-type mutagenesis screen identifies a zinc-finger protein required for specific DNA excision events in ParameciumNucleic Acids Res , 46(18), 9550-9562
Pubmed - A. J. Rzepiela, S. Ghosh, J. Breda, A. Vina-Vilaseca, A.P. Syed, A. J. Gruber, K. Eschbach, C. Beisel, E. van Nimwegen and M. Zavolan (2018) Single-cell mRNA profiling reveals the hierarchical response of miRNA targets to miRNA inductionMol Syst Biol 14(8), e8266
Pubmed - L. Wyss, M. Waser, J. Gebetsberger, M. Zywicki and N. Polacek (2018) mRNA-specific translation regulation by a ribosome-associated ncRNA in Haloferax volcanii Sci Rep 8(1), 12502
Pubmed - P. J. Boersema, A. Melnik, B. P. C. Hazenberg, M. Rezeli, G. Marko-Varga, J. Kamiie, E. Portelius, K. Blennow, R. A. Zubarev, M. Polymenidou and P. Picotti (2018) The Biology and Disease-driven Initiative on Protein Aggregation Diseases of the Human Proteome Project: Goals and Progress to Date J Proteome Res , 17(12), 4072-4084
Pubmed - M. Jia, H. Gut and J. A. Chao (2018) Structural basis of IMP3 RRM12 recognition of RNA RNA , 24(12), 1659-1666
Pubmed - E. Kummer, M. Leibundgut, O. Rackham, R. G. Lee, D. Boehringer, A. Filipovska and N. Ban (2018) Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM Nature 560(7717), 263-267
Pubmed - H. L. Lightfoot, T. Hagen, A. Clery, F. H. Allain and J. Hall (2018) Control of the polyamine biosynthesis pathway by G2-quadruplexes Elife 7, e36362
Pubmed - E. Lekka and J. Hall (2018) Non-coding RNAs in DiseaseFEBS Lett, 592(17), 2884-2900
Pubmed - M. G. Mostofa, M. A. Rahman, N. Koike, A. M. Yeasmin, N. Islam, T. M. Waliullah, S. Hosoyamada, M. Shimobayashi, T. Kobayashi, M. N. Hall and T. Ushimaru (2018) CLIP and cohibin separate rDNA from nucleolar proteins destined for degradation by nucleophagyJ Cell Biol, 217(8), 2675-2690
Pubmed - M. van de Waterbeemd, S. Tamara, K.L. Fort, E. Damoc, V. Franc, P. Bieri, M. Itten, A. Makarov, N. Ban and A.J.R. Heck (2018) Dissecting ribosomal particles throughout the kingdoms of life using advanced hybrid mass spectrometry methodsNat Commun 9(2), 2493
Pubmed - T. Wiegand, R. Cadalbert, C. von Schroetter, F.H. Allain and B. H. Meier, B (2018) Segmental isotope labelling and solid-state NMR of a 12 x 59 kDa motor protein: identification of structural variabilityJ Biomol NMR, 71(4), 237-245
Pubmed - D. G. Vitali, S. Käser, A. Kolb, K. S. Dimmer, A. Schneider and D. Rapaport (2018) Independent evolution of functionally exchangeable mitochondrial outer membrane import complexes Elife 7, 34488
Pubmed - F. Lampert, D. Stafa, A. Goga, M. V. Soste, S. Gilberto, N. Olieric, P. Picotti, M. Stoffel and M. Peter (2018) The multi-subunit GID/CTLH E3 ligase promotes proliferation and targets the transcription factor Hbp1 for degradation Elife 7, e35528
Pubmed - N. Savic, F.C. Ringnalda, H. Lindsay, C. Berk, K. Bargsten, Y. Li, D. Neri, M.D. Robinson, C. Ciaudo, J. Hall, M. Jinek and G. Schwank (2018) Covalent linkage of the DNA repair template to the CRISPR-Cas9 nuclease enhances homology-directed repairElife 7, e33761
Pubmed - M. Polymenidou (2018) The RNA face of phase separationScience 360(6391) 859-860
Pubmed - T. Iki, A. Cléry, N. Bologna, A. Sarazin, C. Brosnan, N. Pumplin, F.H.T. Allain and O. Voinnet (2018) Structural Flexibility Enables Alternative Maturation, ARGONAUTE Sorting and Activities of miR168, a Global Gene Silencing Regulator in PlantsMol Plant, 11(8), 1008-1023
Pubmed - V. Ostapcuk, F. Mohn, S.H. Carl, A. Basters, D. Hess, V. Iesmantavicius, L. Lampersberger, M. Flemr, A. Pandey, N.H. Thoma, J. Betschinger and M. Bühler (2018) Activity-dependent neuroprotective protein recruits HP1 and CHD4 to control lineage-specifying genesNature 557(7707), 739-743
Pubmed - C. Sellier, E. Cerro-Herreros, M. Blatter, F. Freyermuth, A. Gaucherot, F. Ruffenach, P. Sarkar, J. Puymirat, B. Udd, J. W. Day, G. Meola, G. Bassez, H. Fujimura, M. P. Takahashi, B. Schoser, D. Furling, R. Artero, F. H. T. Allain, B. Llamusi and N. Charlet-Berguerand (2018) rbFOX1/MBNL1 competition for CCUG RNA repeats binding contributes to myotonic dystrophy type 1/type 2 differences Nat Commun 9(1), 2009
Pubmed - D. C. Swarts and M. Jinek (2018) Cas9 versus Cas12a/Cpf1: Structure-function comparisons and implications for genome editing Wiley Interdiscip Rev RNA, e1481
Pubmed - P. Knuckles and M. Bühler (2018) Adenosine methylation as a molecular imprint defining the fate of RNA FEBS Lett, 592(17), 2845-2859
Pubmed - W. Ahmed and J. Lingner (2018) PRDX1 and MTH1 cooperate to prevent ROS-mediated inhibition of telomeraseGenes Dev, 32(9-10), 658-669
Pubmed - P. Kumari, F. Aeschimann, D. Gaidatzis, J.J. Keusch, P. Ghosh, A. Neagu, K. Pachulska-Wieczorek, J.M. Bujnicki, H. Gut, H. Grosshans and R. Ciosk (2018) Evolutionary plasticity of the NHL domain underlies distinct solutions to RNA recognitionNat Commun, 9(1), 1549
Pubmed - M. Kornete, R. Marone and L.T. Jeker (2018) Highly Efficient and Versatile Plasmid-Based Gene Editing in Primary T CellsJ Immunol, 200(7), 2489-2501
Pubmed - A.J. Gruber, R. Schmidt, S. Ghosh, G. Martin, A.R. Gruber, E. van Nimwegen and M. Zavolan (2018) Discovery of physiological and cancer-related regulators of 3' UTR processing with KAPACGenome Biol, 19(1), 44
Pubmed - S. Käser, I. Glauser, J. Rettig and A. Schneider (2018) The pseudo-dimeric tyrosyl-tRNA synthetase of T. brucei aminoacylates cytosolic and mitochondrial tRNA(Tyr) and requires both monomeric units for activityMol Biochem Parasitol, 221, 52-55
Pubmed - F. Michelini, A.P. Jalihal, S. Francia, C. Meers, Z.T. Neeb, F. Rossiello, U. Gioia, J. Aguado, C. Jones-Weinert, B. Luke, G. Biamonti, M. Nowacki, F. Storici, P. Carninci, N.G. Walter and F. d'Adda di Fagagna (2018) From "Cellular" RNA to "Smart" RNA: Multiple Roles of RNA in Genome Stability and BeyondChem Rev, 118(8), 4365-4403
Pubmed - B. Uszczynska-Ratajczak, J. Lagarde, A. Frankish, R. Guigo and R. Johnson (2018) Towards a complete map of the human long non-coding RNA transcriptomeNat Rev Genet, 19(9), 535-548
Pubmed - S. Boeynaems, S. Alberti, N.L. Fawzi, T. Mittag, M. Polymenidou, F. Rousseau, J. Schymkowitz, J. Shorter, B. Wolozin, L. Van Den Bosch, P. Tompa and M. Fuxreiter (2018) Protein Phase Separation: A New Phase in Cell BiologyTrends Cell Biol, 28(6), 420-435
Pubmed - G. Brancati and H. Grosshans (2018) An interplay of miRNA abundance and target site architecture determines miRNA acticity and specificityNucleic Acids Res, 46(7), 3259-3269
Pubmed - K. Kobayashi, A. Jomaa, J.H. Lee, S. Chandrasekar, D. Boehringer, S.O. Shan and N. Ban (2018) Structure of a prehandover mammalian ribosomal SRP*SRP receptor targeting complexScience, 360(6386), 323-327
Pubmed - S.K. Hindupur, M. Colombi, S.R. Fuhs, M.S. Matter, Y. Guri, K. Adam, M. Cornu, S. Piscuoglio, C.K.Y. Ng, C. Betz, D. Liko, L. Quagliata, S. Moes, P. Jenoe, L.M. Terracciano, M. H. Heim, T. Hunter and M.N. Hall (2018) The protein histidine phosphatase LHPP is a tumour suppressorNature, 555(7698), 678-682
Pubmed - C. Hoehener, I. Hug and M. Nowacki (2018) Dicer-like Enzymes with Sequence Cleavage Preferences Cell, 173(1), 234-247 e7
Pubmed - P. Knuckles, T. Lence, I.U. Haussmann, D. Jacob, N. Kreim, S.H. Carl, I. Masiello, T. Hares, R. Villasenor, D. Hess, M.A. Andrade-Navarro, M. Biggiogera, M. Helm, M. Soller, M. Bühler and J.Y. Roignant (2018) Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA-binding factor Rbm15/Spenito to the m(6)A machinery component Wtap/Fl(2)d Genes Dev, 32(5-6), 415-429
Pubmed - C. Dimitrakopoulos, S. Kumar Hindupur, L. Hafliger, J. Behr, H. Montazeri, M.N. Hall and N. Beerenwinkel (2018) Network-based integration of multi-omics data for prioritizing cancer genes Bioinformatics, 34(14), 2441-2448
Pubmed - T. Brandmann, H. Fakim, Z. Padamsi, J.Y. Youn, A.C. Gingras, M.R. Fabian and Jinek, M. (2018) Molecular architecture of LSM14 interactions involved in the assembly of mRNA silencing complexes EMBO J, 37(7), e97869
Pubmed - G.R. Bantug, M. Fischer, J. Grahlert, M.L. Balmer, G. Unterstab, L. Develioglu, R. Steiner, R., L. Zhang, A. S. H. Costa, P. M. Gubser, A. V. Burgener, U. Sauder, J. Loliger, R. Belle, S. Dimeloe, J. Lötscher, A. Jauch, M. Recher, G. Honger, M.N. Hall, P. Romero, C. Frezza and C. Hess (2018) Mitochondria-Endoplasmic Reticulum Contact Sites Function as Immunometabolic Hubs that Orchestrate the Rapid Recall Response of Memory CD8(+) T Cells Immunity, 48(3), 542-555 e6
Pubmed - M. de la Mata and H.Grosshans (2018) Turning the table on miRNAs Nat Struct Mol Biol, 25(3), 195-197
Pubmed - E. Michel, O. Duss and F.H. Allain (2018) An Integrated Cell-Free Assay to Study Translation Regulation by Small Bacterial Noncoding RNAs Methods Mol Biol, 1737, 177-195
Pubmed - A. Scaiola, C. Pena, M. Weisser, D. Böhringer, M. Leibundgut, P. Klingauf-Nerurkar, S. Gerhardy, V.G. Panse and N. Ban (2018) Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit EMBO J 37(7), e98499
Pubmed - G. Masliah, C. Maris, S.L. König, M. Yulikov, F. Aeschimann, A.L. Malinowska, J. Mabille, J. Weiler, A. Holla, J. Hunziker, N. Meisner-Kober, B. Schuler, G. Jeschke and F.H. Allain (2018) Structural basis of siRNA recognition by TRBP double-stranded RNA binding domains EMBO J, 37(6), e97089
Pubmed - A. Hoffmann, S. Käser, M. Jakob, S. Amodeo, C. Peitsch, J. Tyc, S. Vaughan, B. Zuber, A. Schneider and T. Ochsenreiter (2018) Molecular model of the mitochondrial genome segregation machinery in Trypanosoma bruceiProc Natl Acad Sci U S A, 115(8), E1809-E1818
Pubmed - E. Stuttfeld, C.H. Aylett, S. Imseng, D. Boehringer, A. Scaiola, E. Sauer, M.N. Hall, T. Maier and N. Ban (2018) Architecture of the human mTORC2 core complexElife, 7, e33101
Pubmed - G. Glousker and J. Lingner (2018) When Telomerase Causes Telomere Loss Dev Cell, 44(3), 281-283
Pubmed - Schneider A. (2018) Dihydrofolate reductase and membrane translocation: evolution of a classic experiment: Classic landmark papers, irrespective of their age, can teach students how best science is practiced and inspire new experiments EMBO Rep, 19(3), e45692
Pubmed - R.P. Ngondo, D. Cirera-Salinas, J. Yu, H. Wischnewski, M. Bodak, S. Vandormael-Pournin, A. Geiselmann, R. Wettstein, J. Luitz, M. Cohen-Tannoudji and C. Ciaudo (2018) Argonaute 2 Is Required for Extra-embryonic Endoderm Differentiation of Mouse Embryonic Stem Cells Stem Cell Reports, 10(2), 461-476
Pubmed - M. Habibian, M. Yahyaee-Anzahaee, M. Lucic, E. Moroz, N. Martin-Pintado, L.D. Di Giovanni, J. C. Leroux, J. Hall, C. Gonzalez and M.J. Damha (2018) Structural properties and gene-silencing activity of chemically modified DNA-RNA hybrids with parallel orientationNucleic Acids Res, 46(4), 1614-23
Pubmed - M. Clerici, M. Faini, L.M. Muckenfuss, R. Aebersold and M. Jinek (2018) Structural basis of AAUAAA polyadenylation signal recognition by the human CPSF complexNat Struct Mol Biol, 25(2), 135-138
Pubmed - P. Nicholson, A. Gkratsou, C. Josi, M. Colombo and O. Mühlemann (2018) Dissecting the functions of SMG5, SMG7 and PNRC2 in nonsense-mediated mRNA decay of human cellsRNA, 24(4), 557-573
Pubmed - P. Bieri, B.J. Greber and N. Ban (2018) High-resolution structures of mitochondrial ribosomes and their functional implicationsCurr Opin Struct Biol, 49, 44-53
Pubmed - J. Willi, P. Küpfer, D. Evéquoz, G. Fernandez, A. Katz, C. Leumann and N. Polacek (2018) Oxidative stress damages rRNA inside the ribosome and differentially affects the catalytic centerNucleic Acids Res, 46(4), 1945-1957
Pubmed - N.B. Milev and D. Gatfield (2018) Circadian Clocks and UPR: New Twists as the Story UnfoldsDev Cell, 44(1), 7-9
Pubmed - F. Voigt, J. Eglinger and J. A. Chao (2018) Detection of the First Round of Translation: The TRICK Assay Methods Mol Biol, 1649, 373-384
Pubmed - W. Ahmed and J. Lingner (2018) Impact of oxidative stress on telomere biology Differentiation 99,21-27
Pubmed - M. Vlot, J. Houkes, S. J. A. Lochs, D. C. Swarts, P. Zheng, T. Kunne, P. Mohanraju, C. Anders, M. Jinek, J. van der Oost, M. J. Dickman and S. J. J. Brouns (2018) Bacteriophage DNA glucosylation impairs target DNA binding by type I and II but not by type V CRISPR-Cas effector complexesNucleic Acids Res, 46(2), 873-885
Pubmed - E. Sonnleitner, A. Wulf, S. Campagne, X. Y. Pei, M. T. Wolfinger, G. Forlani, K. Prindl, L. Abdou, A. Resch, F. H. Allain, B. F. Luisi, H. Urlaub and U. Blasi (2018) Interplay between the catabolite repression control protein Crc, Hfq and RNA in Hfq-dependent translational regulation in Pseudomonas aeruginosa Nucleic Acids Res, 46(3), 1470-1485
Pubmed - Z. T. Neeb and M. Nowacki (2018) RNA-mediated transgenerational inheritance in ciliates and plants Chromosoma, 127(1), 19-27
