Disclaimer: This page includes all publications by NCCR member labs.

Publications

2024 Publications

2024 Publications

  • R.K. Gudipati, D. Gaidatzis, J. Seebacher, S. Muehlhaeusser, G. Kempf, S. Cavadini, D. Hess, C. Soneson and H. Grosshans (2024) Deep quantification of substrate turnover defines protease subsite cooperativity Mol Syst Biol, Epub ahead of print
    Pubmed
  • O. Anczukow, F.H.-T. Allain, B.L. Angarola, D.L. Black, A.N. Brooks, C. Cheng, A. Conesa, E.I. Crosse, E. Eyras, E. Guccione, S.X. Lu, K.M. Neugebauer, P. Sehgal, X. Song, Z. Tothova, J. Valcárcel, K.M. Weeks, G.W. Yeo and A. Thomas-Tikhonenko (2024) Steering research on mRNA splicing in cancer towards clinical translation Nat Rev Cancer, Epub ahead of print
    Pubmed
  • F. Raimondi, K.M. Siow, D. Wrona, C. Fuster-García, O. Pastukhov, M. Schmitz, K. Bargsten, L. Kissling, D.C. Swarts, G. Andrieux, T. Cathomen, U. Modlich, M. Jinek, U. Siler and J. Reichenbach (2024) Gene editing of NCF1 loci is associated with homologous recombination and chromosomal rearrangements Commun Biol, 7(1), 1291
    Pubmed
  • T. Schaefer, N. Mittal, H. Wang, M. Ataman, S. Candido, J. Lötscher, S. Velychko, L. Tintignac, T. Bock, A. Börsch, J. Bassler, T.N. Rao, J. Zmajkovic, S. Roffeis, J. Löliger, F. Jacob, A. Dumlin, C. Schürch, A. Schmidt, R.C. Skoda, M.P. Wymann, C. Hess, H.R. Schöler, H. Zaehres, E. Hurt, M. Zavolan and C. Lengerke (2024) Nuclear and cytosolic fractions of SOX2 synergize as transcriptional and translational co-regulators of cell fate Cell Rep, 43(10), 114807
    Pubmed
  • L. Álvarez, K. Haubrich, L. Iselin, L. Gillioz, V. Ruscica, K. Lapouge, S. Augsten, I. Huppertz, N.R. Choudhury, B. Simon, P. Masiewicz, M. Lethier, S. Cusack, K. Rittinger, F. Gabel, A. Leitner, G. Michlewski, M.W. Hentze, F.H.-T. Allain, A. Castello and J. Hennig (2024) The molecular dissection of TRIM25's RNA-binding mechanism provides key insights into its antiviral activity Nat Commun, 15(1), 8485
    Pubmed
  • E. Kyriacou and J. Lingner (2024) TERRA long noncoding RNA: At the interphase of telomere damage, rescue and signaling Curr Opin Cell Biol, Epub ahead of print
    Pubmed
  • N. Mittal, M. Ataman, L. Tintignac, D.J. Ham, L. Jörin, A. Schmidt, M. Sinnreich, M.A. Ruegg and M. Zavolan (2024) Calorie restriction and rapamycin distinctly restore non-canonical ORF translation in the muscles of aging mice NPJ Regen Med, 9(1), 23
    Pubmed
  • L. Subissi, J.R. Otieno, N. Worp, H.A. Cohen, B.B.O. Munnink, L.J. Abu-Raddad, E. Alm, 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, E. Ghedin, R. Grant, B.L. Haagmans, C. Happi, B.L. Herring, E.B. Hodcroft, J. Ikejezie, V. Katawera, Z.A. Kassamali, Y.-S. Leo, G.M. Leung, R.J. Kondor, M. Marklewitz, J. Mendez-Rico, N.M. Melhem, V. Munster, K. Nahapetyan, D. Naindoo, D.-Y. Oh, T.P. Peacock, M. Peiris, Z. Peng, L.L.M. Poon, A. Rambaut, S. Saha, Y. Shen, M.M. Siqueira, E. Volz, S.K. Tessema, V. Thiel, H. Triki, S. van der Werf, K. von Eije, J. Cunningham, M.P.G. Koopmans, A. von Gottberg, A. Agrawal, and M.D. Van Kerkhove (2024) An updated framework for SARS-CoV-2 variants reflects the unpredictability of viral evolution Nat Med, 30(9), 2400-2403
    Pubmed
  • J.G. Baldwin, C. Heuser-Loy, T. Saha, R.C. Schelker, D. Slavkovic-Lukic, N. Strieder, I. Hernandez-Lopez, N. Rana, M. Barden, F. Mastrogiovanni, A. Martín-Santos, A. Raimondi, P. Brohawn, B.W. Higgs, C. Gebhard, V. Kapoor, W.G. Telford, S. Gautam, M. Xydia, P. Beckhove, S. Frischholz, K. Schober, Z. Kontarakis, J.E. Corn, M. Iannacone, D. Inverso, M. Rehli, J. Fioravanti, S. Sengupta and L. Gattinoni (2024) Intercellular nanotube-mediated mitochondrial transfer enhances T cell metabolic fitness and antitumor efficacy Cell, Epub ahead of print
