Dataset Index | Swiss National Center of Competence in Research RNA & Disease

Citation	Dataset_title	Database	Persistent_ID

LaPierre et al (2021) Endocrinology	MicroRNA-7a2 regulates prolactin in developing lactotrophs and prolactinoma cells	European Nucleotide Archive	PRJEB39159

Stuttfeld et al (2018) eLife	Architecture of the human mTORC2 core complex (C2)	EMDataResource	EMD-3927

Liko et al (2020) Proc Natl Acad USA	Loss of TSC complex enhances gluconeogenesis via upregulation of Dlk1-Dio3 locus miRNAs	NCBI Gene Expression Omnibus	GSE141361

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 focused on one half	EMDataResource	EMD-11492

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 overall refinement	EMDataResource	EMD-11488

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2, focused on one half	Protein Data Bank	6ZWO

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2, overall refinement	Protein Data Bank	6ZWM

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 in absence of ATP-gamma-S	EMDataResource	EMD-11489

Scaiola et al (2020) Science Advances	Human mTOR complex 2 with additional density close to the mLST8	EMDataResource	EMD-11491

Scaiola et al (2020) Science Advances	Human mTOR complex 2 with additional density close to the mLST8	EMDataResource	EMD-11490

Nikolaou et al (2019) Cell Rep	Differential splicing analysis of liver-specific A1cf knock-out mice - BioProject	NCBI Sequence Read Archive	PRJNA530736

Nikolaou et al (2019) Cell Rep	PAR-CLIP of A1cf in mouse liver - BioProject	NCBI Sequence Read Archive	PRJNA531626

Kobiita et al (2020) Cell Rep	RNA-seq of isolated pancreatic islets from beta-cell-specific Jazf1 knock-out mice - BioProject	NCBI Sequence Read Archive	PRJNA595139

Kobiita et al (2020) Cell Rep	ChIP-seq data set	NCBI Sequence Read Archive	PRJNA595471

Singh et al (2018) PLoS One	DNA 5-methylcytosine in Paramecium	NCBI Gene Expression Omnibus	GSE111621

Glousker et al (2020) EMBO J	Human POT1 Prevents Severe Telomere Damage Instability Induced by Homology Directed DNA Repair	ProteomXchange data repository	PXD016826

Majerska et al (2018) Life Sci Alliance	Transformation-induced stress at telomeres is counteracted through changes in the telomeric proteome including SAMHD1	ProteomXchange data repository	PXD010088

Bracher et al (2020) Biomolecules	mSeq of vtRNA1.1 and vtRNA1.3 knockout or control cells in standard and starvation condition	NCBI Gene Expression Omnibus	GSE147054

Welte et al (2019) Genes Dev	The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1	NCBI Gene Expression Omnibus	GSE134125

Tuck et al (2020) Mol Cell	Mammalian RNA decay pathways are highly specialized and widely linked to translation	NCBI Gene Expression Omnibus	GSE134020

Knuckles et al (2018) Genes Dev	Zc3h13/Flacc is required for adenosine methylation by bridging the mRNA binding factor Rbm15/Spenito to other components of the m6A machinery	NCBI Gene Expression Omnibus	GSE106614

Tuck et al (2018) Life Sci Alliance	Deconstructing lincRNA regulation during ESC to NPC differentiation	NCBI Gene Expression Omnibus	GSE107493

Biasini et al (2020) EMBO J	Translation is required for miRNA-dependent decay of endogenous transcripts.	NCBI Gene Expression Omnibus	GSE143277

Dalcher et al (2020) EMBO J	BAZ2A safeguards genome architecture of ground-state pluripotent stem cells	NCBI Gene Expression Omnibus	GSE112222

Tan et al (2020) Life Sci Alliance	4sU metabolic labeled transcripts in mESCs	NCBI Gene Expression Omnibus	GSE111951

Ruiz Buendia et al (2020) Science Advances	Three-dimensional chromatin interactions remain stable upon CAG/CTG repeat expansion	NCBI Gene Expression Omnibus	GSE148185

Guay et al (2020) Scientific Reports	Loss-of-function of the long non-coding RNA A830019P07Rik in mice does not affect insulin expression and secretion	NCBI Gene Expression Omnibus	GSE137389

Coe et al (2019) PLoS Genetics	RNA-seq analysis of SKMEL28 melanoma cells following DIRC3 and IGFBP5 ASO knockdown	NCBI Gene Expression Omnibus	GSE129467

Coe et al (2019) PLoS Genetics	The MITF-SOX10 regulated long non-coding RNA DIRC3 is a melanoma tumour suppressor	NCBI Gene Expression Omnibus	GSE129078

Emming, Bianchi et al (2020) Nature Immunology	A molecular network regulating the proinflammatory phenotype of human memory T lymphocytes	NCBI Gene Expression Omnibus	GSE122946

Dalcher et al (2020) EMBO J	BAZ2A safeguards genome architecture of ground-state pluripotent stem cells	NCBI Gene Expression Omnibus	GSE112222

Ngondo et al (2018) Stem Cell Reports	Transcriptome of WT mouse embryonic stem cells	NCBI Gene Expression Omnibus	GSE78971

Ngondo et al (2018) Stem Cell Reports	Roles of Argonaute protein in mouse embryonic stem cells	NCBI Gene Expression Omnibus	GSE80454

Biasini et al (2020) EMBO J	Translation is required for miRNA-dependent decay of endogenous transcripts.	NCBI Gene Expression Omnibus	GSE143277

Ghosh et al (2020) EMBO J	AGO1x prevents dsRNA-induced interferon signaling to promote breast cancer cell proliferation	NCBI Bioproject	PRJNA447929

Ghosh et al (2020) EMBO J	AGO1x stop codon readthrough isoform	ProteomXchange data repository	PXD009401

Liko et al (2020) Proc Natl Acad USA	Loss of TSC complex enhances gluconeogenesis via upregulation of Dlk1-Dio3 locus miRNAs	NCBI Gene Expression Omnibus	GSE141361

Guimaraes et al (2020) Genome Biol	A rare-codon-based translational program of cell proliferation	NCBI Bioproject	PRJNA472989

Guimaraes et al (2020) Genome Biol	A rare-codon-based translational program of cell proliferation	ProteomXchange data repository	PXD016034

Pandey et al (2018) Cell Rep	Exonuclease domain-containing 1 enhances MIWI2 piRNA biogenesis via its interaction with TDRD12	NCBI Gene Expression Omnibus	GSE119447

Campagne et al (2019) Nat Chem Biol	Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7	Biological Magnetic Resonance Data Bank	34311

Campagne et al (2019) Nat Chem Biol	Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7 in complex with the SMN-C5 splicing modifier	Biological Magnetic Resonance Data Bank	34312

Campagne et al (2019) Nat Chem Biol	Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7	Protein Data Bank	6HMI

Campagne et al (2019) Nat Chem Biol	Solution structure of the RNA duplex formed by the 5'-end of U1snRNA and the 5'-splice site of SMN2 exon7 in complex with the SMN-C5 splicing modifier	Protein Data Bank	6HMO

Cléry et al (2021) Nat Commun	Structure of human SRSF1 RRM1 bound to AACAAA RNA	Protein Data Bank	6HPJ

Ripin et al (2019) PNAS	Molecular basis for AU-rich element recognition and dimerization by the HuR C-terminal RRM	Protein Data Bank	6GC5

Nikolaev et al (2019) Nat Methods	Data for the Systems NMR: simultaneous quantification of RNA, protein, and metabolite reaction dynamics for biomolecular network analysis.	Zenodo	2554066

Nikolaev et al (2019) Nat Methods	SRM used to measure nuclear protein concentrations to confirm measurements by SystemsNMR	PeptideAtlas	PASS01365

Denichenko et al (2019) Nat Commun	Specific inhibition of splicing factor activity by decoy RNA oligonucleotides	NCBI Gene Expression Omnibus	GSE126503

Denichenko et al (2019) Nat Commun	Specific inhibition of splicing factor activity by decoy RNA oligonucleotides	ProteomXchange data repository	PXD012564

Masliah et al (2018) EMBO J	Structure of TRBP dsRBD 1 and 2 in complex with a 19 bp siRNA (Complex A)	Protein Data Bank	5N8M

Masliah et al (2018) EMBO J	Structure of TRBP dsRBD 1 and 2 in complex with a 19 bp siRNA (Complex B)	Protein Data Bank	5N8L

Loughlin et al (2019) Mol Cell	SOLUTION STRUCTURE OF FUS-ZNF BOUND TO UGGUG	Proteopedia	6G99

Loughlin et al (2019) Mol Cell	SOLUTION STRUCTURE OF FUS-RRM BOUND TO STEM-LOOP RNA	Proteopedia	6GBM

Loughlin et al (2019) Mol Cell	Solution structure of FUS-ZnF bound to UGGUG	Biological Magnetic Resonance Data Bank	34258

Loughlin et al (2019) Mol Cell	Solution structure of FUS-RRM bound to stem-loop RNA	Biological Magnetic Resonance Data Bank	34259

Jutzi et al (2020) Nat Commun	Solution structure of the FUS/TLS RNA recognition motif in complex with U1 snRNA stem loop III	Protein Data Bank	6SNJ

Jutzi et al (2020) Nat Commun	Solution structure of the FUS/TLS RNA recognition motif in complex with U1 snRNA stem loop III	BMRB	34427

Jutzi et al (2020) Nat Commun	Transcriptome-wide identification of nuclear and cytoplasmic RNA-binding sites of FUS RBD-only constructs	NCBI Gene Expression Omnibus	GSE139263

Schütz et al (2018) Nat Commun	NMR Solution Structure of yeast TSR2(1-152)	Protein Data Bank	6G03

Schütz et al (2018) Nat Commun	NMR Solution Structure of Yeast TSR2(1-152) in Complex with S26A(100-119)	Protein Data Bank	6G04

Schütz et al (2018) Nat Commun	Molecular basis for RanGTP independent disassembly of an importin:ribosomal protein complex by the escortin Tsr2	ProteomXchange data repository	PXD009106

Loughlin et al (2019) Mol Cell	SOLUTION STRUCTURE OF FUS-ZNF BOUND TO UGGUG	Proteopedia	6G99

Loughlin et al (2019) Mol Cell	SOLUTION STRUCTURE OF FUS-RRM BOUND TO STEM-LOOP RNA	Proteopedia	6GBM

Loughlin et al (2019) Mol Cell	Solution structure of FUS-ZnF bound to UGGUG	Biological Magnetic Resonance Data Bank	34258

Loughlin et al (2019) Mol Cell	Solution structure of FUS-RRM bound to stem-loop RNA	Biological Magnetic Resonance Data Bank	34259

Sabath et al (2020) Nat Commun	Crystal structure of the human INTS13-INTS14 complex	Protein Data Bank	6SN1

Sabath et al (2020) Nat Commun	Characterization of Integrator module INTS10-INTS13-INTS14 and its connection to the cleavage module Part I	ProteomXchange data repository	PXD015682

Sabath et al (2020) Nat Commun	Characterization of Integrator module INTS10-INTS13-INTS14 and its connection to the cleavage module Part II	ProteomXchange data repository	PXD017996