Pubmed - S. Reber, J. Mechtersheimer, S. Nasif, J. A. Benitez, M. Colombo, M. Domanski, D. Jutzi, E. Hedlund and M. D. Ruepp (2018) CRISPR-Trap: A clean approach for the generation of gene knockouts and gene replacements in human cells Mol Biol Cell, 29(2), 75-83
Pubmed - S. Nasif, L. Contu and O. Mühlemann (2018) Beyond quality control: The role of nonsense-mediated mRNA decay (NMD) in regulating gene expression Semin Cell Dev Biol, 75, 78-87
Pubmed - J. Singer, H. J. Ruscheweyh, A. L. Hofmann, T. Thurnherr, F. Singer, N. C. Toussaint, C. K. Y. Ng, S. Piscuoglio, C. Beisel, G. Christofori, R. Dummer, M. N. Hall, W. Krek, M.P. Levesque, M. G. Manz, H. Moch, A. Papassotiropoulos, D. J. Stekhoven, P. Wild, T. Wust, B. Rinn and N. Beerenwinkel (2018) NGS-pipe: a flexible, easily extendable, and highly configurable framework for NGS analysis Bioinformatics, 34(1), 107-108
Pubmed
2017 Publications
2017 Publications
- S. Käser, M. Willemin, F. Schnarwiler, B. Schimanski, D. Poveda-Huertes, S. Oeljeklaus, B. Haenni, B. Zuber, B. Warscheid, C. Meisinger and A. Schneider (2017) Biogenesis of the mitochondrial DNA inheritance machinery in the mitochondrial outer membrane of Trypanosoma bruceiPLoS Pathog, 13(12), e1006808
Pubmed - F. Voigt, H. Zhang, X.A. Cui, D. Triebold, A.X. Liu, J. Eglinger, E.S. Lee, J. A. Chao and A. F. Palazzo (2017) Single-Molecule Quantification of Translation-Dependent Association of mRNAs with the Endoplasmic ReticulumCell Rep, 21(13), 3740-3753
Pubmed - M. Zavolan M. and A. Kanitz (2017) RNA splicing and its connection with other regulatory layers in somatic cell reprogrammingCurr Opin Cell Biol, 52, 8-13
Pubmed - M. Clerici, M. Faini, R. Aebersold and M. Jinek (2017) Structural insights into the assembly and polyA signal recognition mechanism of the human CPSF complexElife, 6, e33111
Pubmed - K. Essig, D. Hu, J. C. Guimaraes, D. Alterauge, S. Edelmann, T. Raj, J. Kranich, G. Behrens, A. Heiseke, S. Floess, J. Klein, A. Maiser, S. Marschall, M. Hrabe de Angelis, H. Leonhardt, C. F. Calkhoven, E. Noessner, T. Brocker, J. Huehn, A. B. Krug, M. Zavolan, D. Baumjohann and V. Heissmeyer (2017) Roquin Suppresses the PI3K-mTOR Signaling Pathway to Inhibit T Helper Cell Differentiation and Conversion of Treg to Tfr Cells Immunity, 47 (6), 1067-1082 e12
Pubmed - Y. Guri, M. Colombi, E. Dazert, S. K. Hindupur, J. Roszik, S. Moes, P. Jenoe, M. H. Heim, I. Riezman, H. Riezman and M. N. Hall (2017) mTORC2 Promotes Tumorigenesis via Lipid Synthesis Cancer Cell, 32 (6), 807-823 e12
Pubmed - G. Palermo, C. G. Ricci, A. Fernando, R. Basak, M. Jinek, I. Rivalta, V. S. Batista and J. A. McCammon (2017) Protospacer Adjacent Motif-Induced Allostery Activates CRISPR-Cas9 J Am Chem Soc 139(45), 16028-16031
Pubmed - S. Berry, S. Rosa, M. Howard, M. Bühler and C. Dean (2017) Disruption of an RNA-binding hinge region abolishes LHP1-mediated epigenetic repression Genes Dev, 31 (21), 2115-2120
Pubmed - F. Tang, P. Zhang, P. Ye, C. A. Lazarski, Q. Wu, I. L. Bergin, T. P. Bender, M. N. Hall, Y. Cui, L. Zhang, T. Jiang, Y. Liu and P. Zheng (2017) A population of innate myelolymphoblastoid effector cell expanded by inactivation of mTOR complex 1 in mice Elife, 6, e32497
Pubmed - M. Zavolan and B. R. Graveley (2017) RNAs: dynamic and mutable Genome Biol, 18 (1), 226
Pubmed - S. E. Allen and M. Nowacki (2017) Necessity Is the Mother of Invention: Ciliates, Transposons, and Transgenerational Inheritance Trends Genet, 33 (3), 197-207
Pubmed - M. Sivaramakrishnan, K. D. McCarthy, S. Campagne, S. Huber, S. Meier, A. Augustin, T. Heckel, H. Meistermann, M. N. Hug, P. Birrer, A. Moursy, S. Khawaja, R. Schmucki, N. Berntenis, N. Giroud, S. Golling, M. Tzouros, B. Banfai, G. Duran-Pacheco, J. Lamerz, Y. Hsiu Liu, T. Luebbers, H. Ratni, M. Ebeling, A. Clery, S. Paushkin, A. R. Krainer, F. H. Allain and F. Metzger (2017) Binding to SMN2 pre-mRNA-protein complex elicits specificity for small molecule splicing modifiers Nat Commun, 8(1), 1476
Pubmed - M. E. Hughes, K. C. Abruzzi, R. Allada, R. Anafi, A. B. Arpat, G. Asher, P. Baldi, C. de Bekker, D. Bell-Pedersen, J. Blau, S. Brown, M. F. Ceriani, Z. Chen, J. C. Chiu, J. Cox, A. M. Crowell, J. P. DeBruyne, D. J. Dijk, L. DiTacchio, F. J. Doyle, G. E. Duffield, J. C. Dunlap, K. Eckel-Mahan, K. A. Esser, G. A. FitzGerald, D. B. Forger, L. J. Francey, Y. H. Fu, F. Gachon, D. Gatfield, P. de Goede, S. S. Golden, C. Green, J. Harer, S. Harmer, J. Haspel, M. H. Hastings, H. Herzel, E. D. Herzog, C. Hoffmann, C. Hong, J. J. Hughey, J. M. Hurley, H. O. de la Iglesia, C. Johnson, S. A. Kay, N. Koike, K. Kornacker, A. Kramer, K. Lamia, T. Leise, S. A. Lewis, J. Li, X. Li, A. C. Liu, J. J. Loros, T. A. Martino, J. S. Menet, M. Merrow, A. J. Millar, T. Mockler, F. Naef, E. Nagoshi, M. N. Nitabach, M. Olmedo, D. A. Nusinow, L. J. Ptacek, D. Rand, A. B. Reddy, M. S. Robles, T. Roenneberg, M. Rosbash, M. D. Ruben, S. S. C. Rund, A. Sancar, P. Sassone-Corsi, A. Sehgal, S. Sherrill-Mix, D. J. Skene, K. F. Storch, J. S. Takahashi, H. R. Ueda, H. Wang, C. Weitz, P. O. Westermark, H. Wijnen, Y. Xu, G. Wu, S. H. Yoo, M. Young, E. E. Zhang, T. Zielinski and J. B. Hogenesch (2017) Guidelines for Genome-Scale Analysis of Biological Rhythms J Biol Rhythms, 32(5), 380-393
Pubmed - C. Foglieni, S. Papin, A. Salvade, T. Afroz, S. Pinton, G. Pedrioli, G. Ulrich, M. Polymenidou and P. Paganetti (2017) Split GFP technologies to structurally characterize and quantify functional biomolecular interactions of FTD-related proteins Sci Rep, 7(1), 14013
Pubmed - M. I. Linder, M. Kohler, P. Boersema, M. Weberruss, C. Wandke, J. Marino, C. Ashiono, P. Picotti, W. Antonin and U. Kutay (2017) Mitotic Disassembly of Nuclear Pore Complexes Involves CDK1- and PLK1-Mediated Phosphorylation of Key Interconnecting Nucleoporins Dev Cell, 43(2), 141-156 e7
Pubmed - C. Gmeiner, G. Dorn, F. H. T. Allain, G. Jeschke and M. Yulikov (2017) Spin labelling for integrative structure modelling: a case study of the polypyrimidine-tract binding protein 1 domains in complexes with short RNAs Phys Chem Chem Phys, 19(41), 28360-28380
Pubmed - S. E. Allen, I. Hug, S. Pabian, I. Rzeszutek, C. Hoehener and M. Nowacki (2017) Circular Concatemers of Ultra-Short DNA Segments Produce Regulatory RNAs Cell, 168(6), 990-999 e7
Pubmed - E. Sasaki, D. Bohringer, M. van de Waterbeemd, M. Leibundgut, R. Zschoche, A. J. Heck, N. Ban and D. Hilvert (2017) Structure and assembly of scalable porous protein cages Nat Commun, 8, 14663
Pubmed - A. Lanzos, J. Carlevaro-Fita, L. Mularoni, F. Reverter, E. Palumbo, R. Guigo and R. Johnson (2017) Discovery of Cancer Driver Long Noncoding RNAs across 1112 Tumour Genomes: New Candidates and Distinguishing Features Sci Rep, 7, 41544
Pubmed - M. Li, H. L. Lightfoot, F. Halloy, A. L. Malinowska, C. Berk, A. Behera, D. Schümperli and J. Hall (2017) Synthesis and cellular activity of stereochemically-pure 2'-O-(2-methoxyethyl)-phosphorothioate oligonucleotides Chem Commun (Camb), 53(3), 541-544
Pubmed - M. Colombo, E. D. Karousis, J. Bourquin, R. Bruggmann and O. Mühlemann (2017) Transcriptome-wide identification of NMD-targeted human mRNAs reveals extensive redundancy between SMG6- and SMG7-mediated degradation pathways RNA, 23(2), 189-201
Pubmed - M. Feretzaki and J. Lingner (2017) A practical qPCR approach to detect TERRA, the elusive telomeric repeat-containing RNA Methods, 114, 39-45
Pubmed - L. Champion, M. I. Linder and U. Kutay (2017) Cellular Reorganization during Mitotic Entry Trends Cell Biol, 27(1), 26-41
Pubmed - J. Majerska, S. Redon and J. Lingner (2017) Quantitative telomeric chromatin isolation protocol for human cells Methods, 114, 28-38
Pubmed - B. Malone, I. Atanassov, F. Aeschimann, X. Li, H. Grosshans and C. Dieterich (2017) Bayesian prediction of RNA translation from ribosome profiling Nucleic Acids Res, 45(6), 2960-2972
Pubmed - G. Balistreri, C. Bognanni and O. Mühlemann (2017) Virus Escape and Manipulation of Cellular Nonsense-Mediated mRNA Decay Viruses, 9(1),
Pubmed - C. Garcia-Doval and M. Jinek (2017) Molecular architectures and mechanisms of Class 2 CRISPR-associated nucleases Curr Opin Struct Biol, 47(), 157-166
Pubmed - J. Lagarde, B. Uszczynska-Ratajczak, S. Carbonell, S. Perez-Lluch, A. Abad, C. Davis, T. R. Gingeras, A. Frankish, J. Harrow, R. Guigo and R. Johnson (2017) High-throughput annotation of full-length long noncoding RNAs with capture long-read sequencing Nat Genet, 49(12), 1731-1740
Pubmed - N. Bozadjieva, M. Blandino-Rosano, J. Chase, X. Q. Dai, K. Cummings, J. Gimeno, D. Dean, A. C. Powers, G. K. Gittes, M. A. Ruegg, M. N. Hall, P. E. MacDonald and E. Bernal-Mizrachi (2017) Loss of mTORC1 signaling alters pancreatic alpha cell mass and impairs glucagon secretion J Clin Invest, 127(12), 4379-4393
Pubmed - I. Horvathova, F. Voigt, A. V. Kotrys, Y. Zhan, C. G. Artus-Revel, J. Eglinger, M. B. Stadler, L. Giorgetti and J. A. Chao (2017) The Dynamics of mRNA Turnover Revealed by Single-Molecule Imaging in Single Cells Mol Cell, 68(3), 615-625 e9
Pubmed - G. Martin, R. Schmidt, A. J. Gruber, S. Ghosh, W. Keller and M. Zavolan (2017) 3' End Sequencing Library Preparation with A-seq2 J Vis Exp, (128),
Pubmed - M. N. Wojtas, R. R. Pandey, M. Mendel, D. Homolka, R. Sachidanandam and R. S. Pillai (2017) Regulation of m6A Transcripts by the 3'-->5' RNA Helicase YTHDC2 Is Essential for a Successful Meiotic Program in the Mammalian Germline Mol Cell, 68(2), 374-387 e12
Pubmed - D. Spies, P. F. Renz, T. A. Beyer and C. Ciaudo (2017) Comparative analysis of differential gene expression tools for RNA sequencing time course data Brief Bioinform,
Pubmed - T. S. Miki, S. H. Carl and H. Grosshans (2017) Two distinct transcription termination modes dictated by promoters Genes Dev, 31(18), 1870-1879
Pubmed - M. P. LaPierre and M. Stoffel (2017) MicroRNAs as stress regulators in pancreatic beta cells and diabetes Mol Metab, 6(9), 1010-1023
Pubmed - N. Diarra Dit Konte, M. Krepl, F. F. Damberger, N. Ripin, O. Duss, J. Sponer and F. H. Allain (2017) Aromatic side-chain conformational switch on the surface of the RNA Recognition Motif enables RNA discrimination Nat Commun, 8(1), 654
Pubmed - O. Mühlemann and E. D. Karousis (2017) New functions in translation termination uncovered for NMD factor UPF3B EMBO J, 36(20), 2928-2930
Pubmed - C. Gmeiner, D. Klose, E. Mileo, V. Belle, S. R. A. Marque, G. Dorn, F. H. T. Allain, B. Guigliarelli, G. Jeschke and M. Yulikov (2017) Orthogonal Tyrosine and Cysteine Site-Directed Spin Labeling for Dipolar Pulse EPR Spectroscopy on Proteins J Phys Chem Lett, 8(19), 4852-4857
Pubmed - O. Niewoehner and M. Jinek (2017) Specialized Weaponry: How a Type III-A CRISPR-Cas System Excels at Combating Phages Cell Host Microbe, 22(3), 258-259
Pubmed - M. N. Hall (2017) An Amazing Turn of Events Cell, 171(1), 18-22
Pubmed - F. Item, S. Wueest, V. Lemos, S. Stein, F. C. Lucchini, R. Denzler, M. C. Fisser, T. D. Challa, E. Pirinen, Y. Kim, S. Hemmi, E. Gulbins, A. Gross, L. A. O'Reilly, M. Stoffel, J. Auwerx and D. Konrad (2017) Fas cell surface death receptor controls hepatic lipid metabolism by regulating mitochondrial function Nat Commun, 8(1), 480
Pubmed - N. Mittal, J. C. Guimaraes, T. Gross, A. Schmidt, A. Vina-Vilaseca, D. D. Nedialkova, F. Aeschimann, S. A. Leidel, A. Spang and M. Zavolan (2017) The Gcn4 transcription factor reduces protein synthesis capacity and extends yeast lifespan Nat Commun, 8(1), 457
Pubmed - M. Niemann, A. Harsman, J. Mani, C. D. Peikert, S. Oeljeklaus, B. Warscheid, R. Wagner and A. Schneider (2017) tRNAs and proteins use the same import channel for translocation across the mitochondrial outer membrane of trypanosomes Proc Natl Acad Sci U S A, 114(37), E7679-E7687
Pubmed - C. Wenger, S. Oeljeklaus, B. Warscheid, A. Schneider and A. Harsman (2017) A trypanosomal orthologue of an intermembrane space chaperone has a non-canonical function in biogenesis of the single mitochondrial inner membrane protein translocase PLoS Pathog, 13(8), e1006550
Pubmed - R. R. Pandey, D. Homolka, K. M. Chen, R. Sachidanandam, M. O. Fauvarque and R. S. Pillai (2017) Recruitment of Armitage and Yb to a transcript triggers its phased processing into primary piRNAs in Drosophila ovaries PLoS Genet, 13(8), e1006956
Pubmed - S. Pawar, R. Ungricht, P. Tiefenboeck, J. C. Leroux and U. Kutay (2017) Efficient protein targeting to the inner nuclear membrane requires atlastin-dependent maintenance of ER topology Elife, 6, e28202