    Pubmed
  • S. Ohsawa, M. Schwaiger, V. Iesmantavicius, R. Hashimoto, H. Moriyama, H. Matoba, G. Hirai, M. Sodeoka, A. Hashimoto, A. Matsuyama, M. Yoshida, Y. Yashiroda and M. Bühler (2024) Nitrogen signaling factor triggers a respiration-like gene expression program in fission yeast EMBO J, Epub ahead of print
    Pubmed
  • A. Mironov, L. Franchitti, S. Ghosh, M.-F. Ritz, G. Hutter, M. De Bortoli and M. Zavolan (2024) Leveraging multi-omics data to infer regulators of mRNA 3' end processing in glioblastoma Front Mol Biosci, 11:1363933
    Pubmed
  • C. von Känel, P. Stettler, C. Esposito, S. Berger, S. Amodeo, S. Oeljeklaus, S. Calderaro, I.M. Durante, V. Rašková, B. Warscheid and A. Schneider (2024) Pam16 and Pam18 were repurposed during Trypanosoma brucei evolution to regulate the replication of mitochondrial DNA PLoS Biology, 22(8), e3002449
    Pubmed
  • F.F. Damberger, M. Krepl, R. Arora, I. Beusch, C. Maris, G. Dorn, J. Šponer, S. Ravindranathan and F.H.-T. Allain (2024) N-terminal domain of polypyrimidine-tract binding protein is a dynamic folding platform for adaptive RNA recognition Nucleic Acids Res
    Pubmed
  • J. Aguirre Rivera, G. Mao, A. Sabantsev, M. Panfilov, Q. Hou, M. Lindell, C. Chanez, F. Ritort, M. Jinek and S. Deindl (2024) Massively parallel analysis of single-molecule dynamics on next-generation sequencing chips Science, 385(6711):892-898
    Pubmed
  • A.M. Lentzsch, D. Yudin, M. Gamerdinger, S. Chandrasekar, L. Rabl, A. Scaiola, E. Deuerling, N. Ban and S.-O. Shan (2024) NAC guides a ribosomal multienzyme complex for nascent protein processing Nature, Epub ahead of print
    Pubmed
  • N. Schlusser, A. González, M. Pandey and M. Zavolan (2024) Current limitations in predicting mRNA translation with deep learning models Genome Biol, 25(1), 227
    Pubmed
  • S. Battaglioni, L.-M. Craigie, S. Filippini, T. Maier and M.N. Hall (2024) mTORC1 phosphorylates and stabilizes LST2 to negatively regulate EGFR Proc Natl Acad Sci U S A, 121(34):e2405959121
    Pubmed
  • Y. Gütlin, D. Albertos Torres, A. Gensch, A.-K. Schlotterbeck, L. Stöger, S. Heller, L. Infanti, G.T. Barut, V. Thiel, K. Leuzinger, H.H. Hirsch, A. Buser and A. Egli (2024) Anti-SARS-CoV-2 total immunoglobulin and neutralising antibody responses in healthy blood donors throughout the COVID-19 pandemic: a longitudinal observational study Swiss Med Wkly, 154, 3408
    Pubmed
  • M.E. Karasu, E. Toufektchan, Y. Chen, A. Albertelli, G. Cullot, J. Maciejowski and J.E. Corn (2024) Removal of TREX1 activity enhances CRISPR-Cas9-mediated homologous recombination Nat Biotechnol, Epub ahead of print
    Pubmed
  • M. Ataman, N. Mittal, L. Tintignac, A. Schmidt, D.J. Ham, A. González, M.A. Ruegg and M. Zavolan (2024) Calorie restriction and rapamycin distinctly mitigate aging-associated protein phosphorylation changes in mouse muscles Commun Biol, 7(1), 974
    Pubmed
  • M. Losa, M. Emmenegger, P. De Rossi, P.M. Schürch, T. Serdiuk, N. Pengo, D. Capron, D. Bieli, N. Bargenda, N.J. Rupp, M.C. Carta, K.J. Frontzek, V. Lysenko, R.R. Reimann, P. Schwarz, M. Nuvolone, G.T. Westermark, K.P.R. Nilsson, M. Polymenidou, A.P. Theocharides, S. Hornemann, P. Picotti and A. Aguzzi (2024) The ASC inflammasome adapter governs SAA-derived protein aggregation in inflammatory amyloidosis EMBO Mol Medicine, Epub ahead of print
    Pubmed
  • M. Schwaiger, F. Mohn, M. Bühler and L.J.T. Kaaij (2024) guidedNOMe-seq quantifies chromatin states at single allele resolution for hundreds of custom regions in parallel BMC Genomics, 25(1), 732
    Pubmed