Studer et al (2020) Proc. Natl. Acad. Sci. USA	Crystal structure of the human DEAH-helicase DHX15 in complex with the NKRF G-patch	Protein Data Bank	6SH7

Studer et al (2020) Proc. Natl. Acad. Sci. USA	Crystal structure of the human DEAH-helicase DHX15 in complex with the NKRF G-patch bound to ADP	Protein Data Bank	6SH6

Pandey et al (2020) Cell Rep	The mammalian cap-specific m6Am RNA methyltransferase PCIF1 regulates transcript levels in mouse tissue	NCBI Gene Expression Omnibus	GSE151229

Mendel et al (2018) Mol Cell	Methylation of structured RNA by the m6A writer METTL16 is essential for mouse embryonic development	NCBI Gene Expression Omnibus	GSE116329

Mendel et al (2018) Mol Cell	METTL16 MTase domain	Protein Data Bank	6GFN

Mendel et al (2018) Mol Cell	METTL16 MTase domain (crystal form 2)	Protein Data Bank	6GT5

Mendel et al (2018) Mol Cell	delta-N METTL16 MTase domain	Protein Data Bank	6GFK

Welte et al (2019) Genes Dev	The RNA hairpin binder TRIM71 modulates alternative splicing by repressing MBNL1	NCBI Gene Expression Omnibus	GSE134125

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, composite map	Electron Microscopy Data Bank (EMDB)	EMD-11320

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, composite map	Protein Data Bank	6ZOJ

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on body	Electron Microscopy Data Bank (EMDB)	EMD-11321

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on body	Protein Data Bank	6ZOK

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on head	Electron Microscopy Data Bank (EMDB)	EMD-11322

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on head	Protein Data Bank	6ZOL

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1 bound to 43S Pre-initiation complex	Electron Microscopy Data Bank (EMDB)	EMD-11323

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1 bound to a translationally inactive 80S ribosome	Electron Microscopy Data Bank (EMDB)	EMD-11609

Karousis et al (2020) Nat Commun	Ribosome profiling under ABCE1 depletion to study aberrant translation termination	NCBI Gene Expression Omnibus	GSE143301

Annibaldis et al (2020) Nucleic Acids Res	Ribosome profiling under ABCE1 depletion to study aberrant translation termination	NCBI Gene Expression Omnibus	GSE143301

Ross et al (2020) Nat Chem Biol	PolyA-enriched RNA-seq of whole cell versus cytoplasmic fraction to assess read-through phenotype in compound-treated cells	NCBI Sequence Read Archive	SRP158650

Ross et al (2020) Nat Chem Biol	Cleavage and Polyadenylation Specificity Factor Subunit 3 (CPSF3) in complex with NVP-LTM531	Protein Data Bank	6M8Q

Pabis et al (2020) EMBO J	Crystal structure of Uba4 from Chaetomium thermophilum	Protein Data Bank	6YUB

Pabis et al (2020) EMBO J	Crystal structure of Uba4-Urm1 from Chaetomium thermophilum	Protein Data Bank	6YUC

Pabis et al (2020) EMBO J	Crystal structure of Uba4-Urm1 from Chaetomium thermophilum	Protein Data Bank	6Z6S

Pabis et al (2020) EMBO J	Molecular characterization of the eukaryotic Uba4/Urm1 system	ProteomXchange data repository	PXD015802

Boontanrart et al (2020) Cell Reports	ATF4 regulates MYB to increase g-globin in response to loss of ?-globin	NCBI Gene Expression Omnibus	GSE153768

Boneberg et al (2019) RNA	Crystal structure of murine DHX37 in complex with RNA	Protein Data Bank	6O16

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State F1	Electron Microscopy Data Bank (EMDB)	EMD-11517

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2	Electron Microscopy Data Bank (EMDB)	EMD-11518

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State G	Electron Microscopy Data Bank (EMDB)	EMD-11519

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1	Electron Microscopy Data Bank (EMDB)	EMD-11520

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2	Electron Microscopy Data Bank (EMDB)	EMD-11521

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State F1	Protein Data Bank	6ZXD

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State F2	Protein Data Bank	6ZXE

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State G	Protein Data Bank	6ZXF

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State H1	Protein Data Bank	6ZXG

Ameismeier et al (2020) Nature	Cryo-EM structure of a late human pre-40S ribosomal subunit - State H2	Protein Data Bank	6ZXH

Miyake et al (2019) Nat Microbiol	Crystal structure of influenza A virus M1 N-terminal domain (G18A mutation)	Protein Data Bank	6I3H

Boneberg et al (2019) RNA	Crystal structure of murine DHX37 in complex with RNA	Protein Data Bank	6O16

Garcia-Doval et al (2020) Nat Commun	Enterococcus italicus Csm6 bound to cyclic hexa-2'-fluoro-hexa-dAMP	Protein Data Bank	6TUG

Pinto et al (2020) Science	Crystal structure of ANGEL2, a 2',3'-cyclic phosphatase	Protein Data Bank	6RW0

Pinto et al (2020) Science	Crystal structure of ANGEL2, a 2',3'-cyclic phosphatase, in complex with adenosine-2',3'-vanadate	Protein Data Bank	6RVZ

Panasenko et al (2019) Nature Struct Mol Biol	Yeast WT ribosome profiling sequences (Panasenko's project) - BioProject	NCBI Sequence Read Archive	PRJNA512900

Stuttfeld et al (2018) eLife	Architecture of the human mTORC2 core complex (C2)	Electron Microscopy Data Bank (EMDB)	EMD-3927

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 focused on one half	Electron Microscopy Data Bank (EMDB)	EMD-11492

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 overall refinement	Electron Microscopy Data Bank (EMDB)	EMD-11488

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2, focused on one half	Protein Data Bank	PDB ID 6ZWO

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2, overall refinement	Protein Data Bank	PDB ID 6ZWM

Scaiola et al (2020) Science Advances	cryo-EM structure of human mTOR complex 2 in absence of ATP-gamma-S	Electron Microscopy Data Bank (EMDB)	EMD-11489

Scaiola et al (2020) Science Advances	Human mTOR complex 2 with additional density close to the mLST8	Electron Microscopy Data Bank (EMDB)	EMD-11491

Scaiola et al (2020) Science Advances	Human mTOR complex 2 with additional density close to the mLST8	Electron Microscopy Data Bank (EMDB)	EMD-11490

van de Waterbeemd et al (2018) Nat Commun	Bottom-up and top-down LC-MS/MS of ribosomal purifications	ProteomXchange data repository	PXD008881

Scaiola et al (2018) EMBO J	Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit	Protein Data Bank	6FAI

Scaiola et al (2018) EMBO J	Xtructure of a eukaryotic cytoplasmic pre-40S ribosomal subunit	Electron Microscopy Data Bank (EMDB)	EMD?4214

Scaiola et al (2018) EMBO J	Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit classified for Rio2	Electron Microscopy Data Bank (EMDB)	EMD?4216

Scaiola et al (2018) EMBO J	Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit classified for Enp1	Electron Microscopy Data Bank (EMDB)	EMD?4217

Scaiola et al (2018) EMBO J	Structure of a eukaryotic cytoplasmic pre-40S ribosomal subunit classified for Dim1	Electron Microscopy Data Bank (EMDB)	EMD?4218

Scaiola et al (2018) EMBO J	Yeast 80S ribosome with an uncleaved 20S rRNA	Electron Microscopy Data Bank (EMDB)	EMD?4215

Kobayashi et al (2018) Science	Structure of a prehandover mammalian ribosomal SRP and SRP receptor targeting complex	Protein Data Bank	6FRK

Kobayashi et al (2018) Science	Structure of a prehandover mammalian ribosomal SRP and SRP receptor targeting complex	Electron Microscopy Data Bank (EMDB)	EMD-4300

Karousis et al (2020) Nat Commun	Ribosome profiling under ABCE1 depletion to study aberrant translation termination	NCBI Gene Expression Omnibus	GSE143301

Annibaldis et al (2020) Nucleic Acids Res	Ribosome profiling under ABCE1 depletion to study aberrant translation termination	NCBI Gene Expression Omnibus	GSE143301

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, composite map	Electron Microscopy Data Bank (EMDB)	EMD-11320

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, composite map	Protein Data Bank	6ZOJ

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on body	Electron Microscopy Data Bank (EMDB)	EMD-11321

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on body	Protein Data Bank	6ZOK

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on head	Electron Microscopy Data Bank (EMDB)	EMD-11322

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1-40S complex, focused on head	Protein Data Bank	6ZOL

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1 bound to 43S Pre-initiation complex	Electron Microscopy Data Bank (EMDB)	EMD-11323

Schubert, Karousis et al (2020) Nat Struct Mol Bio	SARS-CoV-2-Nsp1 bound to a translationally inactive 80S ribosome	Electron Microscopy Data Bank (EMDB)	EMD-11609

Gruber et al (2018) Genome Biol	A-seq2 of HeLa	NCBI Sequence Read Archive	SRP115462

Arpat et al (2020) Genome Res	Transcriptome-wide sites of collided ribosomes reveal sequence determinants of translational pausing in vivo	NCBI Gene Expression Omnibus	GSE134541

Tuck et al (2020) Mol Cell	Mammalian RNA decay pathways are highly specialized and widely linked to translation	NCBI Gene Expression Omnibus	GSE134020

Castelo-Szekely et al (2019) Nucleic Acids Res	DENR-regulated reinitiation events uncover predictive uORF features and links to circadian timekeeping via Clock regulation	NCBI Gene Expression Omnibus	GSE124793

Wang et al (2020) Nature	Using ribosome profiling and matched RNA sequencing to study the co-evolution of transcriptome and translatome in mammalian organs	Array Express	E-MTAB-7247

Fricker et al (2019) Nat Commun	Profiling of ribosome-associated small RNAs in Trypanosoma brucei	European Nucleotide Archive (ENA)	PRJEB24915

Shankar et al (2020) Nucleic Acids Res	mSeq of total and polysome bound mRNAs in two yeast strains	NCBI Gene Expression Omnibus	GSE134774

Wyss et al (2018) Scientific Reports	Identification of ribosome-associated ncRNAs (rancRNAs) in Haloferax volcanii	European Nucleotide Archive (ENA)	PRJEB25902

Fricker et al (2019) Nat Commun	Profiling of ribosome-associated small RNAs in Trypanosoma brucei	European Nucleotide Archive (ENA)	PRJEB24915

Jaskolowski et al (2020) Mol Cell	State A of the Trypanosoma brucei mitoribosomal large subunit assembly intermediate	Electron Microscopy Data Bank (EMDB)	EMD-10999

Jaskolowski et al (2020) Mol Cell	State B of the Trypanosoma brucei mitoribosomal large subunit assembly intermediate	Electron Microscopy Data Bank (EMDB)	EMD-11000

Jaskolowski et al (2020) Mol Cell	State A of the Trypanosoma brucei mitoribosomal large subunit assembly intermediate	Protein Data Bank	6YXX

Jaskolowski et al (2020) Mol Cell	State B of the Trypanosoma brucei mitoribosomal large subunit assembly intermediate	Protein Data Bank	6YXY

Saurer et al (2019) Science	Head domain of the mt-SSU assemblosome from Trypanosoma brucei	Protein Data Bank	6SG9