Pubmed - S. Omidi, M. Zavolan, M. Pachkov, J. Breda, S. Berger and E. van Nimwegen (2017) Automated incorporation of pairwise dependency in transcription factor binding site prediction using dinucleotide weight tensors PLoS Comput Biol, 13(7), e1005176
Pubmed - M. Menzi, B. Wild, U. Pradere, A. L. Malinowska, A. Brunschweiger, H. L. Lightfoot and J. Hall (2017) Towards Improved Oligonucleotide Therapeutics Through Faster Target Binding Kinetics Chemistry, 23(57), 14221-14230
Pubmed - M. Weisser, T. Schafer, M. Leibundgut, D. Bohringer, C. H. S. Aylett and N. Ban (2017) Structural and Functional Insights into Human Re-initiation Complexes Mol Cell, 67(3), 447-456 e7
Pubmed - O. Niewoehner, C. Garcia-Doval, J. T. Rostol, C. Berk, F. Schwede, L. Bigler, J. Hall, L. A. Marraffini and M. Jinek (2017) Type III CRISPR-Cas systems produce cyclic oligoadenylate second messengers Nature, 548(7669), 543-548
Pubmed - D. I. Furrer, E. C. Swart, M. F. Kraft, P. Y. Sandoval and M. Nowacki (2017) Two Sets of Piwi Proteins Are Involved in Distinct sRNA Pathways Leading to Elimination of Germline-Specific DNA Cell Rep, 20(2), 505-520
Pubmed - M. Blandino-Rosano, R. Barbaresso, M. Jimenez-Palomares, N. Bozadjieva, J. P. Werneck-de-Castro, M. Hatanaka, R. G. Mirmira, N. Sonenberg, M. Liu, M. A. Ruegg, M. N. Hall and E. Bernal-Mizrachi (2017) Loss of mTORC1 signalling impairs beta-cell homeostasis and insulin processing Nat Commun, 8, 16014
Pubmed - J. Hentschel, C. Burnside, I. Mignot, M. Leibundgut, D. Boehringer and N. Ban (2017) The Complete Structure of the Mycobacterium smegmatis 70S Ribosome Cell Rep, 20(1), 149-160
Pubmed - T. Afroz, E. M. Hock, P. Ernst, C. Foglieni, M. Jambeau, L. A. B. Gilhespy, F. Laferriere, Z. Maniecka, A. Pluckthun, P. Mittl, P. Paganetti, F. H. T. Allain and M. Polymenidou (2017) Functional and dynamic polymerization of the ALS-linked protein TDP-43 antagonizes its pathologic aggregation Nat Commun, 8(1), 45
Pubmed - D. Benjamin and M. N. Hall (2017) mTORC1 Controls Synthesis of Its Activator GTP Cell Rep, 19(13), 2643-2644
Pubmed - T. Aeschbacher, M. Zierke, M. Smiesko, M. Collot, J. M. Mallet, B. Ernst, F. H. Allain and M. Schubert (2017) A Secondary Structural Element in a Wide Range of Fucosylated Glycoepitopes Chemistry, 23(48), 11598-11610
Pubmed - G. Palermo, Y. Miao, R. C. Walker, M. Jinek and J. A. McCammon (2017) CRISPR-Cas9 conformational activation as elucidated from enhanced molecular simulations Proc Natl Acad Sci U S A, 114(28), 7260-7265
Pubmed - I. Beusch, P. Barraud, A. Moursy, A. Clery and F. H. Allain (2017) Tandem hnRNP A1 RNA recognition motifs act in concert to repress the splicing of survival motor neuron exon 7 Elife, 6(),
Pubmed - V. Flury, P. R. Georgescu, V. Iesmantavicius, Y. Shimada, T. Kuzdere, S. Braun and M. Bühler (2017) The Histone Acetyltransferase Mst2 Protects Active Chromatin from Epigenetic Silencing by Acetylating the Ubiquitin Ligase Brl1 Mol Cell, 67(2), 294-307 e9
Pubmed - F. Piccinini, T. Balassa, A. Szkalisity, C. Molnar, L. Paavolainen, K. Kujala, K. Buzas, M. Sarazova, V. Pietiainen, U. Kutay, K. Smith and P. Horvath (2017) Advanced Cell Classifier: User-Friendly Machine-Learning-Based Software for Discovering Phenotypes in High-Content Imaging Data Cell Syst, 4(6), 651-655 e5
Pubmed - J. M. Wenda, D. Homolka, Z. Yang, P. Spinelli, R. Sachidanandam, R. R. Pandey and R. S. Pillai (2017) Distinct Roles of RNA Helicases MVH and TDRD9 in PIWI Slicing-Triggered Mammalian piRNA Biogenesis and Function Dev Cell, 41(6), 623-637 e9
Pubmed - V. Castelo-Szekely, A. B. Arpat, P. Janich and D. Gatfield (2017) Translational contributions to tissue specificity in rhythmic and constitutive gene expression Genome Biol, 18(1), 116
Pubmed - P. Knuckles, S. H. Carl, M. Musheev, C. Niehrs, A. Wenger and M. Bühler (2017) RNA fate determination through cotranscriptional adenosine methylation and microprocessor binding Nat Struct Mol Biol, 24(7), 561-569
Pubmed - S. Silva, D. Homolka and R. S. Pillai (2017) Characterization of the mammalian RNA exonuclease 5/NEF-sp as a testis-specific nuclear 3' --> 5' exoribonuclease RNA, 23(9), 1385-1392
Pubmed - A. Jomaa, Y. H. Fu, D. Boehringer, M. Leibundgut, S. O. Shan and N. Ban (2017) Structure of the quaternary complex between SRP, SR, and translocon bound to the translating ribosome Nat Commun, 8, 15470
Pubmed - M. Krepl, M. Blatter, A. Clery, F. F. Damberger, F. H. T. Allain and J. Sponer (2017) Structural study of the Fox-1 RRM protein hydration reveals a role for key water molecules in RRM-RNA recognition Nucleic Acids Res, 45(13), 8046-8063
Pubmed - C. D. Peikert, J. Mani, M. Morgenstern, S. Käser, B. Knapp, C. Wenger, A. Harsman, S. Oeljeklaus, A. Schneider and B. Warscheid (2017) Charting organellar importomes by quantitative mass spectrometry Nat Commun, 8, 15272
Pubmed - F. Sinturel, A. Gerber, D. Mauvoisin, J. Wang, D. Gatfield, J. J. Stubblefield, C. B. Green, F. Gachon and U. Schibler (2017) Diurnal Oscillations in Liver Mass and Cell Size Accompany Ribosome Assembly Cycles Cell, 169(4), 651-663 e14
Pubmed - D. C. Swarts, J. van der Oost and M. Jinek (2017) Structural Basis for Guide RNA Processing and Seed-Dependent DNA Targeting by CRISPR-Cas12a Mol Cell, 66(2), 221-233 e4
Pubmed - Y. Gonskikh and N. Polacek (2017) Alterations of the translation apparatus during aging and stress response Mech Ageing Dev, 168, 30-36
Pubmed - Y. Dimitrova, A. J. Gruber, N. Mittal, S. Ghosh, B. Dimitriades, D. Mathow, W. A. Grandy, G. Christofori and M. Zavolan (2017) TFAP2A is a component of the ZEB1/2 network that regulates TGFB1-induced epithelial to mesenchymal transition Biol Direct, 12(1), 8
Pubmed - C. Montellese, N. Montel-Lehry, A. K. Henras, U. Kutay, P. E. Gleizes and M. F. O'Donohue (2017) Poly(A)-specific ribonuclease is a nuclear ribosome biogenesis factor involved in human 18S rRNA maturation Nucleic Acids Res, 45(11), 6822-6836
Pubmed - D. Mas-Ponte, J. Carlevaro-Fita, E. Palumbo, T. Hermoso Pulido, R. Guigo and R. Johnson (2017) LncATLAS database for subcellular localization of long noncoding RNAs RNA, 23(7), 1080-1087
Pubmed - A. Vancevska, K. M. Douglass, V. Pfeiffer, S. Manley and J. Lingner (2017) The telomeric DNA damage response occurs in the absence of chromatin decompaction Genes Dev, 31(6), 567-577
Pubmed - M. Koch, J. Willi, U. Pradere, J. Hall and N. Polacek (2017) Critical 23S rRNA interactions for macrolide-dependent ribosome stalling on the ErmCL nascent peptide chain Nucleic Acids Res, 45(11), 6717-6728
Pubmed - G. Dorn, A. Leitner, J. Boudet, S. Campagne, C. von Schroetter, A. Moursy, R. Aebersold and F. H. Allain (2017) Structural modeling of protein-RNA complexes using crosslinking of segmentally isotope-labeled RNA and MS/MS Nat Methods, 14(5), 487-490
Pubmed - B. Samatanga, A. Clery, P. Barraud, F. H. Allain and I. Jelesarov (2017) Comparative analyses of the thermodynamic RNA binding signatures of different types of RNA recognition motifs Nucleic Acids Res, 45(10), 6037-6050
Pubmed - J. Yu and C. Ciaudo (2017) Vector Integration Sites Identification for Gene-Trap Screening in Mammalian Haploid Cells Sci Rep, 7, 44736
Pubmed - U. Pradère, F. Halloy and J. Hall (2017) Chemical synthesis of long RNAs with terminal 5'-phosphate groups Chemistry, 23(22), 5210-5213
Pubmed - A. Clery, T. J. M. Sohier, T. Welte, A. Langer and F. H. T. Allain (2017) switchSENSE: A new technology to study protein-RNA interactions Methods, 118-119(), 137-145
Pubmed - D. Cirera-Salinas, M. Bodak and C. Ciaudo (2017) Versatility of DGCR8 controls stem cell fate Cell Cycle, 16(8), 729-730
Pubmed - C. Pulido-Quetglas, E. Aparicio-Prat, C. Arnan, T. Polidori, T. Hermoso, E. Palumbo, J. Ponomarenko, R. Guigo and R. Johnson (2017) Scalable Design of Paired CRISPR Guide RNAs for Genomic Deletion PLoS Comput Biol, 13(3), e1005341
Pubmed - J. Y. Tan, A. A. Smith, M. Ferreira da Silva, C. Matthey-Doret, R. Rueedi, R. Sonmez, D. Ding, Z. Kutalik, S. Bergmann and A. C. Marques (2017) cis-Acting Complex-Trait-Associated lincRNA Expression Correlates with Modulation of Chromosomal Architecture Cell Rep, 18(9), 2280-2288
Pubmed - K. Ahmed, M. P. LaPierre, E. Gasser, R. Denzler, Y. Yang, T. Rulicke, J. Kero, M. Latreille and M. Stoffel (2017) Loss of microRNA-7a2 induces hypogonadotropic hypogonadism and infertility J Clin Invest, 127(3), 1061-1074
Pubmed - J. R. Bracht, X. Wang, K. Shetty, X. Chen, G. J. Uttarotai, E. C. Callihan, S. S. McCloud, D. M. Clay, J. Wang, M. Nowacki and L. F. Landweber (2017) Chromosome fusions triggered by noncoding RNA RNA Biol, 14(5), 620-631
Pubmed - A. Riba, M. Emmenlauer, A. Chen, F. Sigoillot, F. Cong, C. Dehio, J. Jenkins and M. Zavolan (2017) Explicit Modeling of siRNA-Dependent On- and Off-Target Repression Improves the Interpretation of Screening Results Cell Syst, 4(2), 182-193 e4
Pubmed - H. Leske, S. Hornemann, U. S. Herrmann, C. Zhu, P. Dametto, B. Li, F. Laferriere, M. Polymenidou, P. Pelczar, R. R. Reimann, P. Schwarz, E. J. Rushing, K. Wüthrich and A. Aguzzi (2017) Protease resistance of infectious prions is suppressed by removal of a single atom in the cellular prion protein PLoS One, 12(2), e0170503
Pubmed - M. M. Slabodnick, J. G. Ruby, S. B. Reiff, E. C. Swart, S. Gosai, S. Prabakaran, E. Witkowska, G. E. Larue, S. Fisher, R. M. Freeman, Jr., J. Gunawardena, W. Chu, N. A. Stover, B. D. Gregory, M. Nowacki, J. Derisi, S. W. Roy, W. F. Marshall and P. Sood (2017) The Macronuclear Genome of Stentor coeruleus Reveals Tiny Introns in a Giant Cell Curr Biol, 27(4), 569-575
Pubmed - G. Lossaint and J. Lingner (2017) TZAP or not to zap telomeres Science, 355(6325), 578-579
Pubmed - M. Bodak, D. Cirera-Salinas, J. Yu, R. P. Ngondo and C. Ciaudo (2017) Dicer, a new regulator of pluripotency exit and LINE-1 elements in mouse embryonic stem cells FEBS Open Bio, 7(2), 204-220
Pubmed - D. E. Whittaker, K. L. Riegman, S. Kasah, C. Mohan, T. Yu, B. P. Sala, H. Hebaishi, A. Caruso, A. C. Marques, C. Michetti, M. E. Smachetti, A. Shah, M. Sabbioni, O. Kulhanci, W. W. Tee, D. Reinberg, M. L. Scattoni, H. Volk, I. McGonnell, F. C. Wardle, C. Fernandes and M. A. Basson (2017) The chromatin remodeling factor CHD7 controls cerebellar development by regulating reelin expression J Clin Invest, 127(3), 874-887
Pubmed - J. Barandun, F. F. Damberger, C. L. Delley, J. Laederach, F. H. Allain and E. Weber-Ban (2017) Prokaryotic ubiquitin-like protein remains intrinsically disordered when covalently attached to proteasomal target proteins BMC Struct Biol, 17(1), 1
Pubmed - C. H. Aylett and N. Ban (2017) Eukaryotic aspects of translation initiation brought into focus Philos Trans R Soc Lond B Biol Sci, 372(1716),
Pubmed - M. D. Ruepp, H. Wei, M. Leuenberger, M. Lochner and A. J. Thompson (2017) The binding orientations of structurally-related ligands can differ; A cautionary note Neuropharmacology, 119(), 48-61
Pubmed - E. Moroz, S. H. Lee, K. Yamada, F. Halloy, S. Martinez-Montero, H. Jahns, J. Hall, M. J. Damha, B. Castagner and J. C. Leroux (2016) Carrier-free Gene Silencing by Amphiphilic Nucleic Acid Conjugates in Differentiated Intestinal Cells Mol Ther Nucleic Acids, 5(), e364
Pubmed - R. Ungricht and U. Kutay (2017) Mechanisms and functions of nuclear envelope remodelling Nat Rev Mol Cell Biol, 18(4), 229-245
Pubmed - M. Bolten, C. Vahlensieck, C. Lipp, M. Leibundgut, N. Ban and E. Weber-Ban (2017) Depupylase Dop Requires Inorganic Phosphate in the Active Site for Catalysis J Biol Chem, 292(10), 4044-4053
Pubmed - M. Bodak, D. Cirera-Salinas, J. Luitz and C. Ciaudo (2017) The Role of RNA Interference in Stem Cell Biology: Beyond the Mutant Phenotypes J Mol Biol, 429(10), 1532-1543
Pubmed - F. Aeschimann, P. Kumari, H. Bartake, D. Gaidatzis, L. Xu, R. Ciosk and H. Grosshans (2017) LIN41 Post-transcriptionally Silences mRNAs by Two Distinct and Position-Dependent Mechanisms Mol Cell, 65(3), 476-489 e4
Pubmed - J. Bruggisser, S. Käser, J. Mani and A. Schneider (2017) Biogenesis of a mitochondrial outer membrane protein in Trypanosoma brucei: targeting signal and dependence on an unique biogenesis factor J Biol Chem, 292(8), 3400-3410
Pubmed - D. Cirera-Salinas, J. Yu, M. Bodak, R. P. Ngondo, K. M. Herbert and C. Ciaudo (2017) Noncanonical function of DGCR8 controls mESC exit from pluripotency J Cell Biol, 216(2), 355-366
Pubmed - A. Gonzalez and M. N. Hall (2017) Nutrient sensing and TOR signaling in yeast and mammals EMBO J, 36(4), 397-408
Pubmed - J. Mani, S. Rout, S. Desy and A. Schneider (2017) Mitochondrial protein import - Functional analysis of the highly diverged Tom22 orthologue of Trypanosoma brucei Sci Rep, 7(), 40738