  • A. Banerjee, M. Ataman, M.J. Smialek, D. Mookherjee, J. Rabl, A. Mironov, L. Mues, L. Enkler, M. Coto-Llerena, A. Schmidt, D. Boehringer, S. Piscuoglio, A. Spang, N. Mittal and M. Zavolan (2024) Ribosomal protein RPL39L is an efficiency factor in the cotranslational folding of a subset of proteins with alpha helical domains Nucleic Acids Res, Epub ahead of print
    Pubmed
  • K. Sabath, C. Qiu and S. Jonas (2024) Assembly mechanism of Integrator's RNA cleavage module Mol Cell, Epub ahead of print
    Pubmed
  • P.F. Renz, U. Ghoshdastider, S. Baghai Sain, F. Valdivia-Francia, A. Khandekar, M. Ormiston, M. Bernasconi, C. Duré, J.A. Kretz, M. Lee, K. Hyams, M. Forny, M. Pohly, X. Ficht, S.J. Ellis, A.E. Moor and A. Sendoel (2024) In vivo single-cell CRISPR uncovers distinct TNF programmes in tumour evolution Nature, Epub ahead of print
    Pubmed
  • T.-Y. Lin, L. Kleemann, J. Jezowski, D. Dobosz, M. Rawski, P. Indyka, G. Wazny, R. Mehta, A. Chramiec-Glabik, L. Koziej, T. Ranff, C. Fufezan, M. Wawro, J. Kochan, J. Bereta, S.A. Leidel and S. Glatt (2024) The molecular basis of tRNA selectivity by human pseudouridine synthase 3 Mol Cell, 84(13), 2472-2489.e8
    Pubmed
  • J. Schön, G.T. Barut, B.S. Trüeb, N.J. Halwe, I. Berenguer Veiga, A. Kratzel, L. Ulrich, J.N. Kelly, M. Brügger, C. Wylezich, A. Taddeo, E. Aguiar Moreira, D. Túrós, L. Grau-Roma, A. K. Ahrens, K. Schlottau, T. Britzke, A. Breithaupt, B. Corleis, J. Kochmann, B.I. Oliveira Esteves, L. Almeida, L. Thomann, C. Devisme, H. Stalder, S. Steiner, S. Ochsenbein, K. Schmied, F. Labroussaa, J. Jores, P. V'kovski, V. Cmiljanovic, M.P. Alves, C. Benarafa, N. Ebert, D. Hoffmann, M. Beer and V. Thiel (2024) A safe, effective and adaptable live-attenuated SARS-CoV-2 vaccine to reduce disease and transmission using one-to-stop genome modifications Nat Microbiol, Epub ahead of print
    Pubmed
  • G.R. Wells and R.S. Pillai (2024) Roles of N6-methyladenosine writers, readers and erasers in the mammalian germline Curr Opin Genet Dev, Epub ahead of print
    Pubmed
  • G. Reginato, M.R. Dello Stritto, Y. Wang, J. Hao, R. Pavani, M. Schmitz, S. Halder, V. Morin, E. Cannavo, I. Ceppi, S. Braunshier, A. Acharya, V. Ropars, J.-B. Charbonnier, M. Jinek, A. Nussenzweig, T. Ha and P. Cejka (2024) HLTF disrupts Cas9-DNA post-cleavage complexes to allow DNA break processing Nat Commun, 15(1), 5789
    Pubmed
  • M.E. Karasu, L. Jahnke, B.J. Joseph, Y. Amerzhanova, A. Mironov, X. Shu, M.S. Schröder, A. Gvozdenovic, I. Sala, M. Zavolan, S. Jonas and J.E. Corn (2024) CCAR1 promotes DNA repair via alternative splicing Mol Cell, Epub ahead of print
    Pubmed
  • J. Ahel, A. Pandey, M. Schwaiger, F. Mohn, A. Basters, G. Kempf, A. Andriollo, L. Kaaij, D. Hess and M. Bühler (2024) ChAHP2 and ChAHP control diverse retrotransposons by complementary activities Genes Dev, Epup ahead of print
    Pubmed
  • K.M. Siow, M. Güngör, D. Wrona, F. Raimondi, O. Pastukhov, P. Tsapogas, T. Menzi, M. Schmitz, P.I. Kulcsár, G. Schwank, A. Schulz, M. Jinek, U. Modlich, U. Siler and J. Reichenbach (2024) Targeted knock-in of NCF1 cDNA into the NCF2 locus leads to myeloid phenotypic correction of p47 phox -deficient chronic granulomatous disease Mol Ther Nucleic Acids, 35(3), 102229
    Pubmed
  • C. Bastiaanssen, P. Bobadilla Ugarte, K. Kim, G. Finocchio, Y. Feng, T.A. Anzelon, S. Köstlbacher, D. Tamarit, T.J.G. Ettema, M. Jinek, I.J. MacRae, C. Joo, D.C. Swarts and F. Wu (2024) RNA-guided RNA silencing by an Asgard archaeal Argonaute Nat Commun, 15(1), 5499
    Pubmed
  • R. Rauscher and N. Polacek (2024) Ribosomal RNA expansion segments and their role in ribosome biology Biochem Soc Trans, 52(3), 1317-1325