Saurer et al (2019) Science	Body domain of the mt-SSU assemblosome from Trypanosoma brucei	Protein Data Bank	6SGA

Saurer et al (2019) Science	mt-SSU assemblosome of Trypanosoma brucei	Protein Data Bank	6SGB

Saurer et al (2019) Science	Head domain of the mt-SSU assemblosome from Trypanosoma brucei	Electron Microscopy Data Bank (EMDB)	EMD-10175

Saurer et al (2019) Science	Body domain of the mt-SSU assemblosome from Trypanosoma brucei	Electron Microscopy Data Bank (EMDB)	EMD-10177

Saurer et al (2019) Science	mt-SSU assemblosome of Trypanosoma brucei	Electron Microscopy Data Bank (EMDB)	EMD-10180

Saurer et al (2019) Science	mt-SSU assemblosome of wild-type Trypanosoma brucei brucei	Electron Microscopy Data Bank (EMDB)	EMD-10176

Saurer et al (2019) Science	mt-SSU middle assembly intermediate of wild-type Trypanosoma brucei brucei	Electron Microscopy Data Bank (EMDB)	EMD-10178

Saurer et al (2019) Science	mt-SSU late assembly intermediate of wild-type Trypanosoma brucei brucei	Electron Microscopy Data Bank (EMDB)	EMD-10179

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the complete mitoribosome	Electron Microscopy Data Bank (EMDB)	EMD-0229

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the complete mitoribosome	Protein Data Bank	6HIV

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the complete small mitoribosomal subunit in complex with mt-IF-3	Electron Microscopy Data Bank (EMDB)	EMD-0230

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the complete small mitoribosomal subunit in complex with mt-IF-3	Protein Data Bank	6HIW

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the large mitoribosomal subunit	Electron Microscopy Data Bank (EMDB)	EMD-0231

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the large mitoribosomal subunit	Protein Data Bank	6HIX

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the body of the small mitoribosomal subunit in complex with mt-IF-3	Electron Microscopy Data Bank (EMDB)	EMD-0232

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the body of the small mitoribosomal subunit in complex with mt-IF-3	Protein Data Bank	6HIY

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochondrial ribosome - This entry contains the head of the small mitoribosomal subunit	Electron Microscopy Data Bank (EMDB)	EMD-0233

Ramrath et al (2018) Science	Cryo-EM structure of the Trypanosoma brucei mitochond	Protein Data Bank	6HIZ

Kummer et al (2020) EMBO J	55S mammalian mitochondrial ribosome with mtEFG1 and two tRNAMet (TI-POST)	Electron Microscopy Data Bank (EMDB)	EMD-10779

Kummer et al (2020) EMBO J	55S mammalian mitochondrial ribosome with mtEFG1 and P site fMet-tRNAMet (POST)	Electron Microscopy Data Bank (EMDB)	EMD-10778

Kummer et al (2020) EMBO J	55S mammalian mitochondrial ribosome with mtEFG1 and two tRNAMet (TI-POST)	Protein Data Bank	6YDW

Kummer et al (2020) EMBO J	55S mammalian mitochondrial ribosome with mtEFG1 and P site fMet-tRNAMet (POST)	Protein Data Bank	6YDP

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the 28S ribosomal subunit	Protein Data Bank	6GAZ

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the 28S ribosomal subunit.	Electron Microscopy Data Bank (EMDB)	EMD-4369

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the 39S ribosomal subunit	Protein Data Bank	6GB2

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the 39S ribosomal subunit.	Electron Microscopy Data Bank (EMDB)	EMD-4370

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the complete 55S ribosome	Protein Data Bank	6GAW

Kummer et al (2018) Nature	Unique features of mammalian mitochondrial translation initiation revealed by cryo-EM. This file contains the complete 55S ribosome.	Electron Microscopy Data Bank (EMDB)	EMD-4368

Wang et al (2019) Nat Struct Mol Bio	Ribosome nascent chain in complex with SecA	Electron Microscopy Data Bank (EMDB)	EMD-10073

Wang et al (2019) Nat Struct Mol Bio	SecA in complex with ribosome nascent chain	Electron Microscopy Data Bank (EMDB)	EMD-10074

Wang et al (2019) Nat Struct Mol Bio	Ribosome nascent chain in complex with SecA	Protein Data Bank	6S0K

Gamerdinger et al (2019) Mol Cell	C.elegans NAC-ribosomal 60S complex	Electron Microscopy Data Bank (EMDB)	EMD-4938

Gamerdinger et al (2019) Mol Cell	Early Scanning of Nascent Polypeptides inside the Ribosomal Tunnel by NAC	ProteomXchange data repository	PXD011995

Liu et al (2021) Cell Reports	Expression profiling of Ythdc2 ht and Ythdc2 iKO pachytene spermatocytes in mouse.	NCBI Gene Expression Omnibus	GSE166568

Fasnacht et al (2022) Nucleic Acids Res	Hold for release	ProteomXchange data repository	PXD025875

Kroupova et al (2021) eLife	N-terminal domain of CGI-99	Protein Data Bank	7P3A

Kroupova et al (2021) eLife	Human RNA ligase RTCB in complex with GMP and Co(II)	Protein Data Bank	7P3B

Kroupova et al (2021) eLife	Molecular architecture of the human tRNA ligase complex	ProteomXchange data repository	PXD025662

Krauer et al (2021) Noncoding RNA	Hold for release	ProteomXchange data repository	PXD029751

Jobbins, Campagne, Weinmeister et al (2022) EMBO J	Exon-independent recruitment of SRSF1 is mediated by U1 snRNP stem-loop 3	University of Leicester's Figshare data repository	5521944

Lin, Näger et al (2021) Nucleic Acids Res	The Human Telomeric Proteome During Telomere Replication	ProteomXchange data repository	PXD018712

Methot, Padeken et al (2021) Nat Cell Biol	H3K9me blocks transcription factor activity in differentiated cells to ensure tissue integrity	NCBI Gene Expression Omnibus	GSE167168

Götze et al (2021) Anal Chem	Single Nucleotide Resolution RNA-Protein Cross-Linking/MS: Simple Extension of the CLIR-MS Workflow	ProteomXchange data repository	PXD024010

Ge, Goga, He et al (2022) Gastroenterology	MiR-802 is a Tumor Suppressor of Early Stage Pancreatic Cancer	EBI Biostudies	E-MTAB-10411

Gruhl et al (2021) eLife	Identification and evolutionary comparison of circular RNAs in five mammalian species and three organs.	NCBI Gene Expression Omnibus	GSE162152

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, overall refinement	Protein Data Bank	7PE7

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, focussed on one protomer	Protein Data Bank	7PE8

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, DEPt-bound subset local refinement	Protein Data Bank	7PE9

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, overall refinement	Protein Data Bank	7PEA

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, focussed on one protomer	Protein Data Bank	7PEB

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, DEPt-bound subset local refinement	Protein Data Bank	7PEC

Wälchli et al (2021) eLife	DEPTOR DEP domain tandem (DEPt)	Protein Data Bank	7PED

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, overall refinement	Electron Microscopy Data Bank (EMDB)	EMD-13347

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, focussed on one protomer	Electron Microscopy Data Bank (EMDB)	EMD-13348

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 2, DEPt-bound subset local refinement	Electron Microscopy Data Bank (EMDB)	EMD-13349

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, overall refinement	Electron Microscopy Data Bank (EMDB)	EMD-13350

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, focussed on one protomer	Electron Microscopy Data Bank (EMDB)	EMD-13351

Wälchli et al (2021) eLife	cryo-EM structure of DEPTOR bound to human mTOR complex 1, DEPt-bound subset local refinement	Electron Microscopy Data Bank (EMDB)	EMD-13352

Karousis et al (2021) Genome Biol	Nanopore sequencing reveals endogenous NMD-targeted isoforms in human cells	Array Express	E-MTAB-10452

Eichenberger, Zhan et al (2021) Nucleic Acids Res	deepBlink	Figshare	88118

van den Heuvel et al (2021) eLife	AP-MS analysis of human FUBIeS30/FAU WT and non-cleavable G73,4A and G74V mutants	PRIDE	PXD021864

Nörpel, Cavadini et al (2021) PLoS Biology	Structure of the C9orf72-SMCR8 complex	Protein Data Bank	7O2W

Nörpel, Cavadini et al (2021) PLoS Biology	Structure of the C9orf72-SMCR8 complex	Electron Microscopy Data Bank (EMDB)	EMD-12700

Jomaa et al (2021) Cell Rep	SRP-SR at the distal site conformation	Protein Data Bank	7OBQ

Jomaa et al (2021) Cell Rep	RNC-SRP early complex	Protein Data Bank	7OBR

Jomaa et al (2021) Cell Rep	SRP-SR at the distal site conformation	Electron Microscopy Data Bank (EMDB)	EMD-12799

Jomaa et al (2021) Cell Rep	RNC-SRP-SR complex	Electron Microscopy Data Bank (EMDB)	EMD-12800

Jomaa et al (2021) Cell Rep	RNC-SRP early complex	Electron Microscopy Data Bank (EMDB)	EMD-12801

Reber et al (2021) Nucleic Acids Res	The phase separation-dependent FUS interactome reveals nuclear and cytoplasmic function of liquid-liquid phase separation	ProteomXchange data repository	PXD015834

Reber et al (2021) Nucleic Acids Res	RNA-seq to investigate the phase separation-dependent FUS RNA interactome	Array Express	E-MTAB-8456

Bawankar, Lence, Paolantoni et al (2021) Nat Commun	Hakai is required for stabilizing core components of the m6A mRNA methylation machinery	NCBI Gene Expression Omnibus	GSE158663

Bawankar, Lence, Paolantoni et al (2021) Nat Commun	Hakai is required for stabilization of core components of the m6A mRNA methylation machinery	PRIDE	PXD022294

Reuther, Schneider et al (2021) RNA Biol	mRNA seq of total and polysome associated mRNAs in three different conditions	NCBI Gene Expression Omnibus	GSE135475

Reuther, Schneider et al (2021) RNA Biol	Control sample rancRNA_18	Electron Microscopy Data Bank (EMDB)	EMD-12986

Reuther, Schneider et al (2021) RNA Biol	rancRNA_18 processing and classification	Electron Microscopy Data Bank (EMDB)	EMD-12988

Title et al (2021) Mol Metab	RNA sequencing of WT and Zeb1200M islets	Array Express	E-MTAB-10535

Title et al (2021) Mol Metab	RNA sequencing of RipmiR-141~200c and RipmiR-141~200c Zeb1200M islets	Array Express	E-MTAB-10537

Goga, Yagabasan, Herrmanns et al (2021) Nat Commun	RNAseq_45 mir-802fl/fl	NCBI Gene Expression Omnibus	GSM4456008

Goga, Yagabasan, Herrmanns et al (2021) Nat Commun	miR-802 regulates Paneth cell function and enterocyte differentiation	Array Express	PRJEB43950

Stephan, Ries et al (2021) Nucleic Acids Res

Stephan, Ries et al (2021) Nucleic Acids Res	Ribosomal methyltransferase KsgA bound to small ribosomal subunit	Protein Data Bank	7O5H

Stephan, Ries et al (2021) Nucleic Acids Res	Ribosomal methyltransferase KsgA bound to small ribosomal subunit	Electron Microscopy Data Bank (EMDB)	EMD-12736