Pubmed - J. Barman-Aksözen, P. Cwiek, V. B. Bansode, F. Koentgen, J. Trub, P. Pelczar, P. Cinelli, X. Schneider-Yin, D. Schümperli and E. I. Minder (2017) Modelling the ferrochelatase c.315-48C modifier mutation for erythropoietic protoporphyria (EPP) in mice Dis Model Mech, 10(3), 225-233
Pubmed - A. J. Thompson, S. Metzger, M. Lochner and M. D. Ruepp (2017) The binding orientation of epibatidine at alpha7 nACh receptors Neuropharmacology, 116(), 421-428
Pubmed - S. Fitter, M. P. Matthews, S. K. Martin, J. Xie, S. S. Ooi, C. R. Walkley, J. D. Codrington, M. A. Ruegg, M. N. Hall, C. G. Proud, S. Gronthos and A. C. Zannettino (2017) mTORC1 Plays an Important Role in Skeletal Development by Controlling Preosteoblast Differentiation Mol Cell Biol, 37(7),
Pubmed - M. Polymenidou and D. W. Cleveland (2017) Biological Spectrum of Amyotrophic Lateral Sclerosis Prions Cold Spring Harb Perspect Med, 7(11),
Pubmed - R. Gumienny, D. J. Jedlinski, A. Schmidt, F. Gypas, G. Martin, A. Vina-Vilaseca and M. Zavolan (2017) High-throughput identification of C/D box snoRNA targets with CLIP and RiboMeth-seq Nucleic Acids Res, 45(5), 2341-2353
Pubmed - P. Bieri, M. Leibundgut, M. Saurer, D. Boehringer and N. Ban (2017) The complete structure of the chloroplast 70S ribosome in complex with translation factor pY EMBO J, 36(4), 475-486
Pubmed - A. Harsman and A. Schneider (2017) Mitochondrial protein import in trypanosomes: Expect the unexpected Traffic, 18(2), 96-109
Pubmed
2016 Publications
2016 Publications
- J. Gebetsberger, L. Wyss, A. M. Mleczko, J. Reuther and N. Polacek (2016) A tRNA-derived fragment competes with mRNA for ribosome binding and regulates translation during stress RNA Biol, Epub ahead of print
Pubmed - Y. Guri and M. N. Hall (2016) mTOR Signaling Confers Resistance to Targeted Cancer Drugs Trends Cancer, 2(11), 688-697
Pubmed - J. Plassais, L. Lagoutte, S. Correard, M. Paradis, E. Guaguere, B. Hedan, A. Pommier, N. Botherel, M. C. Cadiergues, P. Pilorge, D. Silversides, M. Bizot, M. Samuels, C. Arnan, R. Johnson, C. Hitte, G. Salbert, A. Mereau, P. Quignon, T. Derrien and C. Andre (2016) A Point Mutation in a lincRNA Upstream of GDNF Is Associated to a Canine Insensitivity to Pain: A Spontaneous Model for Human Sensory Neuropathies PLoS Genet, 12(12), e1006482
Pubmed - D. Benjamin, M. Colombi, S. K. Hindupur, C. Betz, H. A. Lane, M. Y. El-Shemerly, M. Lu, L. Quagliata, L. Terracciano, S. Moes, T. Sharpe, A. Wodnar-Filipowicz, C. Moroni and M. N. Hall (2016) Syrosingopine sensitizes cancer cells to killing by metformin Sci Adv, 2(12), e1601756
Pubmed - E. Aeby, W. Ahmed, S. Redon, V. Simanis and J. Lingner (2016) Peroxiredoxin 1 Protects Telomeres from Oxidative Damage and Preserves Telomeric DNA for Extension by Telomerase Cell Rep, 17(12), 3107-3114
Pubmed - M. Berge, S. Campagne, J. Mignolet, S. Holden, L. Theraulaz, S. Manley, F. H. Allain and P. H. Viollier (2016) Modularity and determinants of a (bi-)polarization control system from free-living and obligate intracellular bacteria Elife, 5, e20640
Pubmed - A. Harsman, S. Oeljeklaus, C. Wenger, J. L. Huot, B. Warscheid and A. Schneider (2016) The non-canonical mitochondrial inner membrane presequence translocase of trypanosomatids contains two essential rhomboid-like proteins Nat Commun, 7, 13707
Pubmed - Y. Shimada, F. Mohn and M. Bühler (2016) The RNA-induced transcriptional silencing complex targets chromatin exclusively via interacting with nascent transcripts Genes Dev, 30(23), 2571-2580
Pubmed - E. Gasser, H. C. Johannssen, T. Rulicke, H. U. Zeilhofer and M. Stoffel (2016) Foxa1 is essential for development and functional integrity of the subthalamic nucleus Sci Rep, 6, 38611
Pubmed - J. C. Guimaraes and M. Zavolan (2016) Patterns of ribosomal protein expression specify normal and malignant human cells Genome Biol, 17(1), 236
Pubmed - R. Denzler, S. E. McGeary, A. C. Title, V. Agarwal, D. P. Bartel and M. Stoffel (2016) Impact of MicroRNA Levels, Target-Site Complementarity, and Cooperativity on Competing Endogenous RNA-Regulated Gene Expression Mol Cell, 64(3), 565-579
Pubmed - U. Brykczynska, E. Pecho-Vrieseling, A. Thiemeyer, J. Klein, I. Fruh, T. Doll, C. Manneville, S. Fuchs, M. Iazeolla, M. Beibel, G. Roma, U. Naumann, N. Kelley, E. J. Oakeley, M. Mueller, B. Gomez-Mancilla, M. Bühler, E. Tabolacci, P. Chiurazzi, G. Neri, T. Bouwmeester, F. P. Di Giorgio and B. D. Fodor (2016) CGG Repeat-Induced FMR1 Silencing Depends on the Expansion Size in Human iPSCs and Neurons Carrying Unmethylated Full Mutations Stem Cell Reports, 7(6), 1059-1071
Pubmed - M. Bolten, C. L. Delley, M. Leibundgut, D. Boehringer, N. Ban and E. Weber-Ban (2016) Structural Analysis of the Bacterial Proteasome Activator Bpa in Complex with the 20S Proteasome Structure, 24(12), 2138-2151
Pubmed - X. Ding, W. Bloch, S. Iden, M. A. Ruegg, M. N. Hall, M. Leptin, L. Partridge and S. A. Eming (2016) mTORC1 and mTORC2 regulate skin morphogenesis and epidermal barrier formation Nat Commun, 7, 13226
Pubmed - G. Palermo, Y. Miao, R. C. Walker, M. Jinek and J. A. McCammon (2016) Striking Plasticity of CRISPR-Cas9 and Key Role of Non-target DNA, as Revealed by Molecular Simulations ACS Cent Sci, 2(10), 756-763
Pubmed - D. R. Driscoll, S. A. Karim, M. Sano, D. M. Gay, W. Jacob, J. Yu, Y. Mizukami, A. Gopinathan, D. I. Jodrell, T. R. Evans, N. Bardeesy, M. N. Hall, B. J. Quattrochi, D. S. Klimstra, S. T. Barry, O. J. Sansom, B. C. Lewis and J. P. Morton (2016) mTORC2 Signaling Drives the Development and Progression of Pancreatic Cancer Cancer Res, 76(23), 6911-6923
Pubmed - M. M. Reimao-Pinto, R. A. Manzenreither, T. R. Burkard, P. Sledz, M. Jinek, K. Mechtler and S. L. Ameres (2016) Molecular basis for cytoplasmic RNA surveillance by uridylation-triggered decay in Drosophila EMBO J, 35(22), 2417-2434
Pubmed - M. B. Mobin, S. Gerstberger, D. Teupser, B. Campana, K. Charisse, M. H. Heim, M. Manoharan, T. Tuschl and M. Stoffel (2016) The RNA-binding protein vigilin regulates VLDL secretion through modulation of Apob mRNA translation Nat Commun, 7, 12848
Pubmed - Q. Fu, R. R. Pandey, N. A. Leu, R. S. Pillai and P. J. Wang (2016) Mutations in the MOV10L1 ATP Hydrolysis Motif Cause piRNA Biogenesis Failure and Male Sterility in Mice Biol Reprod, 95(5), 103
Pubmed - E. Moroz, S. H. Lee, K. Yamada, F. Halloy, S. Martinez-Montero, H. Jahns, J. Hall, M. J. Damha, B. Castagner and J. C. Leroux (2016) Carrier-free Gene Silencing by Amphiphilic Nucleic Acid Conjugates in Differentiated Intestinal Cells Mol Ther Nucleic Acids, 5(9), e364
Pubmed - D. Ustianenko, J. Pasulka, Z. Feketova, L. Bednarik, D. Zigackova, A. Fortova, M. Zavolan and S. Vanacova (2016) TUT-DIS3L2 is a mammalian surveillance pathway for aberrant structured non-coding RNAs EMBO J, 35(20), 2179-2191
Pubmed - M. N. Hall (2016) TOR and paradigm change: cell growth is controlled Mol Biol Cell, 27(18), 2804-6
Pubmed - T. S. Miki, S. H. Carl, M. B. Stadler and H. Grosshans (2016) XRN2 Autoregulation and Control of Polycistronic Gene Expresssion in Caenorhabditis elegans PLoS Genet, 12(9), e1006313
Pubmed - D. Bar-Yaacov, I. Frumkin, Y. Yashiro, T. Chujo, Y. Ishigami, Y. Chemla, A. Blumberg, O. Schlesinger, P. Bieri, B. Greber, N. Ban, R. Zarivach, L. Alfonta, Y. Pilpel, T. Suzuki and D. Mishmar (2016) Mitochondrial 16S rRNA Is Methylated by tRNA Methyltransferase TRMT61B in All Vertebrates PLoS Biol, 14(9), e1002557
Pubmed - P. Sledz and M. Jinek (2016) Structural insights into the molecular mechanism of the m6A writer complex Elife, 5, e18434
Pubmed - L. Bammert, S. Jonas, R. Ungricht and U. Kutay (2016) Human AATF/Che-1 forms a nucleolar protein complex with NGDN and NOL10 required for 40S ribosomal subunit synthesis Nucleic Acids Res, 44(20), 9803-9820
Pubmed - M. Menzi, U. Pradère, Y. Wang, M. Fischer, F. Baumann, M. Bigatti and J. Hall (2016) Site-Specific Labeling of MicroRNA Precursors: A Structure-Activity Relationship Study Chembiochem, 17(21), 2012-2017
Pubmed - M. Roos, U. Pradere, R. P. Ngondo, A. Behera, S. Allegrini, G. Civenni, J. A. Zagalak, J. R. Marchand, M. Menzi, H. Towbin, J. Scheuermann, D. Neri, A. Caflisch, C. V. Catapano, C. Ciaudo and J. Hall (2016) A Small-Molecule Inhibitor of Lin28 ACS Chem Biol, 11(10), 2773-2781
Pubmed - N. Larburu, C. Montellese, M. F. O'Donohue, U. Kutay, P. E. Gleizes and C. Plisson-Chastang (2016) Structure of a human pre-40S particle points to a role for RACK1 in the final steps of 18S rRNA processing Nucleic Acids Res, 44(17), 8465-78
Pubmed - E. M. Hock and M. Polymenidou (2016) Prion-like propagation as a pathogenic principle in frontotemporal dementia J Neurochem, 138 Suppl 1, 163-83
Pubmed - S. Desy, J. Mani, A. Harsman, S. Käser and A. Schneider (2016) TbLOK1/ATOM19 is a novel subunit of the noncanonical mitochondrial outer membrane protein translocase of Trypanosoma brucei Mol Microbiol, 102(3), 520-529
Pubmed - P. Odermatt, J. Trub, L. Furrer, R. Fricker, A. Marti and D. Schümperli (2016) Somatic therapy of a mouse SMA model with a U7 snRNA gene correcting SMN2 splicing Mol Ther, 24(10), 1797-1805
Pubmed - S. Käser, S. Oeljeklaus, J. Tyc, S. Vaughan, B. Warscheid and A. Schneider (2016) Outer membrane protein functions as integrator of protein import and DNA inheritance in mitochondria Proc Natl Acad Sci U S A, 113(31), E4467-75
Pubmed - E. C. Swart, V. Serra, G. Petroni and M. Nowacki (2016) Genetic Codes with No Dedicated Stop Codon: Context-Dependent Translation Termination Cell, 166(3), 691-702
Pubmed - H. Lindsay, A. Burger, B. Biyong, A. Felker, C. Hess, J. Zaugg, E. Chiavacci, C. Anders, M. Jinek, C. Mosimann and M. D. Robinson (2016) CrispRVariants charts the mutation spectrum of genome engineering experiments Nat Biotechnol, 34(7), 701-2
Pubmed - S. Campagne, S. Dintner, L. Gottschlich, M. Thibault, M. Bortfeld-Miller, A. Kaczmarczyk, A. Francez-Charlot, F. H. Allain and J. A. Vorholt (2016) Role of the PFXFATG[G/Y] Motif in the Activation of SdrG, a Response Regulator Involved in the Alphaproteobacterial General Stress ResponseStructure 24 (8),1237-47
Pubmed - J. Kang, E. P. Kusnadi, A. J. Ogden, R. J. Hicks, L. Bammert, U. Kutay, S. Hung, E. Sanij, R. D. Hannan, K. M. Hannan and R. B. Pearson (2016) Amino acid-dependent signaling via S6K1 and MYC is essential for regulation of rDNA transcription Oncotarget, 7(31), 48887-48904
Pubmed - A. J. Gruber, R. Schmidt, A. R. Gruber, G. Martin, S. Ghosh, M. Belmadani, W. Keller and M. Zavolan (2016) A comprehensive analysis of 3' end sequencing data sets reveals novel polyadenylation signals and the repressive role of heterogeneous ribonucleoprotein C on cleavage and polyadenylation Genome Res, 26(8), 1145-59
Pubmed - J. M. Pröpster, F. Yang, S. Rabbani, B. Ernst, F. H. Allain and M. Schubert (2016) Structural basis for sulfation-dependent self-glycan recognition by the human immune-inhibitory receptor Siglec-8 Proc Natl Acad Sci U S A, 113(29), E4170-9
Pubmed - S. Reber, J. Stettler, G. Filosa, M. Colombo, D. Jutzi, S. C. Lenzken, C. Schweingruber, R. Bruggmann, A. Bachi, S. M. Barabino, O. Mühlemann and M. D. Ruepp (2016) Minor intron splicing is regulated by FUS and affected by ALS-associated FUS mutants EMBO J, 35(14), 1504-21
Pubmed - G. Martin and M. Zavolan (2016) Redesigning CLIP for efficiency, accuracy and speed Nat Methods, 13(6), 482-3
Pubmed - O. Cohen-Fix and U. Kutay (2016) Editorial overview: The cell nucleus: Plastic, elastic and fantastic Curr Opin Cell Biol, 40, iv-v
Pubmed - D. Albino, G. Civenni, C. Dallavalle, M. Roos, H. Jahns, L. Curti, S. Rossi, S. Pinton, G. D'Ambrosio, F. Sessa, J. Hall, C. V. Catapano and G. M. Carbone (2016) Activation of the Lin28/let-7 Axis by Loss of ESE3/EHF Promotes a Tumorigenic and Stem-like Phenotype in Prostate Cancer Cancer Res, 76(12), 3629-43
Pubmed - M. Krepl, A. Clery, M. Blatter, F. H. Allain and J. Sponer (2016) Synergy between NMR measurements and MD simulations of protein/RNA complexes: application to the RRMs, the most common RNA recognition motifs Nucleic Acids Res, 44(13), 6452-70
Pubmed - H. Jorjani, S. Kehr, D. J. Jedlinski, R. Gumienny, J. Hertel, P. F. Stadler, M. Zavolan and A. R. Gruber (2016) An updated human snoRNAome Nucleic Acids Res, 44(11), 5068-82
Pubmed - E. D. Karousis, S. Nasif and O. Mühlemann (2016) Nonsense-mediated mRNA decay: novel mechanistic insights and biological impact Wiley Interdiscip Rev RNA, 7(5), 661-82
Pubmed - R. Ungricht and U. Kutay (2016) A Wounded Nucleus Needs ESCRT Service Dev Cell, 37(3), 202-4
Pubmed - O. Mühlemann (2016) Spermatogenesis Studies Reveal a Distinct Nonsense-Mediated mRNA Decay (NMD) Mechanism for mRNAs with Long 3'UTRs PLoS Genet, 12(5), e1005979