    Pubmed
  • C.P. D'Incal, E. Cappuyns, K. Choukri, K. De Man, K. Szrama, A. Konings, L. Bastini, K. Van Meel, A. Buys, M. Gabriele, L. Rizzuti, A. Vitriolo, G. Testa, F. Mohn, M. Bühler, N. Van der Aa, A. Van Dijck, R.F. Kooy and W. Vanden Berghe (2024) Tracing the invisible mutant ADNP protein in Helsmoortel-Van der Aa syndrome patients Sci Rep,14(1),14710
    Pubmed
  • K. Sabath, A. Nabih, C. Arnold, R. Moussa, D. Domjan, J.B. Zaugg and S. Jonas (2024) Basis of gene-specific transcription regulation by the Integrator complex Mol Cell, 84(13), 2525-2541.e12
    Pubmed
  • S. Martinez, S. Wu, M. Geuenich, A. Malik, R. Weber, T. Woo, A. Zhang, G.H. Jang, D. Dervovic, K.N. Al-Zahrani, R. Tsai, N. Fodil, P. Gros, S. Gallinger, G.G. Neely, F. Notta, A. Sendoel, K. Campbell, U. Elling and D. Schramek (2024) In vivo CRISPR screens reveal SCAF1 and USP15 as drivers of pancreatic cancer Nat Commun, 15(1), 5266
    Pubmed
  • L. Loeff, D.W. Adams, C. Chanez, S. Stutzmann, L. Righi, M. Blokesch and M. Jinek (2024) Molecular mechanism of plasmid elimination by the DdmDE defense system Science, Epub ahead of print
    Pubmed
  • A. Chavan, R. Isenhart, S.C. Nguyen, N.M. Kotb, J. Harke, A. Sintsova, G. Ulukaya, F. Uliana, C. Ashiono, U. Kutay, G. Pegoraro, P. Rangan, E.F. Joyce and M. Jagannathan (2024) A nuclear architecture screen in Drosophila identifies Stonewall as a link between chromatin position at the nuclear periphery and germline stem cell fate Genes Dev, Epub ahead of print
    Pubmed
  • O. Rackham, M. Saurer, N. Ban and A. Filipovska (2024) Unique architectural features of mammalian mitochondrial protein synthesis Trends Cell Biol, Epub ahead of print
    Pubmed
  • C.T. Mowery, J.W. Freimer, Z. Chen, S. Casaní-Galdón, J.M. Umhoefer, M.M. Arce, K. Gjoni, B. Daniel, K. Sandor, B.G. Gowen, V. Nguyen, D.R. Simeonov, C.M. Garrido, G.L. Curie, R. Schmidt, Z. Steinhart, A.T. Satpathy, K.S Pollard, J.E. Corn, B.E. Bernstein, C. Jimmie Ye and A. Marson (2024) Systematic decoding of cis gene regulation defines context-dependent control of the multi-gene costimulatory receptor locus in human T cells Nat Genet, Epub ahead of print
    Pubmed
  • H.P. Nadimpalli, G. Katsioudi, E.S. Arpa, L. Chikhaoui, A.B. Arpat, A. Liechti, G. Palais, C. Tessmer, I. Hofmann, B. Galy and D. Gatfield (2024) Diurnal control of iron responsive element containing mRNAs through iron regulatory proteins IRP1 and IRP2 is mediated by feeding rhythms Genome Biol, 25(1), 128
    Pubmed
  • M. Bak, E. van Nimwegen, I.U. Kouzel, T. Gur, R. Schmidt, M. Zavolan and A.J. Gruber (2024) MAPP unravels frequent co-regulation of splicing and polyadenylation by RNA-binding proteins and their dysregulation in cancer Nat Commun, 15(1), 4110
    Pubmed
  • L. Subissi, J.R. Otieno, N. Worp, H.A. Cohen, B.B.O. Munnink, L.J. Abu-Raddad, E. Alm, 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, E. Ghedin, R. Grant, B.L. Haagmans, C. Happi, B.L. Herring, E.B. Hodcroft, J. Ikejezie, V. Katawera, Z.A. Kassamali, Y.-S. Leo, G.M. Leung, R.J. Kondor, M. Marklewitz, J. Mendez-Rico, N.M. Melhem, V. Munster, K. Nahapetyan, D. Naindoo, D.-Y. Oh, T.P. Peacock, M. Peiris, Z. Peng, L.L.M. Poon, A. Rambaut, S. Saha, Y. Shen, M.M. Siqueira, E. Volz, S.K. Tessema, V. Thiel, H. Triki, S. van der Werf, K. von Eije, J. Cunningham, M.P.G. Koopmans, A. von Gottberg, A. Agrawal and M.D. Van Kerkhove (2024) An updated framework for SARS-CoV-2 variants reflects the unpredictability of viral evolution Nat Med, Epub ahead of print
    Pubmed
  • 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, 4(4), 100755
    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, 12(5), e0425522