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)	Protein Data Bank	7O7Y

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)	Protein Data Bank	7O7Z

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site	Protein Data Bank	7O80

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot	Protein Data Bank	7O81

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (high resolution)	Electron Microscopy Data Bank (EMDB)	EMD-12756

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome stalled close to the mutated SARS-CoV-2 slippery site by a pseudoknot (classified for pseudoknot)	Electron Microscopy Data Bank (EMDB)	EMD-12757

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome in complex with eRF1 and ABCE1 stalled at the STOP codon in the mutated SARS-CoV-2 slippery site	Electron Microscopy Data Bank (EMDB)	EMD-12758

Bhatt, Scaiola et al (2021) Science	Rabbit 80S ribosome colliding in another ribosome stalled by the SARS-CoV-2 pseudoknot	Electron Microscopy Data Bank (EMDB)	EMD-12759

Bhatt, Scaiola et al (2021) Science	Disome of rabbit ribosomes with the leading one stalled by the SARS-CoV-2 pseudoknot	Electron Microscopy Data Bank (EMDB)	EMD-12760

Bhatt, Scaiola et al (2021) Science	Structural basis of ribosomal frameshifting during translation of the SARS-CoV-2 RNA genome	NCBI Gene Expression Omnibus	GSE167421

Contu et al (2021) PLoS Pathog	Characterisation of the Semliki Forest Virus-host cell interactome reveals the viral capsid protein as an inhibitor of nonsense-mediated mRNA decay	PRIDE	PXD022036

Sahadevan, Hembach et al (2021) Nat Commun	E-MTAB-9211 - Mutant FUS triggers age-dependent synaptic impairment in presymptomatic ALS-FUS mice (CLIP-seq)	Array Express	E-MTAB-9211

Sahadevan, Hembach et al (2021) Nat Commun	E-MTAB-9212 - Mutant FUS triggers age-dependent synaptic impairment in presymptomatic ALS-FUS mice (RNA-seq)	Array Express	E-MTAB-9212

Sahadevan, Hembach et al (2021) Nat Commun	E-MTAB-10104 - Mutant FUS triggers age-dependent synaptic impairment in presymptomatic ALS-FUS mice (RNA-seq part2)	Array Express	E-MTAB-10104

Sahadevan, Hembach et al (2021) Nat Commun	Synaptic accumulation of FUS triggers early misregulation of synaptic RNAs in ALS-FUS mice	PRIDE	PXD024075

Lee, Jomaa et al (2021) Sci Adv	Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state A	Protein Data Bank	7NFX

Lee, Jomaa et al (2021) Sci Adv	Mammalian ribosome nascent chain complex with SRP and SRP receptor in early state A	Electron Microscopy Data Bank (EMDB)	EMD-12303

Lee, Jomaa et al (2021) Sci Adv	SRP54 and SRP RNA proximal site	Electron Microscopy Data Bank (EMDB)	EMD-12304

Lee, Jomaa et al (2021) Sci Adv	Mammalian ribosome nascent chain complex with SRP and SRP receptor in the early state B	Electron Microscopy Data Bank (EMDB)	EMD-12305

Bhaskar et al (2021) Cell Rep	Structure of human ribosome in classical-PRE state	Protein Data Bank	6Y0G

Bhaskar et al (2021) Cell Rep	Structure of human ribosome in hybrid-PRE state	Protein Data Bank	6Y57

Bhaskar et al (2021) Cell Rep	Structure of human ribosome in POST state	Protein Data Bank	6Y2L

Bhaskar et al (2021) Cell Rep	Structure of human ribosome in classical-PRE state	Electron Microscopy Data Bank (EMDB)	EMD-10668

Bhaskar et al (2021) Cell Rep	Cryo-EM map of human ribosome in hybrid-PRE state	Electron Microscopy Data Bank (EMDB)	EMD-10690

Bhaskar et al (2021) Cell Rep	Cryo-EM map of human ribosome in POST state	Electron Microscopy Data Bank (EMDB)	EMD-10674

Mendel et al (2021) Cell	RNA m6A methylation of 3? splice site prevents binding of U2AF35 to inhibit splicing	NCBI Gene Expression Omnibus	GSE146873

Mendel et al (2021) Cell	Splice site m6A methylation prevents binding of U2AF35 to inhibit RNA splicing	Mendeley Data	s92zgtbhjp

Plassart, Shayan et al (2021) eLife	Human RIO1(kd)-StHA late pre-40S particle, structural state A (pre 18S rRNA cleavage)	Protein Data Bank	6ZUO

Plassart, Shayan et al (2021) eLife	Human RIO1(kd)-StHA late pre-40S particle, structural state B (post 18S rRNA cleavage)	Protein Data Bank	6ZV6

Plassart, Shayan et al (2021) eLife	Human RIO1(kd)-StHA late pre-40S particle structural state A (pre 18S rRNA cleavage)	Electron Microscopy Data Bank (EMDB)	EMD-11440

Plassart, Shayan et al (2021) eLife	Human RIO1(kd)-StHA late pre-40S particle structural state B (post 18S rRNA cleavage)	Electron Microscopy Data Bank (EMDB)	EMD-11441

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural state A head	Electron Microscopy Data Bank (EMDB)	EMD-11446

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural state A body	Electron Microscopy Data Bank (EMDB)	EMD-11445

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural state A platform	Electron Microscopy Data Bank (EMDB)	EMD-11447

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural State B Head	Electron Microscopy Data Bank (EMDB)	EMD-11443

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural State B Body	Electron Microscopy Data Bank (EMDB)	EMD-11442

Plassart, Shayan et al (2021) eLife	Human pre-40S particle purified using RIO1(kd)-StHA as bait - Structural state B platform	Electron Microscopy Data Bank (EMDB)	EMD-11444

Plassart, Shayan et al (2021) eLife	Proteomics analysis of human pre-40S ribosomal particles	PRIDE	PXD019270

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with mtRF1a and P-site tRNAMet	Protein Data Bank	7NQH

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with ICT1 and P site tRNAMet	Protein Data Bank	7NQL

Kummer et al (2021) Mol Cell	39S mammalian mitochondrial large ribosomal subunit with mtRRF (post) and mtEFG2	Protein Data Bank	7NSH

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with mtRRF (pre) and tRNA(P/E)	Protein Data Bank	7NSI

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with tRNA(P/P) and tRNA(E*)	Protein Data Bank	7NSJ

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with mtRF1a and P-site tRNAMet	Electron Microscopy Data Bank (EMDB)	EMD-12527

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with ICT1 and P site tRNAMet	Electron Microscopy Data Bank (EMDB)	EMD-12529

Kummer et al (2021) Mol Cell	39S mammalian mitochondrial large ribosomal subunit with mtRRF (post) and mtEFG2	Electron Microscopy Data Bank (EMDB)	EMD-12567

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with mtRRF (pre) and tRNA(P/E)	Electron Microscopy Data Bank (EMDB)	EMD-12568

Kummer et al (2021) Mol Cell	55S mammalian mitochondrial ribosome with tRNA(P/P) and tRNA(E*)	Electron Microscopy Data Bank (EMDB)	EMD-12569

Gudipati et al (2021) Mol Cell	Protease-mediated processing of Argonaute proteins controls small RNA association [RNA-Seq]	NCBI Gene Expression Omnibus	GSE151714

Gudipati et al (2021) Mol Cell	Protease-mediated processing of Argonaute proteins controls small RNA association [smallRNA-Seq]	NCBI Gene Expression Omnibus	GSE151715

Gudipati et al (2021) Mol Cell	Protease-mediated processing of Argonaute proteins controls small RNA association	NCBI Gene Expression Omnibus	GSE151717

Gudipati et al (2021) Mol Cell	Protease-mediated processing of Argonaute proteins controls small RNA association [small RNA RIP-seq]	NCBI Gene Expression Omnibus	GSE156540

Ghosh, Börsch et al (2021) BMC Genomics	The transcriptional landscapes of a hepatoma cell line grown on scaffolds of Extracellular Matrix proteins	NCBI Gene Expression Omnibus	GSE142206

V’kovski, Gultom, Kelly, Steiner et al (2021) PLoS Biol	Bulk RNA Barcoding and sequencing (BRB-seq) of Mock, SARS-CoV, and SARS-CoV-2 infected human airway epithelial cell cultures at 33°C and 37°C	Array Express	E-MTAB-9781

Campagne et al (2021) Nucleic Acids Res	Solution structure of U1-A RRM2 (190-282)	Protein Data Bank	7AEP

Campagne et al (2021) Nucleic Acids Res	Solution structure of U1-A RRM2 (190-282)	Biological Magnetic Resonance Data Bank	34560

Bhaskar, Desogus et al (2021) RNA	Cryo-EM structure of the human Ebp1 - 80S ribosome	Protein Data Bank	7BHP

Bhaskar, Desogus et al (2021) RNA	Cryo-EM structure of the human Ebp1 - 80S ribosome	Electron Microscopy Data Bank (EMDB)	EMD-12189

Dörner et al (2022) Nucleic Acids Res	Genome-wide RNAi screen for human 60S subunit biogenesis factors	ETHZ Research Collection	528381

Rzeszutek et al (2022) Biochim Biophys Acta Mol Cell Res	MAC DNA sequencing of Paramecium meiotic factors (EV, SPO11, MSH4-1, MSH5)	European Nucleotide Archive (ENA)	PRJEB28501

Rzeszutek et al (2022) Biochim Biophys Acta Mol Cell Res	MAC DNA sequencing of Paramecium meiotic factors (EV, SPO11, MSH4-1, MSH5)	European Nucleotide Archive (ENA)	PRJEB28649

Rzeszutek et al (2022) Biochim Biophys Acta Mol Cell Res	small RNA sequencing during meiotic genes silencing	European Nucleotide Archive (ENA)	PRJEB29502

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Ternary complex of ribosome nascent chain with SRP and NAC	Protein Data Bank	7QWQ

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Structure of the ribosome-nascent chain containing an ER signal sequence in complex with NAC	Protein Data Bank	7QWR

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Structure of ribosome translating beta-tubulin in complex with TTC5 and NAC	Protein Data Bank	7QWS

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Ternary complex of ribosome nascent chain with SRP and NAC	Electron Microscopy Data Bank (EMDB)	EMD-14191

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Structure of the ribosome-nascent chain containing an ER signal sequence in complex with NAC	Electron Microscopy Data Bank (EMDB)	EMD-14192

Jomaa, Gamerdinger, Hsieh et al (2022) Science	Structure of ribosome translating beta-tubulin in complex with TTC5 and NAC	Electron Microscopy Data Bank (EMDB)	EMD-14193

Dewar et al (2022) J Biol Chem	Characterisation of a highly diverged putative mitochondrial ATP synthase peripheral stalk subunit b in Trypanosoma brucei	ProteomXchange data repository	PXD031256

Dewar et al (2022) J Biol Chem	Characterisation of a highly diverged putative mitochondrial ATP synthase peripheral stalk subunit b in Trypanosoma brucei	ProteomXchange data repository	PXD031259

Li, Krasnkykov et al (2022) Mol Cell	The XRN1-regulated RNA helicase activity of YTHDC2 ensures mouse fertility independently of m6A recognition	NCBI Gene Expression Omnibus	GSE196427