Pubmed - R. Ungricht, S. Pawar and U. Kutay (2016) An In Vitro Assay to Study Targeting of Membrane Proteins to the Inner Nuclear Membrane Methods Mol Biol, 1411, 461-77
Pubmed - A. Burger, H. Lindsay, A. Felker, C. Hess, C. Anders, E. Chiavacci, J. Zaugg, L. M. Weber, R. Catena, M. Jinek, M. D. Robinson and C. Mosimann (2016) Maximizing mutagenesis with solubilized CRISPR-Cas9 ribonucleoprotein complexes Development, 143(11), 2025-37
Pubmed - P. Janich, A. B. Arpat, V. Castelo-Szekely and D. Gatfield (2016) Analyzing the temporal regulation of translation efficiency in mouse liver Genom Data, 8, 41-4
Pubmed - J. Carlevaro-Fita, A. Rahim, R. Guigo, L. A. Vardy and R. Johnson (2016) Cytoplasmic long noncoding RNAs are frequently bound to and degraded at ribosomes in human cells RNA, 22(6), 867-82
Pubmed - H. Luidalepp, S. Berger, O. Joss, T. Tenson and N. Polacek (2016) Ribosome Shut-Down by 16S rRNA Fragmentation in Stationary-Phase Escherichia coli J Mol Biol, 428(10 Pt B), 2237-2247
Pubmed - Y. V. Nikolaev, K. Kochanowski, H. Link, U. Sauer and F. H. Allain (2016) Systematic Identification of Protein-Metabolite Interactions in Complex Metabolite Mixtures by Ligand-Detected Nuclear Magnetic Resonance Spectroscopy Biochemistry, 55(18), 2590-600
Pubmed - M. M. Swierczynska and M. N. Hall (2016) eIF4A moonlights as an off switch for TORC1 EMBO J, 35(10), 1013-4
Pubmed - F. Grahammer, V. Nesterov, A. Ahmed, F. Steinhardt, L. Sandner, F. Arnold, T. Cordts, S. Negrea, M. Bertog, M. A. Ruegg, M. N. Hall, G. Walz, C. Korbmacher, F. Artunc and T. B. Huber (2016) mTORC2 critically regulates renal potassium handling J Clin Invest, 126(5), 1773-82
Pubmed - B. J. Greber and N. Ban (2016) Structure and Function of the Mitochondrial Ribosome Annu Rev Biochem, 85, 103-132
Pubmed - K. Drägert, I. Bhattacharya, M. N. Hall, R. Humar, E. Battegay and E. Haas (2016) Basal mTORC2 activity and expression of its components display diurnal variation in mouse perivascular adipose tissue Biochem Biophys Res Commun, 473(1), 317-22
Pubmed - R. Janowski, G. A. Heinz, A. Schlundt, N. Wommelsdorf, S. Brenner, A. R. Gruber, M. Blank, T. Buch, R. Buhmann, M. Zavolan, D. Niessing, V. Heissmeyer and M. Sattler (2016) Roquin recognizes a non-canonical hexaloop structure in the 3'-UTR of Ox40 Nat Commun, 7, 11032
Pubmed - C. Anders, K. Bargsten and M. Jinek (2016) Structural Plasticity of PAM Recognition by Engineered Variants of the RNA-Guided Endonuclease Cas9 Mol Cell, 61(6), 895-902
Pubmed - V. Olieric, T. Weinert, A. D. Finke, C. Anders, D. Li, N. Olieric, C. N. Borca, M. O. Steinmetz, M. Caffrey, M. Jinek and M. Wang (2016) Data-collection strategy for challenging native SAD phasing Acta Crystallogr D Struct Biol, 72(Pt 3), 421-9
Pubmed - C. Schweingruber, P. Soffientini, M. D. Ruepp, A. Bachi and O. Mühlemann (2016) Identification of Interactions in the NMD Complex Using Proximity-Dependent Biotinylation (BioID) PLoS One, 11(3), e0150239
Pubmed - V. Romeo and D. Schümperli (2016) Cycling in the nucleus: regulation of RNA 3' processing and nuclear organization of replication-dependent histone genes Curr Opin Cell Biol, 40, 23-31
Pubmed - M. Bodak and C. Ciaudo (2016) Monitoring Long Interspersed Nuclear Element 1 Expression During Mouse Embryonic Stem Cell Differentiation Methods Mol Biol, 1400, 237-59
Pubmed - J. Y. Tan and A. C. Marques (2016) miRNA-mediated crosstalk between transcripts: The missing "linc"?Bioessays 38(3),295-301
Pubmed - U. Pradère and J. Hall (2016) Site-Specific Difunctionalization of Structured RNAs Yields Probes for microRNA Maturation Bioconjug Chem, 27(3), 681-7
Pubmed - A. Jomaa, D. Boehringer, M. Leibundgut and N. Ban (2016) Structures of the E. coli translating ribosome with SRP and its receptor and with the translocon Nat Commun, 7, 10471
Pubmed - L. Zhang, B. O. Tschumi, I. C. Lopez-Mejia, S. G. Oberle, M. Meyer, G. Samson, M. A. Ruegg, M. N. Hall, L. Fajas, D. Zehn, J. P. Mach, A. Donda and P. Romero (2016) Mammalian Target of Rapamycin Complex 2 Controls CD8 T Cell Memory Differentiation in a Foxo1-Dependent Manner Cell Rep, 14(5), 1206-17
Pubmed - E. Dazert, M. Colombi, T. Boldanova, S. Moes, D. Adametz, L. Quagliata, V. Roth, L. Terracciano, M. H. Heim, P. Jenoe and M. N. Hall (2016) Quantitative proteomics and phosphoproteomics on serial tumor biopsies from a sorafenib-treated HCC patient Proc Natl Acad Sci U S A, 113(5), 1381-6
Pubmed - H. Richter, I. Katic, H. Gut and H. Grosshans (2016) Structural basis and function of XRN2 binding by XTB domains Nat Struct Mol Biol, 23(2), 164-171
Pubmed - V. Albert, K. Svensson, M. Shimobayashi, M. Colombi, S. Munoz, V. Jimenez, C. Handschin, F. Bosch and M. N. Hall (2016) mTORC2 sustains thermogenesis via Akt-induced glucose uptake and glycolysis in brown adipose tissue EMBO Mol Med, 8(3), 232-46
Pubmed - O. Niewoehner and M. Jinek (2016) Structural basis for the endoribonuclease activity of the type III-A CRISPR-associated protein Csm6 RNA, 22(3), 318-29
Pubmed - B. J. Greber, S. Gerhardy, A. Leitner, M. Leibundgut, M. Salem, D. Boehringer, N. Leulliot, R. Aebersold, V. G. Panse and N. Ban (2016) Insertion of the Biogenesis Factor Rei1 Probes the Ribosomal Tunnel during 60S Maturation Cell, 164(1-2), 91-102
Pubmed - C. H. Aylett, E. Sauer, S. Imseng, D. Boehringer, M. N. Hall, N. Ban and T. Maier (2016) Architecture of human mTOR complex 1 Science, 351(6268), 48-52
Pubmed - Z. Yang, K. M. Chen, R. R. Pandey, D. Homolka, M. Reuter, B. K. Janeiro, R. Sachidanandam, M. O. Fauvarque, A. A. McCarthy and R. S. Pillai (2016) PIWI Slicing and EXD1 Drive Biogenesis of Nuclear piRNAs from Cytosolic Targets of the Mouse piRNA Pathway Mol Cell, 61(1), 138-52
Pubmed - M. Shimobayashi and M. N. Hall (2016) Multiple amino acid sensing inputs to mTORC1 Cell Res, 26(1), 7-20
Pubmed - A. Neve, J. Trub, S. Saxena and D. Schümperli (2016) Central and peripheral defects in motor units of the diaphragm of spinal muscular atrophy mice Mol Cell Neurosci, 70, 30-41
Pubmed - P. Shende, L. Xu, C. Morandi, L. Pentassuglia, P. Heim, S. Lebboukh, C. Berthonneche, T. Pedrazzini, B. A. Kaufmann, M. N. Hall, M. A. Ruegg and M. Brink (2016) Cardiac mTOR complex 2 preserves ventricular function in pressure-overload hypertrophy Cardiovasc Res, 109(1), 103-14
Pubmed - B. Herkert, A. Kauffmann, S. Molle, C. Schnell, T. Ferrat, H. Voshol, J. Juengert, H. Erasimus, G. Marszalek, M. Kazic-Legueux, E. Billy, D. Ruddy, M. Stump, D. Guthy, M. Ristov, K. Calkins, S. M. Maira, W. R. Sellers, F. Hofmann, M. N. Hall and S. M. Brachmann (2016) Maximizing the Efficacy of MAPK-Targeted Treatment in PTENLOF/BRAFMUT Melanoma through PI3K and IGF1R Inhibition Cancer Res, 76(2), 390-402
Pubmed - A. Brunschweiger, L. F. Gebert, M. Lucic, U. Pradere, H. Jahns, C. Berk, J. Hunziker and J. Hall (2016) Site-specific conjugation of drug-like fragments to an antimiR scaffold as a strategy to target miRNAs inside RISC Chem Commun (Camb), 52(1), 156-9
Pubmed - J. Mani, C. Meisinger and A. Schneider (2016) Peeping at TOMs-Diverse Entry Gates to Mitochondria Provide Insights into the Evolution of Eukaryotes Mol Biol Evol, 33(2), 337-51
Pubmed - K. Tugay, C. Guay, A. C. Marques, F. Allagnat, J. M. Locke, L. W. Harries, G. A. Rutter and R. Regazzi (2016) Role of microRNAs in the age-associated decline of pancreatic beta cell function in rat islets Diabetologia, 59(1), 161-9
Pubmed - R. Wettstein, M. Bodak and C. Ciaudo (2016) Generation of a Knockout Mouse Embryonic Stem Cell Line Using a Paired CRISPR/Cas9 Genome Engineering Tool Methods Mol Biol, 1341, 321-43
Pubmed
2015 Publications
2015 Publications
- L. Badertscher, T. Wild, C. Montellese, L. T. Alexander, L. Bammert, M. Sarazova, M. Stebler, G. Csucs, T. U. Mayer, N. Zamboni, I. Zemp, P. Horvath. and U. Kutay (2015) Genome-wide RNAi Screening Identifies Protein Modules Required for 40S Subunit Synthesis in Human CellsCell Rep, 13 (12), 2879-91
Pubmed - F. Aimi, S. Georgiopoulou, I. Kalus, F. Lehner, A. Hegglin, P. Limani, V. Gomes de Lima, A. R. M, M. N. Hall, N. Lindenblatt, E. Haas, E. J. Battegay and R. Humar (2015) Endothelial Rictor is crucial for midgestational development and sustained and extensive FGF2-induced neovascularization in the adult Sci Rep, 5, 17705
Pubmed - O. Duss, N. Diarra Dit Konté and F. H. Allain (2015) Cut and Paste RNA for Nuclear Magnetic Resonance, Paramagnetic Resonance Enhancement, and Electron Paramagnetic Resonance Structural Studies Methods Enzymol, 565, 537-62
Pubmed - E. Michel and F. H. Allain (2015) Selective Amino Acid Segmental Labeling of Multi-Domain Proteins Methods Enzymol, 565, 389-422
Pubmed - L. Farine, M. Niemann, A. Schneider and P. Bütikofer (2015) Phosphatidylethanolamine and phosphatidylcholine biosynthesis by the Kennedy pathway occurs at different sites in Trypanosoma brucei Sci Rep, 5, 16787
Pubmed - J. A. Zagalak, M. Menzi, F. Schmich, H. Jahns, A. M. Dogar, F. Wullschleger, H. Towbin and J. Hall (2015) Properties of short double-stranded RNAs carrying randomized base pairs: toward better controls for RNAi experiments RNA, 21(12), 2132-42
Pubmed - S. I. Duque, W. D. Arnold, P. Odermatt, X. Li, P. N. Porensky, L. Schmelzer, K. Meyer, S. J. Kolb, D. Schümperli, B. K. Kaspar and A. H. Burghes (2015) A large animal model of spinal muscular atrophy and correction of phenotype Ann Neurol, 77(3), 399-414
Pubmed - R. J. Lopez, B. Mosca, S. Treves, M. Maj, L. Bergamelli, J. C. Calderon, C. F. Bentzinger, K. Romanino, M. N. Hall, M. A. Ruegg, O. Delbono, C. Caputo and F. Zorzato (2015) Raptor ablation in skeletal muscle decreases Cav1.1 expression and affects the function of the excitation-contraction coupling supramolecular complex Biochem J, 466(1), 123-35
Pubmed - W. J. Faller, T. J. Jackson, J. R. Knight, R. A. Ridgway, T. Jamieson, S. A. Karim, C. Jones, S. Radulescu, D. J. Huels, K. B. Myant, K. M. Dudek, H. A. Casey, A. Scopelliti, J. B. Cordero, M. Vidal, M. Pende, A. G. Ryazanov, N. Sonenberg, O. Meyuhas, M. N. Hall, M. Bushell, A. E. Willis and O. J. Sansom (2015) mTORC1-mediated translational elongation limits intestinal tumour initiation and growth Nature, 517(7535), 497-500
Pubmed - M. Roos, M. A. Rebhan, M. Lucic, D. Pavlicek, U. Pradere, H. Towbin, G. Civenni, C. V. Catapano and J. Hall (2015) Short loop-targeting oligoribonucleotides antagonize Lin28 and enable pre-let-7 processing and suppression of cell growth in let-7-deficient cancer cells Nucleic Acids Res, 43(2), e9
Pubmed - C. M. Azzalin and J. Lingner (2015) Telomere functions grounding on TERRA firma Trends Cell Biol, 25(1), 29-36
Pubmed - R. M. Franzini, F. Samain, M. Abd Elrahman, G. Mikutis, A. Nauer, M. Zimmermann, J. Scheuermann, J. Hall and D. Neri (2014) Systematic evaluation and optimization of modification reactions of oligonucleotides with amines and carboxylic acids for the synthesis of DNA-encoded chemical libraries Bioconjug Chem, 25(8), 1453-61
Pubmed - P. Janich, A. B. Arpat, V. Castelo-Szekely, M. Lopes and D. Gatfield (2015) Ribosome profiling reveals the rhythmic liver translatome and circadian clock regulation by upstream open reading frames Genome Res, 25(12), 1848-59
Pubmed - J. Zou, D. Tran, M. Baalbaki, L. F. Tang, A. Poon, A. Pelonero, E. W. Titus, C. Yuan, C. Shi, S. Patchava, E. Halper, J. Garg, I. Movsesyan, C. Yin, R. Wu, L. D. Wilsbacher, J. Liu, R. L. Hager, S. Coughlin, M. Jinek, C. R. Pullinger, J. P. Kane, D. O. Hart, P. Y. Kwok and R. C. Deo (2015) An internal promoter underlies the difference in disease severity between N- and C-terminal truncation mutations of Titin Elife, 4, e09406
Pubmed - D. Gökbuget, J. A. Pereira, S. Bachofner, A. Marchais, C. Ciaudo, M. Stoffel, J. H. Schulte and U. Suter (2015) The Lin28/let-7 axis is critical for myelination in the peripheral nervous system Nat Commun, 6, 8584
Pubmed - A. Title, R. Denzler and M. Stoffel (2015) Reply to Diet-responsive MicroRNAs Are Likely Exogenous J Biol Chem, 290(41), 25198
Pubmed - R. Stunnenberg, R. Kulasegaran-Shylini, C. Keller, M. A. Kirschmann, L. Gelman and M. Bühler (2015) H3K9 methylation extends across natural boundaries of heterochromatin in the absence of an HP1 protein EMBO J, 34(22), 2789-803
Pubmed - A. A. Kolodziejczyk, J. K. Kim, J. C. Tsang, T. Ilicic, J. Henriksson, K. N. Natarajan, A. C. Tuck, X. Gao, M. Bühler, P. Liu, J. C. Marioni and S. A. Teichmann (2015) Single Cell RNA-Sequencing of Pluripotent States Unlocks Modular Transcriptional Variation Cell Stem Cell, 17(4), 471-85
Pubmed - O. Anczukow, M. Akerman, A. Cléry, J. Wu, C. Shen, N. H. Shirole, A. Raimer, S. Sun, M. A. Jensen, Y. Hua, F. H. Allain and A. R. Krainer (2015) SRSF1-Regulated Alternative Splicing in Breast Cancer Mol Cell, 60(1), 105-17