    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, 35(5), ar73
    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, 52(8), 4124-4136
    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, 146(14), 9583-9596
    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, 9(7), e174133
    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, 34(2), 256-271
    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, 52(9), 5336-5355
    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, 10(7), eadi7830
    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, 52(6), 2821-2835
    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, 626(8001), 1073-1083
    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, 627(8002), 212-220
    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, 52(7), 4021-4036
    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, 30(4), 418-434
    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, 98(2), e0121623
    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, 626(7997), 160-168
    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, 52(4), 2012-2029
    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, 22(4), 206-225
    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, 43(2), 151-167
    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
  • K. Jungfer, A. Sigg and M. Jinek (2023) Substrate selectivity and catalytic activation of the type III CRISPR ancillary nuclease Can2  Nucleic Acids Res, 52(1), 462-473
    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, 20(2), 1156-1165
    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
  • 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, 18(12), 2441-2449
  • 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
  • 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, 12, e80683
    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, 29(12), 1839-1855
    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, 186(23), 5068-5083.e23
    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, 145(40), 21915-21924
    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, 48(12), 1058-1070
    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, 20(3), 333-343
    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, 42(9), 113112
    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, 97(9), e0055523
    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, 24(9), e56766
    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, 51(15), 8133-8149
    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, 42(7), 112786
    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, 42(17), e111719
    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, 75, 101769
    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, 83(14), 2578-2594.e9
    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, 15(10), 1431-1443
    Pubmed
  • M. Zavolan (2023) Walter Keller (1938-2023): a tribute from his mentees  RNA, 29(9), v-xiii
    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, 83(14), 2478-2492.e8
    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, 97(7), e0196422
    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, 154(Pt B), 99-104
    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, 42(6), 112569
    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, 51(13), 6702-6722
    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, 51(13), e68
    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, 62(37), e202305120
    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, 30(6), 770-777
    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, 324(6), E589-E598