Hersch et al (2022) BMC Bioinformatics	Estimating RNA dynamics using one time point for one sample in a single-pulse metabolic experiment	NCBI Gene Expression Omnibus	GSE150286

Hersch et al (2022) BMC Bioinformatics	Translation is required for miRNA-dependent decay of endogenous transcripts.	NCBI Gene Expression Omnibus	GSE143277

Hersch et al (2022) BMC Bioinformatics	mESCs, BR1_WT_10min_tot	NCBI Gene Expression Omnibus	GSM4255969

Hersch et al (2022) BMC Bioinformatics	mESCs, BR1_WT_10min_lab	NCBI Gene Expression Omnibus	GSM4255961

Hersch et al (2022) BMC Bioinformatics	mESCs, BR2_WT_10min_tot	NCBI Gene Expression Omnibus	GSM4255973

Hersch et al (2022) BMC Bioinformatics	mESCs, BR2_WT_10min_lab	NCBI Gene Expression Omnibus	GSM4255965

Müller et al (2022) Stem Cell Reports	ARGONAUTE proteins regulate a specific network of genes through KLF4 in mESCs.	NCBI Gene Expression Omnibus	GSE185410

Knörlein et al (2022) Nat Commun	Structural requirements for photo-induced RNA-protein cross-linking	ProteomXchange data repository	PXD031381

Dewar et al (2022) Nat Commun	Release of a nuclear ubiquitin-like protein activates proteasomal degradation of mislocalized hydrophobic mitochondrial proteins in trypanosomes	ProteomXchange data repository	PXD027739

Dewar et al (2022) Nat Commun	Release of a nuclear ubiquitin-like protein activates proteasomal degradation of mislocalized hydrophobic mitochondrial proteins in trypanosomes	ProteomXchange data repository	PXD027652

Dewar et al (2022) Nat Commun	Release of a nuclear ubiquitin-like protein activates proteasomal degradation of mislocalized hydrophobic mitochondrial proteins in trypanosomes	ProteomXchange data repository	PXD031888

Bechara et al (2022) RNA	Long non-coding RNAs in Paramecium tetraurelia	NCBI BioProject	PRJNA789403

Bechara et al (2022) RNA	Paramecium tetraurelia lnc1 lncRNA gene, complete sequence	NCBI GenBank	OL962699

Bechara et al (2022) RNA	Paramecium tetraurelia lnc3 lncRNA gene, complete sequence	NCBI GenBank	OL962700

Bechara et al (2022) RNA	Paramecium tetraurelia lnc7 lncRNA gene, complete sequence	NCBI GenBank	OL962701

Bechara et al (2022) RNA	Paramecium tetraurelia lnc13 lncRNA gene, complete sequence	NCBI GenBank	OL962702

Bechara et al (2022) RNA	Paramecium tetraurelia lnc14 lncRNA gene, complete sequence	NCBI GenBank	OL962703

Bechara et al (2022) RNA	Paramecium tetraurelia lnc15 lncRNA gene, complete sequence	NCBI GenBank	OL962704

Bechara et al (2022) RNA	Paramecium tetraurelia lnc24 lncRNA gene, complete sequence	NCBI GenBank	OL962705

Bechara et al (2022) RNA	Paramecium tetraurelia lnc32 lncRNA gene, complete sequence	NCBI GenBank	OL962706

Bechara et al (2022) RNA	Paramecium tetraurelia lnc34 lncRNA gene, complete sequence	NCBI GenBank	OL962707

Bechara et al (2022) RNA	Paramecium tetraurelia lnc35 lncRNA gene, complete sequence	NCBI GenBank	OL962708

Bechara et al (2022) RNA	Paramecium tetraurelia lnc36 lncRNA gene, complete sequence	NCBI GenBank	OL962709

Bechara et al (2022) RNA	Paramecium tetraurelia lnc37 lncRNA gene, complete sequence	NCBI GenBank	OL962710

Bechara et al (2022) RNA	Paramecium tetraurelia lnc38 lncRNA gene, complete sequence	NCBI GenBank	OL962711

Bechara et al (2022) RNA	Paramecium tetraurelia lnc39 lncRNA gene, complete sequence	NCBI GenBank	OL962712

Bechara et al (2022) RNA	Paramecium tetraurelia lnc40 lncRNA gene, complete sequence	NCBI GenBank	OL962713

Domanski et al (2022) Nucleic Acids Res	40S hnRNP particles are a novel class of nuclear biomolecular condensates	ProteomXchange data repository	PXD031677

Schimanski et al (2022) PLoS Pathog	p166 links membrane and intramitochondrial modules of the trypanosomal tripartite attachment complex	ProteomXchange data repository	PXD033042

Schaefer, Nabih et al (2022) EMBO Rep.	Transcriptome of AGO1&2 double KO mouse embryonic stem cells	NCBI GenBank	GSE110942

Schaefer, Nabih et al (2022) EMBO Rep.	Transcriptomes of miR-290-295 KO mESCs treated with siPOOLs against the transcription factor Tfap4	NCBI GenBank	GSE181393

Schaefer, Nabih al (2022) EMBO Rep.	Ribosome profiling of WT E14, Dgcr8_KO, Dorsha_KO, Dicer_KO and Ago1&2_Double_KO mouse embryonic stem cells	NCBI GenBank	GSE135577

Schaefer, Nabih (2022) EMBO Rep.	Identification of functional miRNA gene interactions in mESC by computational data integration approaches.	ProteomXchange data repository	PXD014484

Wang, Solberg et al (2022) Cell Reports	Paramecium tetraurelia strain:51	NCBI GenBank	PRJNA768531

Wang, Solberg et al (2022) Cell Reports	NA	NCBI GenBank	PXD028503

Muckenfuss et al (2022) Elife	Crystal structure of human CPSF30 in complex with hFip1	Protein Data Bank	7ZYH

Muckenfuss et al (2022) Elife	Crystal structure of human CstF77 in complex with hFip1	Protein Data Bank	7ZY4

Beer et al (2022) J Exp Med	Individual and combinatorial contribution of type I, II and III interferons in limiting SARS-CoV-2 replication, disease progression and age-related mortality	NCBI GenBank	GSE190674

Beer et al (2022) J Exp Med	Data of the SARS-CoV-2 adaptation in type I and III IFN deficient mice	European Nucleotide Archive (ENA)	PRJEB55181

LaPierre et al (2022) Nat Commun	MicroRNA-7 regulates melanocortin circuits involved in mammalian energy homeostasis	European Nucleotide Archive (ENA)	PRJEB48660

Duszczyk et al (2022) Nat Commun	The solution structure of hsDND1 RRM12 bound to CUUAUUUG RNA	Protein Data Bank	7Q4L

Duszczyk et al (2022) Nat Commun	The solution structure of hsDND1 RRM12 bound to CUUAUUUG RNA	Biological Magnetic Resonance Data Bank	34675

Duszczyk et al (2022) Nat Commun	HEK293T LC-MSMS of DND1 immunoprecipitations	ProteomXchange data repository	PXD024666

Singh et al (2022) EMBO J	Whole genome sequencing on macronuclear DNA from different Knockdowns and control eperiment	European Nucleotide Archive (ENA)	PRJEB21344

Pacesa et al (2022) Cell	SpCas9 bound to AAVS1 off-target1 DNA substrate	Protein Data Bank	7QQO

Pacesa et al (2022) Cell	SpCas9 bound to AAVS1 off-target2 DNA substrate	Protein Data Bank	7QR7

Pacesa et al (2022) Cell	SpCas9 bound to AAVS1 off-target3 DNA substrate	Protein Data Bank	7QQP

Pacesa et al (2022) Cell	SpCas9 bound to AAVS1 off-target4 DNA substrate	Protein Data Bank	7QQQ

Pacesa et al (2022) Cell	SpCas9 bound to AAVS1 off-target5 DNA substrate	Protein Data Bank	7QQR

Pacesa et al (2022) Cell	SpCas9 bound to FANCF on-target DNA substrate	Protein Data Bank	7QQS

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target1 DNA substrate	Protein Data Bank	7QQT

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target2 DNA substrate	Protein Data Bank	7QQU

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target3 DNA substrate	Protein Data Bank	7QQV

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target4 DNA substrate	Protein Data Bank	7QQW

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target5 DNA substrate	Protein Data Bank	7QQX

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target6 DNA substrate	Protein Data Bank	7QR5

Pacesa et al (2022) Cell	SpCas9 bound to FANCF off-target7 DNA substrate	Protein Data Bank	7QQZ

Pacesa et al (2022) Cell	SpCas9 bound to PTPRC off-target1 DNA substrate	Protein Data Bank	7QR8

Pacesa et al (2022) Cell	SpCas9 bound to TRAC off-target1 DNA substrate	Protein Data Bank	7QR0

Pacesa et al (2022) Cell	SpCas9 bound to TRAC off-target2 DNA substrate	Protein Data Bank	7QR0

Pacesa et al (2022) Cell	SpCas9 bound to CD34 off-target9 DNA substrate	Protein Data Bank	7ZO1

Pacesa et al (2022) Cell	Sequencing data from the SITE-Seq assay to define the off-target landscapes for a set of Cas9 guide RNAs	Europea Nucelotide Archive	PRJNA862989

Hannan et al (2022) Cell Rep	RNAseq analysis of A549 cells depleted of RPS19 using siRNAs	NCBI Gene Expression Omnibus	GSE212775

Snieckute et al (2022) Cell Metab	Stalled ribosomes are signals for metabolic regulation by the ribotoxic stress response	NCBI Gene Expression Omnibus	GSE205191

Schmitz et al (2022) Cell	Cas12k-sgRNA-dsDNA-S15-TniQ-TnsC transposon recruitment complex	EMDB	EMD-15975

Schmitz et al (2022) Cell	Cas12k-sgRNA-dsDNA-TnsC non-productive complex	EMDB	EMD-15976

Schmitz et al (2022) Cell	TniQ-capped Tns-ATP-dsDNA complex	EMDB	EMD-15974

Schmitz et al (2022) Cell	Cas12k-sgRNA-dsDNA-S15-TniQ-TnsC transposon recruitment complex	PDB	8BD5

Schmitz et al (2022) Cell	Cas12k-sgRNA-dsDNA-TnsC non-productive complex	PDB	8BD6

Schmitz et al (2022) Cell	TniQ-capped Tns-ATP-dsDNA complex	PDB	8BD4

Quéviollon Huberdeau et al (2022) Cell Rep	Phosphorylation of the Argonaute ALG-1 regulates microRNA binding during C. elegans development	NCBI Gene Expression Omnibus	GSE174368

Quéviollon Huberdeau et al (2022) Cell Rep	A specific Argonaute phosphorylation regulates the binding to microRNAs during C. elegans development	NCBI Gene Expression Omnibus	GSE198352

Weber et al (2022) Oncogene	Monitoring the 5'UTR landscape reveals isoform switches to drive translational efficiencies in cancer CAGE-seq	NCBI Gene Expression Omnibus	GSE201308

Weber et al (2022) Oncogene	Monitoring the 5'UTR landscape reveals isoform switches to drive translational efficiencies in cancer	NCBI Gene Expression Omnibus	GSE179525