Pubmed - R. Denzler and M. Stoffel (2015) The Long, the Short, and the Unstructured: A Unifying Model of miRNA Biogenesis Mol Cell, 60(1), 4-6
Pubmed - D. Spies and C. Ciaudo (2015) Dynamics in Transcriptomics: Advancements in RNA-seq Time Course and Downstream Analysis Comput Struct Biotechnol J, 13, 469-77
Pubmed - M. Menzi, H. L. Lightfoot and J. Hall (2015) Polyamine-oligonucleotide conjugates: a promising direction for nucleic acid tools and therapeutics Future Med Chem, 7(13), 1733-49
Pubmed - D. Liko and M. N. Hall (2015) mTOR in health and in sickness J Mol Med (Berl), 93(10), 1061-73
Pubmed - M. Hruska-Plochan, B. Li, D. Kyburz, J. Krutzfeld, U. Landmesser, A. Aguzzi and M. Polymenidou (2015) New and emerging roles of small RNAs in neurodegeneration, muscle, cardiovascular and inflammatory diseases Swiss Med Wkly, 145, w14192
Pubmed - Z. Cienikova, S. Jayne, F. F. Damberger, F. H. Allain and C. Maris (2015) Evidence for cooperative tandem binding of hnRNP C RRMs in mRNA processing RNA, 21(11), 1931-42
Pubmed - B. Yesildag, T. Bock, K. Herrmanns, B. Wollscheid and M. Stoffel (2015) Kin of IRRE-like Protein 2 Is a Phosphorylated Glycoprotein That Regulates Basal Insulin Secretion J Biol Chem, 290(43), 25891-906
Pubmed - K. D. Raczynska, M. D. Ruepp, A. Brzek, S. Reber, V. Romeo, B. Rindlisbacher, M. Heller, Z. Szweykowska-Kulinska, A. Jarmolowski and D. Schümperli (2015) FUS/TLS contributes to replication-dependent histone gene expression by interaction with U7 snRNPs and histone-specific transcription factors Nucleic Acids Res, 43(20), 9711-28
Pubmed - F. Wandrey, C. Montellese, K. Koos, L. Badertscher, L. Bammert, A. G. Cook, I. Zemp, P. Horvath and U. Kutay (2015) The NF45/NF90 Heterodimer Contributes to the Biogenesis of 60S Ribosomal Subunits and Influences Nucleolar Morphology Mol Cell Biol, 35(20), 3491-503
Pubmed - A. C. Title, R. Denzler and M. Stoffel (2015) Uptake and Function Studies of Maternal Milk-derived MicroRNAs J Biol Chem, 290(39), 23680-91
Pubmed - S. K. Hindupur, A. Gonzalez and M. N. Hall (2015) The Opposing Actions of Target of Rapamycin and AMP-Activated Protein Kinase in Cell Growth Control Cold Spring Harb Perspect Biol, 7(8),
Pubmed - D. Subasic, A. Brummer, Y. Wu, S. M. Pinto, J. Imig, M. Keller, M. Jovanovic, H. L. Lightfoot, S. Nasso, S. Goetze, E. Brunner, J. Hall, R. Aebersold, M. Zavolan and M. O. Hengartner (2015) Cooperative target mRNA destabilization and translation inhibition by miR-58 microRNA family in C. elegans Genome Res, 25(11), 1680-91
Pubmed - V. Vongrad, J. Imig, P. Mohammadi, S. Kishore, L. Jaskiewicz, J. Hall, H. F. Gunthard, N. Beerenwinkel and K. J. Metzner (2015) HIV-1 RNAs are Not Part of the Argonaute 2 Associated RNA Interference Pathway in Macrophages PLoS One, 10(7), e0132127
Pubmed - A. Kanitz, F. Gypas, A. J. Gruber, A. R. Gruber, G. Martin and M. Zavolan (2015) Comparative assessment of methods for the computational inference of transcript isoform abundance from RNA-seq data Genome Biol, 16(1), 150
Pubmed - M. Flemr and M. Bühler (2015) Single-Step Generation of Conditional Knockout Mouse Embryonic Stem Cells Cell Rep, 12(4), 709-16
Pubmed - M. Zavolan (2015) Inferring gene expression regulatory networks from high-throughput measurements Methods, 85, 1-2
Pubmed - V. Albert, M. Cornu and M. N. Hall (2015) mTORC1 signaling in Agrp neurons mediates circadian expression of Agrp and NPY but is dispensable for regulation of feeding behavior Biochem Biophys Res Commun, 464(2), 480-486
Pubmed - N. Quade, D. Boehringer, M. Leibundgut, J. van den Heuvel and N. Ban (2015) Cryo-EM structure of Hepatitis C virus IRES bound to the human ribosome at 3.9-A resolution Nat Commun, 6, 7646
Pubmed - S. G. Tattikota, T. Rathjen, J. Hausser, A. Khedkar, U. D. Kabra, V. Pandey, M. Sury, H. H. Wessels, I. G. Mollet, L. Eliasson, M. Selbach, R. P. Zinzen, M. Zavolan, S. Kadener, M. H. Tschop, M. Jastroch, M. R. Friedlander and M. N. Poy (2015) miR-184 Regulates Pancreatic beta-Cell Function According to Glucose Metabolism J Biol Chem, 290(33), 20284-94
Pubmed - V. Albert and M. N. Hall (2015) Reduced C/EBPbeta-LIP translation improves metabolic health EMBO Rep, 16(8), 881-2
Pubmed - R. Ungricht and U. Kutay (2015) Establishment of NE asymmetry-targeting of membrane proteins to the inner nuclear membrane Curr Opin Cell Biol, 34, 135-141
Pubmed - J. C. Mitchell, R. Constable, E. So, C. Vance, E. Scotter, L. Glover, T. Hortobagyi, E. S. Arnold, S. C. Ling, M. McAlonis, S. Da Cruz, M. Polymenidou, L. Tessarolo, D. W. Cleveland and C. E. Shaw (2015) Wild type human TDP-43 potentiates ALS-linked mutant TDP-43 driven progressive motor and cortical neuron degeneration with pathological features of ALS Acta Neuropathol Commun, 3(1), 36
Pubmed - F. Aeschimann, J. Xiong, A. Arnold, C. Dieterich and H. Grosshans (2015) Transcriptome-wide measurement of ribosomal occupancy by ribosome profiling Methods, 85, 75-89
Pubmed - K. Dragert, I. Bhattacharya, G. Pellegrini, P. Seebeck, A. Azzi, S. A. Brown, S. Georgiopoulou, U. Held, P. Blyszczuk, M. Arras, R. Humar, M. N. Hall, E. Battegay and E. Haas (2015) Deletion of Rictor in Brain and Fat Alters Peripheral Clock Gene Expression and Increases Blood Pressure Hypertension, 66(2), 332-9
Pubmed - F. H. Allain and S. A. Woodson (2015) Preface Methods Enzymol, 558, xix-xxi
Pubmed - C. Anders, O. Niewoehner and M. Jinek (2015) In Vitro Reconstitution and Crystallization of Cas9 Endonuclease Bound to a Guide RNA and a DNA Target Methods Enzymol, 558, 515-37
Pubmed - O. Duss, M. Yulikov, F. H. Allain and G. Jeschke (2015) Combining NMR and EPR to Determine Structures of Large RNAs and Protein-RNA Complexes in Solution Methods Enzymol, 558, 279-331
Pubmed - T. Afroz, Z. Cienikova, A. Cléry and F. H. Allain (2015) One, Two, Three, Four! How Multiple RRMs Read the Genome Sequence Methods Enzymol, 558, 235-78
Pubmed - F. Samain, T. Ekblad, G. Mikutis, N. Zhong, M. Zimmermann, A. Nauer, D. Bajic, W. Decurtins, J. Scheuermann, P. J. Brown, J. Hall, S. Graslund, H. Schuler, D. Neri and R. M. Franzini (2015) Tankyrase 1 Inhibitors with Drug-like Properties Identified by Screening a DNA-Encoded Chemical Library J Med Chem, 58(12), 5143-9
Pubmed - R. Ungricht, M. Klann, P. Horvath and U. Kutay (2015) Diffusion and retention are major determinants of protein targeting to the inner nuclear membrane J Cell Biol, 209(5), 687-704
Pubmed - M. Blatter, S. Dunin-Horkawicz, I. Grishina, C. Maris, S. Thore, T. Maier, A. Bindereif, J. M. Bujnicki and F. H. Allain (2015) The Signature of the Five-Stranded vRRM Fold Defined by Functional, Structural and Computational Analysis of the hnRNP L Protein J Mol Biol, 427(19), 3001-22
Pubmed - M. Latreille, K. Herrmanns, N. Renwick, T. Tuschl, M. T. Malecki, M. I. McCarthy, K. R. Owen, T. Rulicke and M. Stoffel (2015) miR-375 gene dosage in pancreatic beta-cells: implications for regulation of beta-cell mass and biomarker development J Mol Med (Berl), 93(10), 1159-69
Pubmed - J. Boudet, J. C. Devillier, F. H. Allain and G. Lipps (2015) Structures to complement the archaeo-eukaryotic primases catalytic cycle description: What's next?Comput Struct Biotechnol J 13,339-51
Pubmed - B. F. Belgardt, K. Ahmed, M. Spranger, M. Latreille, R. Denzler, N. Kondratiuk, F. von Meyenn, F. N. Villena, K. Herrmanns, D. Bosco, J. Kerr-Conte, F. Pattou, T. Rulicke and M. Stoffel (2015) The microRNA-200 family regulates pancreatic beta cell survival in type 2 diabetes Nat Med, 21(6), 619-27
Pubmed - A. Albisetti, S. Wiese, A. Schneider and M. Niemann (2015) A component of the mitochondrial outer membrane proteome of T. brucei probably contains covalent bound fatty acids Exp Parasitol, 155, 49-57
Pubmed - E. Kim, J. O. Ilagan, Y. Liang, G. M. Daubner, S. C. Lee, A. Ramakrishnan, Y. Li, Y. R. Chung, J. B. Micol, M. E. Murphy, H. Cho, M. K. Kim, A. S. Zebari, S. Aumann, C. Y. Park, S. Buonamici, P. G. Smith, H. J. Deeg, C. Lobry, I. Aifantis, Y. Modis, F. H. Allain, S. Halene, R. K. Bradley and O. Abdel-Wahab (2015) SRSF2 Mutations Contribute to Myelodysplasia by Mutant-Specific Effects on Exon Recognition Cancer Cell, 27(5), 617-30
Pubmed - M. Amort, B. Nachbauer, S. Tuzlak, A. Kieser, A. Schepers, A. Villunger and N. Polacek (2015) Expression of the vault RNA protects cells from undergoing apoptosis Nat Commun, 6, 7030
Pubmed - J. P. de Macedo, G. Schumann Burkard, M. Niemann, M. P. Barrett, H. Vial, P. Maser, I. Roditi, A. Schneider and P. Butikofer (2015) An Atypical Mitochondrial Carrier That Mediates Drug Action in Trypanosoma brucei PLoS Pathog, 11(5), e1004875
Pubmed - M. Koch, S. Flur, C. Kreutz, E. Ennifar, R. Micura and N. Polacek (2015) Role of a ribosomal RNA phosphate oxygen during the EF-G-triggered GTP hydrolysis Proc Natl Acad Sci U S A, 112(20), E2561-8
Pubmed - J. Breda, A. J. Rzepiela, R. Gumienny, E. van Nimwegen and M. Zavolan (2015) Quantifying the strength of miRNA-target interactions Methods, 85, 90-9
Pubmed - A. P. Oliveira, S. Dimopoulos, A. G. Busetto, S. Christen, R. Dechant, L. Falter, M. Haghir Chehreghani, S. Jozefczuk, C. Ludwig, F. Rudroff, J. C. Schulz, A. Gonzalez, A. Soulard, D. Stracka, R. Aebersold, J. M. Buhmann, M. N. Hall, M. Peter, U. Sauer and J. Stelling (2015) Inferring causal metabolic signals that regulate the dynamic TORC1-dependent transcriptome Mol Syst Biol, 11(4), 802
Pubmed - S. Ma, A. Venkatesh, F. Langellotto, Y. Z. Le, M. N. Hall, M. A. Ruegg and C. Punzo (2015) Loss of mTOR signaling affects cone function, cone structure and expression of cone specific proteins without affecting cone survival Exp Eye Res, 135, 1-13
Pubmed - F. H. Allain and H. M. Al-Hashimi (2015) Editorial overview: Nucleic acids and their protein complexes: Progress in nucleic acid structural biology: new technologies and discoveries Curr Opin Struct Biol, 30, vii-viii
Pubmed - B. J. Greber, P. Bieri, M. Leibundgut, A. Leitner, R. Aebersold, D. Boehringer and N. Ban (2015) Ribosome. The complete structure of the 55S mammalian mitochondrial ribosome Science, 348(6232), 303-8
Pubmed - M. Koch, N. Clementi, N. Rusca, P. Vogele, M. Erlacher and N. Polacek (2015) The integrity of the G2421-C2395 base pair in the ribosomal E-site is crucial for protein synthesis RNA Biol, 12(1), 70-81
Pubmed - J. Mani, S. Desy, M. Niemann, A. Chanfon, S. Oeljeklaus, M. Pusnik, O. Schmidt, C. Gerbeth, C. Meisinger, B. Warscheid and A. Schneider (2015) Mitochondrial protein import receptors in Kinetoplastids reveal convergent evolution over large phylogenetic distances Nat Commun, 6, 6646
Pubmed - K. M. Kowalik, Y. Shimada, V. Flury, M. B. Stadler, J. Batki and M. Bühler (2015) The Paf1 complex represses small-RNA-mediated epigenetic gene silencing Nature, 520(7546), 248-52
Pubmed - A. Venkatesh, S. Ma, Y. Z. Le, M. N. Hall, M. A. Ruegg and C. Punzo (2015) Activated mTORC1 promotes long-term cone survival in retinitis pigmentosa mice J Clin Invest, 125(4), 1446-58
Pubmed - J. Y. Tan, T. Sirey, F. Honti, B. Graham, A. Piovesan, M. Merkenschlager, C. Webber, C. P. Ponting and A. C. Marques (2015) Extensive microRNA-mediated crosstalk between lncRNAs and mRNAs in mouse embryonic stem cells Genome Res, 25(5), 655-66
Pubmed - J. Gebetsberger, R. Fricker and N. Polacek (2015) cDNA Library Generation for the Analysis of Small RNAs by High-Throughput Sequencing Methods Mol Biol, 1296, 139-49
Pubmed - D. Baltimore, P. Berg, M. Botchan, D. Carroll, R. A. Charo, G. Church, J. E. Corn, G. Q. Daley, J. A. Doudna, M. Fenner, H. T. Greely, M. Jinek, G. S. Martin, E. Penhoet, J. Puck, S. H. Sternberg, J. S. Weissman and K. R. Yamamoto (2015) Biotechnology. A prudent path forward for genomic engineering and germline gene modification Science, 348(6230), 36-8
Pubmed - F. H. Allain (2015) Fifty to 100 times the size! RNA, 21(4), 557
Pubmed - M. Zavolan and W. Keller (2015) Reflections on the RNA world RNA, 21(4), 531-3
Pubmed - A. Gonzalez, M. Shimobayashi, T. Eisenberg, D. A. Merle, T. Pendl, M. N. Hall and T. Moustafa (2015) TORC1 Promotes Phosphorylation of Ribosomal Protein S6 via the AGC Kinase Ypk3 in Saccharomyces cerevisiae PLoS One, 10(3), e0120250
Pubmed - T. Brandmann and M. Jinek (2015) Crystal structure of the C-terminal 2',5'-phosphodiesterase domain of group a rotavirus protein VP3 Proteins, 83(5), 997-1002
Pubmed - S. Ruegger, T. S. Miki, D. Hess and H. Grosshans (2015) The ribonucleotidyl transferase USIP-1 acts with SART3 to promote U6 snRNA recycling Nucleic Acids Res, 43(6), 3344-57