    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, 29(8), 1140-1165
    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, 66(9), 222-236
    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, 51(9), 4555-4571
    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, 20(5), 627-628
    Pubmed
  • T. Solberg, V. Mason, C. Wang and M. Nowacki (2023) Developmental mRNA clearance by PIWI-bound endo-siRNAs in Paramecium Cell Rep, 42(3), 112213
    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, 119(5), 537-550
    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, 58(5), 597-599
    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, 42(7), e112699
    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, 29(5), 609-619
    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, 83(4), 589-606.e6
    Pubmed
  • J. Hall (2023) Future directions for medicinal chemistry in the field of oligonucleotide therapeutics  RNA, 29(4), 423-433
    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, 42(5), e112344
    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, 11(4), 710-723
    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, 14(1), e0281522
    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, 26(2), 105928
    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, 62(19), e202213703
    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
  • 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, 268, 127297
    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, 210, 105506
    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, 119(6), 1361-1376
    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, 42(9), 638-650
    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, 67, 101650
    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, 24(1), e55928
    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
  • 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
  • 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
  • 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, 185(26), 4999-5010.e17
    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
  • 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, 34(12), 2036-2046.e8
    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, 50(20), 11858-11875
    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, 41(23), e112338
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  • 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, 41(22), e111839
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  • 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
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  • 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
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  • 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
  • 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, 14(10), 1364-1373
    Pubmed
2016 Publications

2016 Publications

  • 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
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  • 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
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  • 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
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  • 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
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  • 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
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  • 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
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