Vancura et al (2022) Noncoding RNA	Cancer lncRNA Census 3	Zenodo	7075104#.Y_eQcR_MK39

Esposito et al (2022) Cell Genom	Multi-hallmark long noncoding RNA maps reveal non-small cell lung cancer vulnerabilities	NCBI Gene Expression Omnibus	GSE207229

Katsioudi et al (2023) Sci Adv	A novel Smg6 mouse model reveals circadian clock regulation through the nonsense-mediated mRNA decay pathway	NCBI Gene Expression Omnibus	GSE208769

Shetty et al (2023) EMBO J	TORC1 phosphorylates and inhibits the ribosome preservation factor Stm1 to activate dormant ribosomes	ProteomXchange data repository	PXD037117

Olutu et al (2023) Andrology	Intermitochondrial cement (IMC) harbors piRNA biogenesis machinery and exonuclease domain-containing proteins EXD1 and EXD2 in mouse spermatocytes	NCBI Gene Expression Omnibus	GSE194043

Dowling et al (2023) RNA	In vivo PIWI slicing in mouse testes deviates from rules established in vitro	NCBI Gene Expression Omnibus	GSE219200

Snieckute et al (2023) Science	ROS-induced translation impairment underlies ZAKalpha-mediated metabolic decline in obesity and aging	NCBI Gene Expression Omnibus	GSE235700

Zhang et al (2023) Life Sci Alliance	Structural maintenance of chromosome (SMC) sequencing in P.tetraurelia	NCBI Bioproject	PRJNA961343

Zhang et al (2023) Life Sci Alliance	Structural maintenance of chromosomes (SMCs) proteins are required for developmental DNA elimination in Paramecium tetraurelia	ProteomXchange	PXD041826

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of apo Can2 from Thermoanaerobacter brockii	PDB	8Q3Y

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of cA4-bound Can2 from Thermoanaerobacter brockii	PDB	8Q3Z

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of cA4 activated Can2 in complex with a cleaved DNA substrate	PDB	8Q40

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of Can2 (E341A) bound to cA4 and TTTAAA ssDNA	PDB	8Q41

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of cA4-bound Can2 (E341A) in complex with oligo-A DNA	PDB	8Q42

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of cA4-bound Can2 (E341A) in complex with oligo-C DNA	PDB	8Q43

Jungfer et al (2023) Nucleic Acids Res	Crystal structure of cA4-bound Can2 (E364R) in complex with oligo-T DNA	PDB	8Q44

Moursy et al (2023) Nat Commun	NMR structure of Npl3 RRM1 bound to the AUCCAA RNA	PDB	7QDD

Moursy et al (2023) Nat Commun	NMR structure of Npl3 RRM12 bound to the AUCCAGUGGAA RNA	PDB	7QDE

Moursy et al (2023) Nat Commun	NMR structure of Npl3 RRM1 bound to the AUCCAA RNA	BMRB	34691

Moursy et al (2023) Nat Commun	NMR structure of Npl3 RRM12 bound to the AUCCAGUGGAA RNA	BMRB	34692

Moursy et al (2023) Nat Commun	The structure and target identification of the tandem RRM of yeast Npl3 bound to RNA reveal a cooperative sequence-specific recognition and an RNA chaperone role in splicing	Array Express	E-MTAB-11736

Dorn et al (2023) Nat Commun	Integrative structure determination of an 85-kilodalton PTBP1-IRES complex in solution reveals a strong compaction with pronounced conformational flexibility	ProteomXchange	PXD034894

Dorn et al (2023) Nat Commun	Integrative structure determination of PTBP1-viral IRES complex in solution	Zenodo	6809477

Schubert et al (2023) Mol Cell	Bat-Hp-CoV Nsp1 and eIF1 bound to the human 40S small ribosomal subunit	PDB	8PPK

Schubert et al (2023) Mol Cell	MERS-CoV Nsp1 bound to the human 43S pre-initiation complex	PDB	8PPL

Schubert et al (2023) Mol Cell	Bat-Hp-CoV Nsp1 and eIF1 bound to the human 40S small ribosomal subunit	EMDB	EMD-17804

Schubert et al (2023) Mol Cell	MERS-CoV Nsp1 bound to the human 43S pre-initiation complex	EMDB	EMD-17805

Mossmann et al (2023) Cell	RNA SEQ data based on arginase and agmatinase over expression in SNU449 cells respectively RBM39 depletion in SNU449 cells	NCBI Bioproject	PRJNA940402

Mossmann et al (2023) Cell	Arginine reprograms metabolism in liver cancer via RBM39	MassIVE	MSV000091516

Mossmann et al (2023) Cell	Arginine reprograms metabolism in liver cancer via RBM39	MassIVE	MSV000092046

Nasif et al (2023) NAR Cancer	Inhibition of nonsense-mediated mRNA decay reduces the tumorigenicity of human fibrosarcoma cells	NCBI Gene Expression Omnibus	GSE232333

Nasif et al (2023) NAR Cancer	Inhibition of nonsense-mediated mRNA decay reduces the tumorigenicity of human fibrosarcoma cells	NCBI Gene Expression Omnibus	GSE232185

Nasif et al (2023) NAR Cancer	Inhibition of nonsense-mediated mRNA decay reduces the tumorigenicity of human fibrosarcoma cells	ProteomXchange	PXD041853

Campagne et al (2023) Nat Commun	Identification of RBM39-dependent alternative splicing events in HeLa cells	NCBI Gene Expression Omnibus	GSE202134

Campagne et al (2023) Nat Commun	Solution structure of RBM39 RRM2 bound to 5'-AGCUUUG-3	PDB	7Q33

Campagne et al (2023) Nat Commun	Solution structure of RBM39 RRM1 bound to U1 snRNA stem loop 3	PDB	7ZAP

Campagne et al (2023) Nat Commun	Solution structure of RBM39 RRM2 bound to 5'-AGCUUUG-3	BMRB	34673

Campagne et al (2023) Nat Commun	Solution structure of RBM39 RRM1 bound to U1 snRNA stem loop 3	BMRB	34715

Gerber et al (2023) Life Sci Alliance	A Msp1-containing complex removes orphaned proteins in the mitochondrial outer membrane of T. brucei	ProteomXchange	PXD039631

Gerber et al (2023) Life Sci Alliance	An Msp1-containing complex removes orphaned proteins in the mitochondrial outer membrane of trypanosomes (RNAi knockdown data)	ProteomXchange	PXD039634

Dohnalkova et al (2023) Cell Rep	Essential roles of RNA cap-proximal ribose methylation in mammalian embryonic development and fertility	NCBI Gene Expression Omnibus	GSE235348

Pérez-Berlanga et al (2023) EMBO J	LC-MS/MS of HEK-293 inducibly expressing TDP-43 protein (WT and 3 non-functional mutants)	ProteomXchange	PXD041795

Beusch et al (2023) Mol Cell	Targeted high throughput mutagenesis of the human spliceosome reveals its in vivo operating principles	NCBI Gene Expression Omnibus	GSE218307

Beusch et al (2023) Mol Cell	Targeted high throughput mutagenesis of the human spliceosome reveals its in vivo operating principles	ProteomXchange	PXD038067

Beusch et al (2023) Mol Cell	Proximity labelling and LCMSMS analysis of spliceosome complexes using SUGP1-miniTurbo	NCBI Gene Expression Omnibus	GSE218307

Welte et al (2023) Mol Cell	Convergence of distinct RNA-silencing pathways on GW182/Tnrc6	NCBI Gene Expression Omnibus	GSE205968

Welte et al (2023) Mol Cell	Convergence of distinct RNA-silencing pathways on GW182/Tnrc6	ProteomXchange	PXD034537

Welte et al (2023) Mol Cell	Convergence of distinct RNA-silencing pathways on GW182/Tnrc6	ProteomXchange	PXD041242

Gamerdinger et al (2023) Science	Ternary complex of translating ribosome, NAC and METAP1	PDB	8P2K

Gamerdinger et al (2023) Science	Ternary complex of translating ribosome, NAC and METAP1	EMDB	EMD-17367

Vatandaslar et al (2023) Nat Commun	In vivo PAR-CLIP (viP-CLIP) of liver TIAL1 unveils targets regulating cholesterol synthesis and secretion	NCBI Bioproject	PRJNA869588

Esposito et al (2023) Nat Commun	Tumour mutations in long noncoding RNAs enhance cell fitness	NCBI Bioproject	PRJNA966897

Jaskolowski et al (2023) Nat Struct Mol Biol	Structure of the TRAP complex with the Sec translocon and a translating ribosome	PDB	8BTK

Jaskolowski et al (2023) Nat Struct Mol Biol	Structure of the TRAP complex with the Sec translocon and a translating ribosome	EMDB	EMD-16232

Saurer et al (2023) Science	55S mammalian mitochondrial ribosome with mtRF1 and P-site tRNA	PDB	8OIN

Saurer et al (2023) Science	28S mammalian mitochondrial small ribosomal subunit with mtRF1 and P-site tRNA	PDB	8OIP

Saurer et al (2023) Science	39S mammalian mitochondrial large ribosomal subunit with mtRF1 and P-site tRNA	PDB	8OIQ

Saurer et al (2023) Science	55S human mitochondrial ribosome with mtRF1 and P-site tRNA	PDB	8OIR

Saurer et al (2023) Science	28S human mitochondrial small ribosomal subunit with mtRF1 and P-site tRNA	PDB	8OIS

Saurer et al (2023) Science	39S human mitochondrial large ribosomal subunit with mtRF1 and P-site tRNA	PDB	8OIT

Saurer et al (2023) Science	55S mammalian mitochondrial ribosome with mtRF1 and P-site tRNA	EMDB	EMD-16894

Saurer et al (2023) Science	28S mammalian mitochondrial small ribosomal subunit with mtRF1 and P-site tRNA	EMDB	EMD-16895

Saurer et al (2023) Science	39S mammalian mitochondrial large ribosomal subunit with mtRF1 and P-site tRNA	EMDB	EMD-16896

Saurer et al (2023) Science	55S human mitochondrial ribosome with mtRF1 and P-site tRNA	EMDB	EMD-16897

Saurer et al (2023) Science	28S human mitochondrial small ribosomal subunit with mtRF1 and P-site tRNA	EMDB	EMD-16898

Saurer et al (2023) Science	39S human mitochondrial large ribosomal subunit with mtRF1 and P-site tRNA	EMDB	EMD-16898

Saurer et al (2023) Science	Molecular basis of non-canonical stop codon recognition by mtRF1 in human mitochondria	NCBI Gene Expression Omnibus	GSE216779

Saurer et al (2023) Science	mtRF1 recognises non-canonical stop codons in human mitochondria	NCBI Gene Expression Omnibus	GSE216979

Flemr et al (2023) RNA	Novel RNA-binding Proteins Bind U1 snRNA to Promote Splicing of Weak 5' Splice Sites	NCBI Gene Expression Omnibus	GSE179744

Flemr et al (2023) RNA	Novel RNA-binding Proteins Bind U1 snRNA to Promote Splicing of Weak 5' Splice Sites	ProteomXchange	PXD029392

Padroni et al (2023) Nucleic Acids Res	A hybrid structural determination approach to investigate protein-RNA complexes of the nucleocapsid protein of SARS-CoV-2	ProteomXchange	PXD037438