Pubmed - H. Jahns, M. Roos, J. Imig, F. Baumann, Y. Wang, R. Gilmour and J. Hall (2015) Stereochemical bias introduced during RNA synthesis modulates the activity of phosphorothioate siRNAs Nat Commun, 6, 6317
Pubmed - T. D. Carr, R. P. Feehan, M. N. Hall, M. A. Ruegg and L. M. Shantz (2015) Conditional disruption of rictor demonstrates a direct requirement for mTORC2 in skin tumor development and continued growth of established tumors Carcinogenesis, 36(4), 487-97
Pubmed - M. Rausch, M. Ecsedi, H. Bartake, A. Mullner and H. Grosshans (2015) A genetic interactome of the let-7 microRNA in C. elegans Dev Biol, 401(2), 276-86
Pubmed - M. de la Mata, D. Gaidatzis, M. Vitanescu, M. B. Stadler, C. Wentzel, P. Scheiffele, W. Filipowicz and H. Grosshans (2015) Potent degradation of neuronal miRNAs induced by highly complementary targets EMBO Rep, 16(4), 500-11
Pubmed - E. Aeby and J. Lingner (2015) ALT Telomeres Get Together with Nuclear Receptors Cell, 160(5), 811-3
Pubmed - D. Theler and F. H. Allain (2015) Molecular biology: RNA modification does a regulatory two-step Nature, 518(7540), 492-3
Pubmed - S. Campagne, F. H. Allain and J. A. Vorholt (2015) Extra Cytoplasmic Function sigma factors, recent structural insights into promoter recognition and regulation Curr Opin Struct Biol, 30C, 71-78
Pubmed - M. Ecsedi, M. Rausch and H. Grosshans (2015) The let-7 microRNA Directs Vulval Development through a Single Target Dev Cell, 32(3), 335-44
Pubmed - C. H. Aylett, D. Boehringer, J. P. Erzberger, T. Schaefer and N. Ban (2015) Structure of a Yeast 40S-eIF1-eIF1A-eIF3-eIF3j initiation complex Nat Struct Mol Biol, 22(3), 269-71
Pubmed - Z. Maniecka and M. Polymenidou (2015) From nucleation to widespread propagation: A prion-like concept for ALS Virus Res, 207, 94-105
Pubmed - R. M. Franzini, T. Ekblad, N. Zhong, M. Wichert, W. Decurtins, A. Nauer, M. Zimmermann, F. Samain, J. Scheuermann, P. J. Brown, J. Hall, S. Graslund, H. Schuler and D. Neri (2015) Identification of Structure-Activity Relationships from Screening a Structurally Compact DNA-Encoded Chemical Library Angew Chem Int Ed Engl, 54(13), 3927-31
Pubmed - M. Schosserer, N. Minois, T. B. Angerer, M. Amring, H. Dellago, E. Harreither, A. Calle-Perez, A. Pircher, M. P. Gerstl, S. Pfeifenberger, C. Brandl, M. Sonntagbauer, A. Kriegner, A. Linder, A. Weinhausel, T. Mohr, M. Steiger, D. Mattanovich, M. Rinnerthaler, T. Karl, S. Sharma, K. D. Entian, M. Kos, M. Breitenbach, I. B. Wilson, N. Polacek, R. Grillari-Voglauer, L. Breitenbach-Koller and J. Grillari (2015) Methylation of ribosomal RNA by NSUN5 is a conserved mechanism modulating organismal lifespan Nat Commun, 6, 6158
Pubmed - F. Laferriere and M. Polymenidou (2015) Advances and challenges in understanding the multifaceted pathogenesis of amyotrophic lateral sclerosis Swiss Med Wkly, 145, w14054
Pubmed - G. M. Mang, S. Pradervand, N. H. Du, A. B. Arpat, F. Preitner, L. Wigger, D. Gatfield and P. Franken (2015) A neuron-specific deletion of the microRNA-processing enzyme DICER induces severe but transient obesity in mice PLoS One, 10(1), e0116760
Pubmed - R. Gumienny and M. Zavolan (2015) Accurate transcriptome-wide prediction of microRNA targets and small interfering RNA off-targets with MIRZA-G Nucleic Acids Res, 43(3), 1380-91
Pubmed - V. A. Salunkhe, J. L. Esguerra, J. K. Ofori, I. G. Mollet, M. Braun, M. Stoffel, A. Wendt and L. Eliasson (2015) Modulation of microRNA-375 expression alters voltage-gated Na(+) channel properties and exocytosis in insulin-secreting cells Acta Physiol (Oxf), 213(4), 882-92
Pubmed - J. M. Pröpster, F. Yang, B. Ernst, F. H. Allain and M. Schubert (2015) Functional Siglec lectin domains from soluble expression in the cytoplasm of Escherichia coli Protein Expr Purif, 109C, 14-22
Pubmed - R. Villasenor, L. Miraglia, A. Romero, B. Tu, T. Punga, P. Knuckles, S. Duss, T. Orth and M. Bühler (2015) Genome-Engineering Tools to Establish Accurate Reporter Cell Lines That Enable Identification of Therapeutic Strategies to Treat Friedreich's Ataxia J Biomol Screen, 20(6), 760-7
Pubmed - E. C. Swart and M. Nowacki (2015) The eukaryotic way to defend and edit genomes by sRNA-targeted DNA deletion Ann N Y Acad Sci, 1341, 106-14
Pubmed - V. Albert and M.N. Hall (2015) mTOR signaling in cellular and organismal energeticsCurr Opin Cell Biol, 33C, 55-66
Pubmed - D. Oberti, A. Biasini, M. A. Kirschmann, C. Genoud, R. Stunnenberg, Y. Shimada and M. Bühler (2015) Dicer and Hsp104 function in a negative feedback loop to confer robustness to environmental stress Cell Rep, 10(1), 47-61
Pubmed - S. K. Martin, S. Fitter, A. K. Dutta, M. P. Matthews, C. R. Walkley, M. N. Hall, M. A. Ruegg, S. Gronthos and A. C. Zannettino (2015) Brief Report: The Differential Roles of mTORC1 and mTORC2 in Mesenchymal Stem Cell Differentiation Stem Cells, 33(4), 1359-65
Pubmed - J. Imig, A. Brunschweiger, A. Brummer, B. Guennewig, N. Mittal, S. Kishore, P. Tsikrika, A. P. Gerber, M. Zavolan and J. Hall (2015) miR-CLIP capture of a miRNA targetome uncovers a lincRNA H19-miR-106a interaction Nat Chem Biol, 11(2), 107-14
Pubmed
2014 Publications
2014 Publications
- Q. Huo, M. Kayikci, P. Odermatt, K. Meyer, O. Michels, S. Saxena, J. Ule and D. Schümperli (2014) Splicing changes in SMA mouse motoneurons and SMN-depleted neuroblastoma cells: Evidence for involvement of splicing regulatory proteins RNA Biol, 11(11), 1430-47
Pubmed - A. Pircher, J. Gebetsberger and N. Polacek (2014) Ribosome-associated ncRNAs: An emerging class of translation regulators RNA Biol, 11(11), 1335-9
Pubmed - A. Schneider and F. Schnarwiler (2014) Parasite reveals mitochondrial inheritance machinery Chimia (Aarau), 68(10), 749
Pubmed - A. R. Gruber, G. Martin, P. Muller, A. Schmidt, A. J. Gruber, R. Gumienny, N. Mittal, R. Jayachandran, J. Pieters, W. Keller, E. van Nimwegen and M. Zavolan (2014) Global 3' UTR shortening has a limited effect on protein abundance in proliferating T cells Nat Commun, 5, 5465
Pubmed - M. Arambasic, P. Y. Sandoval, C. Hoehener, A. Singh, E. C. Swart and M. Nowacki (2014) Pdsg1 and Pdsg2, novel proteins involved in developmental genome remodelling in Paramecium PLoS One, 9(11), e112899
Pubmed - D. Theler, C. Dominguez, M. Blatter, J. Boudet and F. H. Allain (2014) Solution structure of the YTH domain in complex with N6-methyladenosine RNA: a reader of methylated RNA Nucleic Acids Res, 42(22), 13911-9
Pubmed - A. Porro, S. Feuerhahn, J. Delafontaine, H. Riethman, J. Rougemont and J. Lingner (2014) Functional characterization of the TERRA transcriptome at damaged telomeres Nat Commun, 5, 5379
Pubmed - C. Norrmen, G. Figlia, F. Lebrun-Julien, J. A. Pereira, M. Trotzmuller, H. C. Kofeler, V. Rantanen, C. Wessig, A. L. van Deijk, A. B. Smit, M. H. Verheijen, M. A. Ruegg, M. N. Hall and U. Suter (2014) mTORC1 controls PNS myelination along the mTORC1-RXRgamma-SREBP-lipid biosynthesis axis in Schwann cells Cell Rep, 9(2), 646-60
Pubmed - L. Schonemann, U. Kuhn, G. Martin, P. Schafer, A. R. Gruber, W. Keller, M. Zavolan and E. Wahle (2014) Reconstitution of CPSF active in polyadenylation: recognition of the polyadenylation signal by WDR33 Genes Dev, 28(21), 2381-93
Pubmed - B. J. Greber, D. Boehringer, M. Leibundgut, P. Bieri, A. Leitner, N. Schmitz, R. Aebersold and N. Ban (2014) The complete structure of the large subunit of the mammalian mitochondrial ribosome Nature, 515(7526), 283-6
Pubmed - M. Ignarski, A. Singh, E. C. Swart, M. Arambasic, P. Y. Sandoval and M. Nowacki (2014) Paramecium tetraurelia chromatin assembly factor-1-like protein PtCAF-1 is involved in RNA-mediated control of DNA elimination Nucleic Acids Res, 42(19), 11952-64
Pubmed - V. Romeo, E. Griesbach and D. Schümperli (2014) CstF64: cell cycle regulation and functional role in 3' end processing of replication-dependent histone mRNAs Mol Cell Biol, 34(23), 4272-84
Pubmed - H. L. Lightfoot and J. Hall (2014) Endogenous polyamine function--the RNA perspective Nucleic Acids Res, 42(18), 11275-90
Pubmed - D. Roderer, S. Benke, M. Muller, H. Fah-Rechsteiner, N. Ban, B. Schuler and R. Glockshuber (2014) Characterization of variants of the pore-forming toxin ClyA from Escherichia coli controlled by a redox switch Biochemistry, 53(40), 6357-69
Pubmed - Z. Cienikova, F. F. Damberger, J. Hall, F. H. Allain and C. Maris (2014) Structural and mechanistic insights into poly(uridine) tract recognition by the hnRNP C RNA recognition motif J Am Chem Soc, 136(41), 14536-44
Pubmed - G. Balistreri, P. Horvath, C. Schweingruber, D. Zünd, G. McInerney, A. Merits, O. Mühlemann, C. Azzalin and A. Helenius (2014) The host nonsense-mediated mRNA decay pathway restricts Mammalian RNA virus replication Cell Host Microbe, 16(3), 403-11
Pubmed - S. Lalevee, O. Lapaire and M. Bühler (2014) miR455 is linked to hypoxia signaling and is deregulated in preeclampsia Cell Death Dis, 5, e1408
Pubmed - I. Zemp and J. Lingner (2014) The shelterin component TPP1 is a binding partner and substrate for the deubiquitinating enzyme USP7 J Biol Chem, 289(41), 28595-606
Pubmed - J. P. Erzberger, F. Stengel, R. Pellarin, S. Zhang, T. Schaefer, C. H. Aylett, P. Cimermancic, D. Boehringer, A. Sali, R. Aebersold and N. Ban (2014) Molecular architecture of the 40SeIF1eIF3 translation initiation complex Cell, 158(5), 1123-35
Pubmed - E. Wyler, F. Wandrey, L. Badertscher, C. Montellese, D. Alper and U. Kutay (2014) The beta-isoform of the BRCA2 and CDKN1A(p21)-interacting protein (BCCIP) stabilizes nuclear RPL23/uL14 FEBS Lett, 588(20), 3685-91
Pubmed - R. Joncourt, A. B. Eberle, S. C. Rufener and O. Mühlemann (2014) Eukaryotic initiation factor 4G suppresses nonsense-mediated mRNA decay by two genetically separable mechanisms PLoS One, 9(8), e104391
Pubmed - M. Cornu, W. Oppliger, V. Albert, A. M. Robitaille, F. Trapani, L. Quagliata, T. Fuhrer, U. Sauer, L. Terracciano and M. N. Hall (2014) Hepatic mTORC1 controls locomotor activity, body temperature, and lipid metabolism through FGF21 Proc Natl Acad Sci U S A, 111(32), 11592-9
Pubmed - D. Stracka, S. Jozefczuk, F. Rudroff, U. Sauer and M. N. Hall (2014) Nitrogen source activates TOR (target of rapamycin) complex 1 via glutamine and independently of Gtr/Rag proteins J Biol Chem, 289(36), 25010-20
Pubmed - R. M. Franzini, F. Samain, M. Abd Elrahman, G. Mikutis, A. Nauer, M. Zimmermann, J. Scheuermann, J. Hall and D. Neri (2014) Systematic evaluation and optimization of modification reactions of oligonucleotides with amines and carboxylic acids for the synthesis of DNA-encoded chemical libraries Bioconjug Chem, 25(8), 1453-61
Pubmed - P. Nicholson, C. Josi, H. Kurosawa, A. Yamashita and O. Mühlemann (2014) A novel phosphorylation-independent interaction between SMG6 and UPF1 is essential for human NMD Nucleic Acids Res, 42(14), 9217-35
Pubmed - A. J. Gruber, W. A. Grandy, P. J. Balwierz, Y. A. Dimitrova, M. Pachkov, C. Ciaudo, E. Nimwegen and M. Zavolan (2014) Embryonic stem cell-specific microRNAs contribute to pluripotency by inhibiting regulators of multiple differentiation pathways Nucleic Acids Res, 42(14), 9313-26
Pubmed - J. Hausser and M. Zavolan (2014) Identification and consequences of miRNA-target interactions--beyond repression of gene expression Nat Rev Genet, 15(9), 599-612
Pubmed - E. C. Swart, C. D. Wilkes, P. Y. Sandoval, M. Arambasic, L. Sperling and M. Nowacki (2014) Genome-wide analysis of genetic and epigenetic control of programmed DNA deletion Nucleic Acids Res, 42(14), 8970-83
Pubmed - L. Zhang, B. O. Tschumi, S. Corgnac, M. A. Ruegg, M. N. Hall, J. P. Mach, P. Romero and A. Donda (2014) Mammalian target of rapamycin complex 1 orchestrates invariant NKT cell differentiation and effector function J Immunol, 193(4), 1759-65
Pubmed - V. Busskamp, J. Krol, D. Nelidova, J. Daum, T. Szikra, B. Tsuda, J. Juttner, K. Farrow, B. G. Scherf, C. P. Alvarez, C. Genoud, V. Sothilingam, N. Tanimoto, M. Stadler, M. Seeliger, M. Stoffel, W. Filipowicz and B. Roska (2014) miRNAs 182 and 183 are necessary to maintain adult cone photoreceptor outer segments and visual function Neuron, 83(3), 586-600
Pubmed - T. Afroz, L. Skrisovska, E. Belloc, J. Guillen-Boixet, R. Mendez and F. H. Allain (2014) A fly trap mechanism provides sequence-specific RNA recognition by CPEB proteins Genes Dev, 28(13), 1498-514
Pubmed - T. Jack, M. D. Ruepp, A. J. Thompson, O. Mühlemann and M. Lochner (2014) Synthesis and characterization of photoaffinity probes that target the 5-HT3 receptor Chimia (Aarau), 68(4), 239-42
Pubmed - P. C. Chou, W. J. Oh, C. C. Wu, J. Moloughney, M. A. Ruegg, M. N. Hall, E. Jacinto and G. Werlen (2014) Mammalian target of rapamycin complex 2 modulates alphabetaTCR processing and surface expression during thymocyte development J Immunol, 193(3), 1162-70