Padroni et al (2023) Nucleic Acids Res	A hybrid structure determination approach to investigate the druggability of the nucleocapsid protein of SARS-CoV-2	Dryad	g4f4qrftb

Solberg et al (2023) Cell Rep	Developmental mRNA clearance by PIWI-bound endo-siRNAs in Paramecium	NCBI Bioproject	PRJNA881722

Solberg et al (2023) Cell Rep	Developmental mRNA clearance by PIWI-bound endo-siRNAs in Paramecium	ProteomXchange	PXD038984
Dhaka et al (2024) NAR	TransCistor_v2	Zenodo	561999

Hochstoeger et al (2023 ) Sci Adv	Distinct roles of LARP1 and 4EBP1/2 in regulating translation and stability of 5?TOP mRNAs	Zenodo	10057405

Hochstoeger et al (2024) Sci Adv	Distinct roles of LARP1 and 4EBP1/2 in regulating translation and stability of 5?TOP mRNAs	NCBI Gene	GSE233187

Nahar et al (2024) Nucleic Acids Res	Dynamic regulation of miRNA accumulation during C. elegans larval development	NCBI Gene Expression Omnibus	GSE245904

de Vries et al (2024) Sci Adv	Structural insights into protein-RNA interactions within biomolecular condensates using UV cross-linking and mass spectrometry	ProteomXchange	PXD046267

Emmanouilidis et al (2024) Nat Chem Biol	NMR data for : A solid beta-sheet structure is formed at the surface of FUS droplets during aging	Zenodo	10708806

Malard et al (2024) NAR	Solution structure of Risdiplam bound to the RNA duplex formed upon 5'-splice site recognition	BMRB	34878

Malard et al (2024) NAR	Solution structure of SMN-CX bound to the RNA helix formed upon SMN2 exon7 5'-splice site recognition	BMRB	34885

Malard et al (2024) NAR	Solution structure of the RNA helix formed by the 5'-end of U1 snRNA and an A-1 bulged 5'-splice site in complex with SMN-CY	BMRB	34784

Malard et al (2024) NAR	Solution structure of branaplam bound to the RNA duplex formed upon 5'-splice site recognition	BMRB	34879

Malard et al (2024) NAR	Solution structure of Risdiplam bound to the RNA duplex formed upon 5'-splice site recognition	PDB	8R62

Malard et al (2024) NAR	Solution structure of SMN-CX bound to the RNA helix formed upon SMN2 exon7 5'-splice site recognition	PDB	8R8P

Malard et al (2024) NAR	Solution structure of the RNA helix formed by the 5'-end of U1 snRNA and an A-1 bulged 5'-splice site in complex with SMN-CY	PDB	8CF2

Malard et al (2024) NAR	Solution structure of branaplam bound to the RNA duplex formed upon 5'-splice site recognition	PDB	8R63

Nadimpalli et al (2024) GenomeBiol	Diurnal control of iron responsive element containing mRNAs through iron regulatory proteins IRP1 and IRP2 is mediated by feeding rhythms	NCBI Gene Expression Omnibus	GSE243134

Sabath et al (2024) Mol Cell	INTS13-INTS14 complex with ZNF609	PDB	8PK5

Sabath et al (2024) Mol Cell	INTS13 complex with ZNF655	PDB	8PK6

Sabath et al (2024) Mol Cell	TAP-MS of human Integrator subunits INTS10 and INTS13	ProteomXchange	PXD041374

Sabath et al (2024) Mol Cell	Basis of gene-specific transcription regulation by the Inegrator Complex (ChIP-Seq I)	NCBI Gene Expression Omnibus	GSE233956

Sabath et al (2024) Mol Cell	Basis of gene-specific transcription regulation by the Inegrator Complex (RNA-Seq)	NCBI Gene Expression Omnibus	GSE233957

Sabath et al (2024) Mol Cell	Basis of gene-specific transcription regulation by the Inegrator Complex	NCBI Gene Expression Omnibus	GSE233958

Renz et al (2024) Nature	In vivo single-cell CRISPR uncovers distinct TNF-? programs in tumor evolution	NCBI Gene Expression Omnibus	GSE235325

Sabath et al (2024) Mol Cell	INTS9-INTS11-BRAT1-WDR73 complex	EMDB	EMD-18833

Sabath et al (2024) Mol Cell	INTS9-INTS11-BRAT1 complex	EMDB	EMD-18834

Sabath et al (2024) Mol Cell	Integrator cleavage module assembly intermediate	EMDB	EMD-18839

Sabath et al (2024) Mol Cell	INTS9-INTS11-BRAT1-WDR73 complex	PDB	8R22

Sabath et al (2024) Mol Cell	INTS9-INTS11-BRAT1 complex	PDB	8R23

Sabath et al (2024) Mol Cell	Integrator cleavage module assembly intermediate	PDB	8R2D

Sabath et al (2024) Mol Cell	TAP-MS of human BRAT1 and WDR73	ProteomXchange	PXD044324

Banerjee et al (2023) NAR	Functional analysis of ribosomal protein RPL39L	NCBI Bioproject	PRJNA951511

Banerjee et al (2024) NAR	Yeast 60S ribosomal subunit, RPL39 deletion	EMDB	EMD-17549

Banerjee et al (2024) NAR	Mouse RPL39 integrated into the yeast 60S ribosomal subunit	EMDB	EMD-17550

Banerjee et al (2024) NAR	Yeast 60S ribosomal subunit	EMDB	EMD-17552

Banerjee et al (2024) NAR	Mouse RPL39L integrated into the yeast 60S ribosomal subunit	EMDB	EMD-17653

Banerjee et al (2024) NAR	Yeast 60S ribosomal subunit, RPL39 deletion	PDB	8P8M

Banerjee et al (2024) NAR	Mouse RPL39 integrated into the yeast 60S ribosomal subunit	PDB	8P8N

Banerjee et al (2024) NAR	Yeast 60S ribosomal subunit	PDB	8P8U

Banerjee et al (2024) NAR	Mouse RPL39L integrated into the yeast 60S ribosomal subunit	PDB	8PFR

Battaglioni et al (2024) PNAS	cryo-EM structure of LST2 TOS peptide bound to human mTOR complex 1, focused on RAPTOR	EMDB	EMD-50181

Battaglioni et al (2024) PNAS	cryo-EM structure of human LST2 bound to human mTOR complex 1, focused on RAPTOR	EMDB	EMD-50182

Battaglioni et al (2024) PNAS	cryo-EM structure of LST2 TOS peptide bound to human mTOR complex 1	EMDB	EMD-50183

Battaglioni et al (2024) PNAS	cryo-EM structure of human LST2 bound to human mTOR complex 1	EMDB	EMD-50184

Battaglioni et al (2024) PNAS	cryo-EM structure of human LST2 bound to human mTOR complex 1	EMDB	EMD-50253

Battaglioni et al (2024) PNAS	Cryo-EM structure of human LST2 bound to human mTOR complex 1, focused on one protomer	EMDB	EMD-50254

Battaglioni et al (2024) PNAS	Cryo-EM structure of human LST2 bound to human mTOR complex 1, focused on one protomer	EMDB	EMD-50255

Battaglioni et al (2024) PNAS	cryo-EM structure of LST2 TOS peptide bound to human mTOR complex 1, focused on RAPTOR	PDB	9F42

Battaglioni et al (2024) PNAS	cryo-EM structure of human LST2 bound to human mTOR complex 1, focused on RAPTOR	PDB	9F43

Battaglioni et al (2024) PNAS	cryo-EM structure of LST2 TOS peptide bound to human mTOR complex 1	PDB	9F44

Battaglioni et al (2024) PNAS	cryo-EM structure of human LST2 bound to human mTOR complex 1	PDB	9F45

Lentzsch et al (2024) Nature	Mammalian ternary complex of a translating 80S ribosome, NAC and NatA/E	EMDB	EMD-50124

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E	EMDB	EMD-50125

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E-HYPK	EMDB	EMD-50126

Lentzsch et al (2024) Nature	Mammalian ternary complex of a translating 80S ribosome, NAC and NatA/E - local refinement	EMDB	EMD-50127

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E - local refinement	EMDB	EMD-50128

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E-HYPK - local refinement	EMDB	EMD-50129

Lentzsch et al (2024) Nature	Mammalian ternary complex of an 80S ribosome, NAC and NatA/E	EMDB	EMD-50130

Lentzsch et al (2024) Nature	Mammalian ternary complex of a translating 80S ribosome, NAC and NatA/E	PDB	9F1B

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E	PDB	9F1C

Lentzsch et al (2024) Nature	Mammalian quaternary complex of a translating 80S ribosome, NAC, MetAP1 and NatA/E-HYPK	PDB	9F1D

von Kaenel et al (2024) PLoS Biology	Trypanosomal Pam18/Pam16 and maxicircle replication – TbPam16 SILAC RNAi	ProteomXchange	PXD046840

von Kaenel et al (2024) PLoS Biology	Trypanosomal Pam18/Pam16 and maxicircle replication – TbPam18 SILAC RNAiTrypanosomal Pam18/Pam16 and maxicircle replication – TbPam18 SILAC RNAi	ProteomXchange	PXD046845

von Kaenel et al (2024) PLoS Biology	Trypanosomal Pam18/Pam16 and maxicircle replication – TbPam16 CoIPs	ProteomXchange	PXD046849

von Kaenel et al (2024) PLoS Biology	Trypanosomal Pam18/Pam16 and maxicircle replication – MaRF11 SILAC RNAi	ProteomXchange	PXD053251

Alvarez et al (2024) Nat Commun	E3 ubiquitin/ISG15 ligase TRIM25, apo form (TRIM25 apo)	Small Angle Scattering Biological Data Bank	SASDK78

Alvarez et al (2024) Nat Commun	E3 ubiquitin/ISG15 ligase TRIM25 bound to pre-let-7-a-1@1 RNA (TRIM25/pre-let-7)	Small Angle Scattering Biological Data Bank	SASDK88

Alvarez et al (2024) Nat Commun	E3 ubiquitin/ISG15 ligase TRIM25 bound to pre-let-7-a-1@1 RNA (TRIM25/pre-let-7): SEC-SAXS	Small Angle Scattering Biological Data Bank	SASDK98

Alvarez et al (2024) Nat Commun	E3 ubiquitin/ISG15 ligase TRIM25 bound to lnczc3h7a_304-326 RNA (TRIM25/lnczc3h7a)	Small Angle Scattering Biological Data Bank	SASDKA8

Alvarez et al (2024) Nat Commun	The molecular dissection of TRIM25‘s RNA-binding mechanism provides key insights into its antiviral activity	NCBI Gene Expression Omnibus	GSE276465

Gudipati et al (2024) Mol Syst Biol	Cryo-EM structure of Caenorhabditis elegans DPF-3 (apo)	EMDB	EMD-17582

Gudipati et al (2024) Mol Syst Biol	Cryo-EM structure of Caenorhabditis elegans DPF-3 (apo)	PDB	8PBA

Gudipati et al (2024) Mol Syst Biol	Deep quantification of substrate turnover defines protease subsite cooperativity. Working title: Massively parallel mapping of dipeptidyl peptidase cleavage sites reveals substrate motifs	ProteomXchange	PXD042089

Gudipati et al (2024) Mol Syst Biol	Deep quantification of substrate turnover defines protease subsite cooperativity	EBI BioStudies	S-SCDT-10_1038-S44320-024-00071-4

Solberg et al (2024) EMBO Reports	Heterochromatin-dependent transcription links the PRC2 complex to small RNA-mediated DNA elimination	NCBI Bioproject	PRJNA899513

Solberg et al (2024) EMBO Reports	Heterochromatin-dependent transcription links the PRC2 complex to small RNA-mediated DNA elimination	EBI BioStudies	S-SCDT-10_1038-S44319-024-00332-1

Loeff et al (2025) Cell	Escherichia coli SduA complex	EMDB	EMD-17844

Loeff et al (2025) Cell	Escherichia coli SduA complex bound to DNA	EMDB	EMD-17845

Loeff et al (2025) Cell	Escherichia coli SduA complex	PDB	8PS4

Loeff et al (2025) Cell	Escherichia coli SduA complex bound to DNA	PDB	8PS5

Loeff et al (2025) Cell	Crystal structure of the N-terminal domain of SduA	PDB	8PS6

Meurs et al (2025) EMBO J	Ribosome profiling analysis of Denr and Eif2d depleted cells reveals the absence of re-initiation function of EIF2D	NCBI Gene Expression Omnibus	GSE263991

Meurs et al (2025) EMBO J	Identification of DENR-interacting proteins in NIH3t3 cells using a co-IP MS-MS approach on endogenously tagged DENR.	ProteomXchange	PXD051482

Meurs et al (2025) EMBO J	MCTS2 and distinct eIF2D roles in uORF-dependent translation regulation revealed by in vitro re-initiation assays	EBI BioStudies	S-SCDT-10_1038-S44318-024-00347-3

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA (3.2 complex)	EMDB	EMD-51145

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA (4.3) complex	EMDB	EMD-51146

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR (3.2) complex	EMDB	EMD-51147

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR (4.3) complex	EMDB	EMD-51148

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA complex bound to AMPNPP	EMDB	EMD-51149

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR complex bound to AMPNPP	EMDB	EMD-51150

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex (4.3) bound to AMPNPP	EMDB	EMD-51151

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex bound to pNppA3 and AMPNPP	EMDB	EMD-51152

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR2 complex bound to pNppA3 and AMPNPP	EMDB	EMD-51153

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA complex bound to pNppA3 and AMPNPP	EMDB	EMD-51154

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR2 complex (4.3) bound to AMPNPP	EMDB	EMD-51155

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA (3.2 complex)	PDB	9G9A

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA (4.3) complex	PDB	9G9B

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR (3.2) complex	PDB	9G9C

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR (4.3) complex	PDB	9G9D

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA complex bound to AMPNPP	PDB	9G9E

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR complex bound to AMPNPP	PDB	9G9F

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex (4.3) bound to AMPNPP	PDB	9G9G

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR1 complex bound to pNppA3 and AMPNPP	PDB	9G9H

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR2 complex bound to pNppA3 and AMPNPP	PDB	9G9I

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA complex bound to pNppA3 and AMPNPP	PDB	9G9J

Jungfer et al (2025) NAR	CryoEM structure of Enterococcus italicus Csm-crRNA-CTR2 complex (4.3) bound to AMPNPP	PDB	9G9K

Akers et al (2025) Mol Cell	eIF6-bound pre-60S large ribosomal subunit incorporating mutant uL16	PDB	9GMO

Akers et al (2025) Mol Cell	eIF6-bound pre-60S large ribosomal subunit incorporating mutant uL16	EMDB	EMD-51452

Akers et al (2025) Mol Cell	ZNF574 is a Quality Control Factor for Defective Ribosome Biogenesis Intermediates [CRISPRi_FLOW]	NCBI Gene Expression Omnibus	GSE275990

Akers et al (2025) Mol Cell	ZNF574 is a Quality Control Factor for Defective Ribosome Biogenesis Intermediates [CRISPRi_growth]	NCBI Gene Expression Omnibus	GSE275991

Akers et al (2025) Mol Cell	ZNF574 is a Quality Control Factor for Defective Ribosome Biogenesis Intermediates [RNA-Seq]	NCBI Gene Expression Omnibus	GSE275992

Akers et al (2025) Mol Cell	ZNF574 is a Quality Control Factor Targeting Defective Ribosome Biogenesis Intermediates	ProteomXchange	PXD051645

Akers et al (2025) Mol Cell	Mutant RPL10 prevents large ribosomal subunit maturation	ProteomXchange	PXD051646

Akers et al (2025) Mol Cell	ZNF574 is a Quality Control Factor for Defective Ribosome Biogenesis Intermediates Akers et al	Mendeley	9mxxrftwgv

Amodeo et al (2025) Nucleic Acids Res	A trypanosome-specific complex mediates late-stage processing of cytosolic LSU rRNA	ProteomXchange	PXD066890

Benzenberg et al (2025) Anal Chem	Beyond Liquid Chromatography: Cyclic Ion Mobility Spectrometry for Phosphorothioate Diastereomer Separation in siRNA	ETHZ Research Collection	ethz-b-000727486

Cherkaoui et al (2025) Nature	Combined Dietary and Pharmacological Depletion of Polyamines Targets Oncogenic Translation in Neuroblastoma	NCBI Gene Expression Omnibus	GSE244378

Cherkaoui et al (2025) Nature	Reprogramming neuroblastoma by diet-enhanced polyamine depletion	ProteomXchange	PXD047396

Dominguez Mantes et al (2025) Nat Methods	Spotiflow - manuscript data	Zenodo	14914082

Fink et al (2025) J Am Chem Soc	UREBUS	CCDC	2474473

Fink et al (2025) J Am Chem Soc	URECAZ	CCDC	2474474

Gafko et al (2025) BMC Biol	Establishment of an imaging-based screening pipeline for the identification of human ribosome biogenesis inhibitors	BioImage Archive	S-BIAD2153

Gallo et al (2025) NAR Cancer	Effect of deplation of vtRNA1-1 and vtRNA1-2 on gene expression in Huh7 hepatocellular carcinoma cells	NCBI Gene Expression Omnibus	GSE276534

Gamerdinger et al (2025) Mol Cell	Ternary complex of translating ribosome, NAC and NMT1	PDB	9QQA

Gamerdinger et al (2025) Mol Cell	Quaternary complex of a translating ribosome, NAC, NMT1, and NatA	PDB	9QQB

Gamerdinger et al (2025) Mol Cell	Ternary complex of translating ribosome, NAC and NMT1	EMDB	EMD-53295

Gamerdinger et al (2025) Mol Cell	Quaternary complex of a translating ribosome, NAC, NMT1, and NatA	EMDB	EMD-53296

Harvey et al (2025) Nat Commun	Dipeptidyl peptidase DPF-3 is a gatekeeper of microRNA Argonaute compensation in animals	NCBI Gene Expression Omnibus	GSE276186

Harvey et al (2025) Nat Commun	Argonaute Alg-1 IP Caenorhabditis elegans	ProteomXchange	PXD060454

Harvey et al (2025) Nat Commun	Dipeptidyl peptidase DPF-3 is a gatekeeper of microRNA Argonaute compensation in animals	ProteomXchange	PXD055867

Hofer et al (2025) Sci Rep	Analysing the effect of full-length and C-terminally truncated progranulin on proliferation, colony formation, and migration in HepG2 and U87 cells (raw data)	BORIS University of Bern	214569

In et al (2025) EMBO J	TERRA R-loops trigger a switch in telomere maintenance towards break-induced replication and PRIMPOL-dependent repair	BIO Studies	https://www.ebi.ac.uk/biostudies/sourcedata/studies/S-SCDT-10_1038-S44318-025-00502-4

Jetishi et al (2025) PLoS Pathog	Tubular organization of the TAC and functional role of TAC53 – p197 RNAi data	ProteomXchange	PXD063227

Jetishi et al (2025) PLoS Pathog	Tubular organization of the TAC and functional role of TAC53 – TAC42 RNAi data	ProteomXchange	PXD063233

Jetishi et al (2025) PLoS Pathog	Tubular organization of the TAC and functional role of TAC53 – TAC42 RNAi data	ProteomXchange	PXD061646

Jetishi et al (2025) PLoS Pathog	Beyond a linear structure: The Tubular of the Tripartite Attachment Complex and the Functional Role of TAC53	ProteomXchange	PXD062506

Kelly et al (2025) Nat Commun	Circular RNA circRERE2 knockdown in rat primary cortical neurons	NCBI Gene Expression Omnibus	GSE261610

Loeff et al (2025) Nat Struct Mol Biol	Cryo-EM structure of human tRNA ligase RTCB in complex with human PYROXD1.	PDB	8ORJ

Loeff et al (2025) Nat Struct Mol Biol	Cryo-EM structure of human tRNA ligase RTCB in complex with human PYROXD1.	EMDB	EMD-17127

Novakovic et al (2025) Nat Commun	LLPS REDIFINE allows the biophysical characterization of multicomponent condensates without tags or labels	Zenodo	15228787

Oborská-Oplová et al (2025) Nat Cell Biol	Comparative proteomics uS5FTP vs uS5dMAS FTP	ProteomXchange	PXD035295

Peskett et al (2025) Mol Cell	A network of P-body and Whi3 condensates adjusts cell fate decisions to cellular context	ETHZ Research Collection	ethz-b-000739362

Sarnowski et al (2025) Nucleic Acids Res	Sensitive detection and structural characterisation of UV-induced cross-links in protein-ribonucleic acid complexes using stable isotope labelling and mass spectrometry	ProteomXchange	PXD029930

von Kaenel et al (2025) FEBS J	Role of TbTim20 in mitochondrial protein import in trypanosomes – TbTim20 CoIPs	ProteomXchange	PXD061390

von Kaenel et al (2025) FEBS J	Role of TbTim20 in mitochondrial protein import in trypanosomes – TbTim15 CoIPs	ProteomXchange	PXD061391

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Recent Publications

Newton's cradle-like allosteric mechanism explains regulatory RsmE RNA binding
Single-mRNA imaging and modeling reveal coupled translation initiation and elongation rates
Subtle-seq reveals frequent ageing-associated chromosome fragmentation on nucleosome core DNA
ATP synthase is a promising target for identifying activated and non-activated adipose tissues
Kozak sequences regulate gene expression in Trypanosoma brucei

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Recent Preprints

Phosphorylation tunes electrostatically driven protein-RNA interactions
RNF25 is activated as a response to amino acid starvation-induced ribosome collisions in competition with GCN2
Loss of host factor-mediated m6Am methylation of the viral RNA cap impairs SARS CoV-2 replication
Stress-induced vtRNA1-1 modulates redox homeostasis and ferroptosis susceptibility in hepatocellular carcinoma cells
Medulloblastoma-Associated KBTBD4 Mutations Disrupt PP2A-A Orphan Quality Control

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RNA Explained: Hiding in Plain Sight – RNA Modifications Enable Effective mRNA Vaccines

RNA Explained: Tiny RNAs, Big Control - microRNAs and Gene Expression

RNA Explained: Letting Cells Live Forever – Telomerase and the Maintenance of Chromosome Ends