Pubmed - F. Grahammer, N. Haenisch, F. Steinhardt, L. Sander, M. Roerden, F. Arnold, T. Cordts, N. Wanner, W. Reichardt, D. Kerjaschki, M. A. Ruegg, M. N. Hall, P. Moulin, H. Busch, M. Boerries, G. Walz, F. Artunc and T. B. Huber (2014) mTORC1 maintains renal tubular homeostasis and is essential in response to ischemic stress Proc Natl Acad Sci U S A, 111(27), E2817-26
Pubmed - S. H. Aeschlimann, F. Jonsson, J. Postberg, N. A. Stover, R. L. Petera, H. J. Lipps, M. Nowacki and E. C. Swart (2014) The draft assembly of the radically organized Stylonychia lemnae macronuclear genome Genome Biol Evol, 6(7), 1707-23
Pubmed - I. Sutter, R. Park, A. Othman, L. Rohrer, T. Hornemann, M. Stoffel, O. Devuyst and A. von Eckardstein (2014) Apolipoprotein M modulates erythrocyte efflux and tubular reabsorption of sphingosine-1-phosphate J Lipid Res, 55(8), 1730-1737
Pubmed - R. de Cabo, D. Carmona-Gutierrez, M. Bernier, M. N. Hall and F. Madeo (2014) The search for antiaging interventions: from elixirs to fasting regimens Cell, 157(7), 1515-26
Pubmed - F. Lebrun-Julien, L. Bachmann, C. Norrmen, M. Trotzmuller, H. Kofeler, M. A. Ruegg, M. N. Hall and U. Suter (2014) Balanced mTORC1 activity in oligodendrocytes is required for accurate CNS myelination J Neurosci, 34(25), 8432-48
Pubmed - G. Almouzni, L. Altucci, B. Amati, N. Ashley, D. Baulcombe, N. Beaujean, C. Bock, E. Bongcam-Rudloff, J. Bousquet, S. Braun, B. Bressac-de Paillerets, M. Bussemakers, L. Clarke, A. Conesa, X. Estivill, A. Fazeli, N. Grgurevic, I. Gut, B. T. Heijmans, S. Hermouet, J. Houwing-Duistermaat, I. Iacobucci, J. Ilas, R. Kandimalla, S. Krauss-Etschmann, P. Lasko, S. Lehmann, A. Lindroth, G. Majdic, E. Marcotte, G. Martinelli, N. Martinet, E. Meyer, C. Miceli, K. Mills, M. Moreno-Villanueva, G. Morvan, D. Nickel, B. Niesler, M. Nowacki, J. Nowak, S. Ossowski, M. Pelizzola, R. Pochet, U. Potocnik, M. Radwanska, J. Raes, M. Rattray, M. D. Robinson, B. Roelen, S. Sauer, D. Schinzer, E. Slagboom, T. Spector, H. G. Stunnenberg, E. Tiligada, M. E. Torres-Padilla, R. Tsonaka, A. Van Soom, M. Vidakovic and M. Widschwendter (2014) Relationship between genome and epigenome--challenges and requirements for future research BMC Genomics, 15, 487
Pubmed - A. Umemura, E. J. Park, K. Taniguchi, J. H. Lee, S. Shalapour, M. A. Valasek, M. Aghajan, H. Nakagawa, E. Seki, M. N. Hall and M. Karin (2014) Liver damage, inflammation, and enhanced tumorigenesis after persistent mTORC1 inhibition Cell Metab, 20(1), 133-44
Pubmed - M. P. Rechsteiner, X. Floros, B. O. Boehm, L. Marselli, P. Marchetti, M. Stoffel, H. Moch and G. A. Spinas (2014) Automated assessment of beta-cell area and density per islet and patient using TMEM27 and BACE2 immunofluorescence staining in human pancreatic beta-cells PLoS One, 9(6), e98932
Pubmed - J. Marino, L. Champion, C. Wandke, P. Horvath, M. I. Mayr and U. Kutay (2014) An in vitro system to study nuclear envelope breakdown Methods Cell Biol, 122, 255-76
Pubmed - G. M. Daubner, A. Brummer, C. Tocchini, S. Gerhardy, R. Ciosk, M. Zavolan and F. H. Allain (2014) Structural and functional implications of the QUA2 domain on RNA recognition by GLD-1 Nucleic Acids Res, 42(12), 8092-105
Pubmed - O. Duss, M. Yulikov, G. Jeschke and F. H. Allain (2014) EPR-aided approach for solution structure determination of large RNAs or protein-RNA complexes Nat Commun, 5, 3669
Pubmed - O. Duss, E. Michel, M. Yulikov, M. Schubert, G. Jeschke and F. H. Allain (2014) Structural basis of the non-coding RNA RsmZ acting as a protein sponge Nature, 509(7502), 588-92
Pubmed - F. Schnarwiler, M. Niemann, N. Doiron, A. Harsman, S. Kaser, J. Mani, A. Chanfon, C. E. Dewar, S. Oeljeklaus, C. B. Jackson, M. Pusnik, O. Schmidt, C. Meisinger, S. Hiller, B. Warscheid, A. C. Schnaufer, T. Ochsenreiter and A. Schneider (2014) Trypanosomal TAC40 constitutes a novel subclass of mitochondrial beta-barrel proteins specialized in mitochondrial genome inheritance Proc Natl Acad Sci U S A, 111(21), 7624-9
Pubmed - R. Denzler, V. Agarwal, J. Stefano, D. P. Bartel and M. Stoffel (2014) Assessing the ceRNA hypothesis with quantitative measurements of miRNA and target abundance Mol Cell, 54(5), 766-76
Pubmed - H. Stockinger, A. M. Altenhoff, K. Arnold, A. Bairoch, F. Bastian, S. Bergmann, L. Bougueleret, P. Bucher, M. Delorenzi, L. Lane, P. Le Mercier, F. Lisacek, O. Michielin, P. M. Palagi, J. Rougemont, T. Schwede, C. von Mering, E. van Nimwegen, D. Walther, I. Xenarios, M. Zavolan, E. M. Zdobnov, V. Zoete and R. D. Appel (2014) Fifteen years SIB Swiss Institute of Bioinformatics: life science databases, tools and support Nucleic Acids Res, 42(Web Server issue), W436-41
Pubmed - M. Latreille, J. Hausser, I. Stutzer, Q. Zhang, B. Hastoy, S. Gargani, J. Kerr-Conte, F. Pattou, M. Zavolan, J. L. Esguerra, L. Eliasson, T. Rulicke, P. Rorsman and M. Stoffel (2014) MicroRNA-7a regulates pancreatic beta cell function J Clin Invest, 124(6), 2722-35
Pubmed - V. Flury, U. Restuccia, A. Bachi and O. Mühlemann (2014) Characterization of phosphorylation- and RNA-dependent UPF1 interactors by quantitative proteomics J Proteome Res, 13(6), 3038-53
Pubmed - P. Barraud, S. Banerjee, W. I. Mohamed, M. F. Jantsch and F. H. Allain (2014) A bimodular nuclear localization signal assembled via an extended double-stranded RNA-binding domain acts as an RNA-sensing signal for transportin 1 Proc Natl Acad Sci U S A, 111(18), E1852-61
Pubmed - A. Moursy, F. H. Allain and A. Cléry (2014) Characterization of the RNA recognition mode of hnRNP G extends its role in SMN2 splicing regulation Nucleic Acids Res, 42(10), 6659-72
Pubmed - A. Kiss, P. Horvath, A. Rothballer, U. Kutay and G. Csucs (2014) Nuclear motility in glioma cells reveals a cell-line dependent role of various cytoskeletal components PLoS One, 9(4), e93431
Pubmed - A. Joshi, V. Esteve, A. N. Buckroyd, M. Blatter, F. H. Allain and S. Curry (2014) Solution and crystal structures of a C-terminal fragment of the neuronal isoform of the polypyrimidine tract binding protein (nPTB) PeerJ, 2, e305
Pubmed - A. Pircher, K. Bakowska-Zywicka, L. Schneider, M. Zywicki and N. Polacek (2014) An mRNA-derived noncoding RNA targets and regulates the ribosome Mol Cell, 54(1), 147-55
Pubmed - F. Erhard, J. Haas, D. Lieber, G. Malterer, L. Jaskiewicz, M. Zavolan, L. Dolken and R. Zimmer (2014) Widespread context dependency of microRNA-mediated regulation Genome Res, 24(6), 906-19
Pubmed - Y. Turgay, L. Champion, C. Balazs, M. Held, A. Toso, D. W. Gerlich, P. Meraldi and U. Kutay (2014) SUN proteins facilitate the removal of membranes from chromatin during nuclear envelope breakdown J Cell Biol, 204(7), 1099-109
Pubmed - J. Spitzer, M. Hafner, M. Landthaler, M. Ascano, T. Farazi, G. Wardle, J. Nusbaum, M. Khorshid, L. Burger, M. Zavolan and T. Tuschl (2014) PAR-CLIP (Photoactivatable Ribonucleoside-Enhanced Crosslinking and Immunoprecipitation): a step-by-step protocol to the transcriptome-wide identification of binding sites of RNA-binding proteins Methods Enzymol, 539, 113-61
Pubmed - B. F. Belgardt and M. Stoffel (2014) SIK2 regulates insulin secretion Nat Cell Biol, 16(3), 210-2
Pubmed - V. Godinic-Mikulcic, J. Jaric, B. J. Greber, V. Franke, V. Hodnik, G. Anderluh, N. Ban and I. Weygand-Durasevic (2014) Archaeal aminoacyl-tRNA synthetases interact with the ribosome to recycle tRNAs Nucleic Acids Res, 42(8), 5191-201
Pubmed - O. Duss, E. Michel, N. Diarra dit Konté, M. Schubert and F. H. Allain (2014) Molecular basis for the wide range of affinity found in Csr/Rsm protein-RNA recognition Nucleic Acids Res, 42(8), 5332-46
Pubmed - M. Shimobayashi and M. N. Hall (2014) Making new contacts: the mTOR network in metabolism and signalling crosstalk Nat Rev Mol Cell Biol, 15(3), 155-62
Pubmed - S. Campagne, M. E. Marsh, G. Capitani, J. A. Vorholt and F. H. Allain (2014) Structural basis for -10 promoter element melting by environmentally induced sigma factors Nat Struct Mol Biol, 21(3), 269-76
Pubmed - A. Porro, S. Feuerhahn and J. Lingner (2014) TERRA-reinforced association of LSD1 with MRE11 promotes processing of uncapped telomeres Cell Rep, 6(4), 765-76
Pubmed - D. Benjamin and M. N. Hall (2014) mTORC1: turning off is just as important as turning on Cell, 156(4), 627-8
Pubmed - N. Ban, R. Beckmann, J. H. Cate, J. D. Dinman, F. Dragon, S. R. Ellis, D. L. Lafontaine, L. Lindahl, A. Liljas, J. M. Lipton, M. A. McAlear, P. B. Moore, H. F. Noller, J. Ortega, V. G. Panse, V. Ramakrishnan, C. M. Spahn, T. A. Steitz, M. Tchorzewski, D. Tollervey, A. J. Warren, J. R. Williamson, D. Wilson, A. Yonath and M. Yusupov (2014) A new system for naming ribosomal proteins Curr Opin Struct Biol, 24, 165-9
Pubmed - P. J. Balwierz, M. Pachkov, P. Arnold, A. J. Gruber, M. Zavolan and E. van Nimwegen (2014) ISMARA: automated modeling of genomic signals as a democracy of regulatory motifs Genome Res, 24(5), 869-84
Pubmed - J. Chen, X. Tu, E. Esen, K. S. Joeng, C. Lin, J. M. Arbeit, M. A. Ruegg, M. N. Hall, L. Ma and F. Long (2014) WNT7B promotes bone formation in part through mTORC1 PLoS Genet, 10(1), e1004145
Pubmed - T. S. Miki, H. Richter, S. Ruegger and H. Grosshans (2014) PAXT-1 promotes XRN2 activity by stabilizing it through a conserved domain Mol Cell, 53(2), 351-60
Pubmed - N. Mittal and M. Zavolan (2014) Seq and CLIP through the miRNA world Genome Biol, 15(1), 202
Pubmed - T. S. Miki, S. Ruegger, D. Gaidatzis, M. B. Stadler and H. Grosshans (2014) Engineering of a conditional allele reveals multiple roles of XRN2 in Caenorhabditis elegans development and substrate specificity in microRNA turnover Nucleic Acids Res, 42(6), 4056-67
Pubmed - A. M. Dogar, G. Semplicio, B. Guennewig and J. Hall (2014) Multiple microRNAs derived from chemically synthesized precursors regulate thrombospondin 1 expression Nucleic Acid Ther, 24(2), 149-59
Pubmed - G. J. Hendriks, D. Gaidatzis, F. Aeschimann and H. Grosshans (2014) Extensive oscillatory gene expression during C. elegans larval development Mol Cell, 53(3), 380-92
Pubmed - P. Y. Sandoval, E. C. Swart, M. Arambasic and M. Nowacki (2014) Functional diversification of Dicer-like proteins and small RNAs required for genome sculpting Dev Cell, 28(2), 174-88
Pubmed - I. Zemp, F. Wandrey, S. Rao, C. Ashiono, E. Wyler, C. Montellese and U. Kutay (2014) CK1delta and CK1epsilon are components of human 40S subunit precursors required for cytoplasmic 40S maturation J Cell Sci, 127(Pt 6), 1242-53
Pubmed - H. Jorjani and M. Zavolan (2014) TSSer: an automated method to identify transcription start sites in prokaryotic genomes from differential RNA sequencing data Bioinformatics, 30(7), 971-4
Pubmed - B. J. Greber, D. Boehringer, A. Leitner, P. Bieri, F. Voigts-Hoffmann, J. P. Erzberger, M. Leibundgut, R. Aebersold and N. Ban (2014) Architecture of the large subunit of the mammalian mitochondrial ribosome Nature, 505(7484), 515-9
Pubmed - S. G. Tattikota, T. Rathjen, S. J. McAnulty, H. H. Wessels, I. Akerman, M. van de Bunt, J. Hausser, J. L. Esguerra, A. Musahl, A. K. Pandey, X. You, W. Chen, P. L. Herrera, P. R. Johnson, D. O'Carroll, L. Eliasson, M. Zavolan, A. L. Gloyn, J. Ferrer, R. Shalom-Feuerstein, D. Aberdam and M. N. Poy (2014) Argonaute2 mediates compensatory expansion of the pancreatic beta cell Cell Metab, 19(1), 122-34
Pubmed - A. R. Gruber, G. Martin, W. Keller and M. Zavolan (2014) Means to an end: mechanisms of alternative polyadenylation of messenger RNA precursors Wiley Interdiscip Rev RNA, 5(2), 183-96
Pubmed - S. Kishore, S. Piscuoglio, M. B. Kovac, A. Gylling, F. Wenzel, F. Trapani, H. J. Altermatt, V. Mele, G. Marra, P. Peltomaki, L. Terracciano, M. Zavolan and K. Heinimann (2014) 3'-UTR poly(T/U) tract deletions and altered expression of EWSR1 are a hallmark of mismatch repair-deficient cancers Cancer Res, 74(1), 224-34
Pubmed - L. F. Gebert, M. A. Rebhan, S. E. Crivelli, R. Denzler, M. Stoffel and J. Hall (2014) Miravirsen (SPC3649) can inhibit the biogenesis of miR-122 Nucleic Acids Res, 42(1), 609-21
Pubmed - L. Wyder Peters, K. D. Molle, A. Thiemeyer, A. Knopf, M. Goxe, P. Guerry, D. Brodbeck, M. Colombi, M. N. Hall, C. Moroni and U. Regenass (2014) An isogenic cell panel identifies compounds that inhibit proliferation of mTOR-pathway addicted cells by different mechanisms J Biomol Screen, 19(1), 131-44
Pubmed - T. Voigt, A. Neve and D. Schümperli (2014) The craniosacral progression of muscle development influences the emergence of neuromuscular junction alterations in a severe murine model for spinal muscular atrophy Neuropathol Appl Neurobiol, 40(4), 416-34
Pubmed