Ribosome-associated proteins

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Unknown (1024)
Transcriptomics (814)
Proteomics (387)
Genomics (342)
Other (63)
Multiomics (6)
Metabolomics (4)
Methylation profiling (2)

Organisms

Homo sapiens (296)
Mus musculus (198)
Arabidopsis thaliana (136)
Saccharomyces cerevisiae (108)
Drosophila melanogaster (24)
Caenorhabditis elegans (20)
Escherichia coli (20)
Rattus norvegicus (12)
Schizosaccharomyces pombe (9)
Oncorhynchus mykiss (9)
Escherichia coli K-12 (7)
Danio rerio (7)
Medicago truncatula (6)
Fundulus heteroclitus (5)
Staphylococcus aureus (5)
Zea mays (5)
Gallus gallus (4)
Escherichia coli str. K-12 substr. MG1655 (4)
Pseudomonas aeruginosa (4)
Bos taurus (3)
Callithrix jacchus (2)
Schizosaccharomyces pombe 972h- (2)
Corynebacterium glutamicum (2)
Brassica napus (2)
Streptomyces coelicolor A3(2) (2)
Lepidium sativum (2)
Streptomyces coelicolor (2)
Porphyromonas gingivalis (2)
Populus tremula x Populus alba (2)
Mycobacterium tuberculosis H37Rv (2)

Organisms

Homo sapiens (91)
Mus musculus (52)
Saccharomyces cerevisiae (28)
Arabidopsis thaliana (11)
Caenorhabditis elegans (8)
Rattus norvegicus (4)
Drosophila melanogaster (3)
Bacillus subtilis (3)
Escherichia coli (3)
Danio rerio (3)
Neurospora crassa (2)
Haloferax volcanii (2)
Vibrio cholerae (2)
Saccharomyces cerevisiae BY4741 (2)
Bacillus subtilis subsp. subtilis str. 168 (2)
Zea mays (2)
Plasmodium falciparum (2)
Escherichia coli O157:H7 str. Sakai (1)
Mycoplasmoides gallisepticum S6 (1)
Vibrio cholerae C6706 (1)
Heliothis virescens (1)
Streptococcus pneumoniae D39 (1)
Halobacterium salinarum (1)
Trichobilharzia szidati (1)
Burkholderia thailandensis E264 (1)
Hipposideros armiger (1)
Trypanosoma cruzi (1)
Saccharomyces cerevisiae BY4743 (1)
Nothobranchius furzeri (1)
Oncorhynchus mykiss (1)

Repository

biostudies-arrayexpress (727)
ENA (275)
pride (244)
geo (217)
MassIVE (60)
jPOST (36)
iProX (33)
PanoramaPublic (6)
GPMDB (4)
MetaboLights (4)
PeptideAtlas (3)
EGA (2)
PAXDB (2)

Tissue

Cell culture (69)
Epithelial cell (13)
Leaf (9)
Permanent cell line cell (8)
Plant cell (8)
Blood (6)
Brain (6)
Embryonic stem cell (6)
Seedling (6)
B cell (5)
Cell suspension culture (5)
Heart (5)
Fibroblast (4)
T cell (4)
Others (3)
HUVEC cell (3)
Liver (3)
Primary cell (3)
Stem cell (3)
Bone marrow (2)
Embryo (2)
Endothelium (2)
HEK-293 cell (2)
Kidney (2)
Leukocyte (2)
Macrophage (2)
Primary neuron (2)
Root (2)
Rosette (2)
Spleen (2)

Disease

Disease free (11)
Not Available (4)
Acute leukemia (2)
Amyotrophic lateral sclerosis (2)
Breast cancer (2)
Severe acute respiratory syndrome (2)
HIV encephalitis (1)
Rett syndrome (1)
Spinal muscular atrophy (1)
Chronic granulomatous disease (1)
IRAK-4 Q293X mutation (1)
S enteritidis (1)
Normal (1)
Brain cancer (1)
Cervix carcinoma (1)
Chagas disease (1)
Childhood medulloblastoma (1)
Chronic lymphocytic leukemia (1)
Chronic myeloid leukemia (1)
Cockayne syndrome (1)
Combined oxidative phosphorylation deficiency (1)
FTDALS1 (1)
Facioscapulohumeral muscular dystrophy (1)
Fragile X syndrome (1)
Glycogen storage disease (1)
Heart septal defect (1)
Medulloblastoma non-WNT/non-SHH group 3 (1)
Melanoma (1)
Osteoarthritis (1)
Parkinson's disease 1 (1)

Technology Type

Mass Spectrometry (244)
Shotgun proteomics (112)
Bottom-up proteomics (67)
Affinity purification coupled with mass spectrometry proteomics (41)
Data-dependent acquisition (29)
Data-independent acquisition (21)
Gel-based experiment (19)
Chemical cross-linking coupled with mass spectrometry proteomics (9)
HDMSE (7)
Top-down proteomics (7)
Mass spectrometry (2)
NMR spectroscopy (1)
Mass spectrometry assay (1)
DiaPASEF (1)
Metaproteomics (1)
Proteogenomics (1)
SRM/MRM (1)
SWATH MS (1)

Instrument Platform

Illumina NovaSeq 6000 (21)
Illumina HiSeq 2000 (21)
NextSeq 500 (16)
Illumina HiSeq 2500 (12)
Illumina HiSeq 4000 (8)
Illumina MiSeq (5)
NextSeq 550 (5)
NextSeq 2000 (4)
Scanning hardware (3)
Illumina NovaSeq X (3)
Element AVITI (2)
AB SOLiD 4 System (2)
Illumina Genome Analyzer IIx (2)
Illumina Genome Analyzer II (2)
Axon GenePix 4000B scanning hardware (2)
Zephyr G3 NGS workstation (1)
MiRNeasy Micro kit (1)
Radial JawTM (1)
Novogene NGS DNA Library Prep Set (Cat No.PT004) (1)
TruSeq Nano DNA Low Throughput library preparation Kit (Illumina, San Diego, USA, REF#20015964) (1)
PureGene DNA extraction Kit (Qiagen) (1)
PEG8000, NaCl, DNase, Benzonase, EDTA, SDS (1)
10X Genomics Chromium (1)
Illumina Genome Analyzer IIx;Illumina HiSeq 2000 (1)
VersArray ChipReader [Bio-Rad Laboratories] (1)
Infors HT Multitron shaker (1)
Genetix aQuire (1)
Affymetrix Genechip scanner 3000 (1)
Affymetrix Genechip hybridisation oven 650 (1)
Anaerobic workstation with airlock (1)

Publication Date

2025 (108)
2010 (94)
2026 (93)
2015 (89)
2024 (87)
2014 (84)
2004 (77)
2023 (74)
2013 (73)
2012 (66)
2020 (65)
2022 (61)
2011 (57)
2016 (49)
2021 (48)
2019 (38)
2018 (36)
2017 (35)
2008 (31)
2009 (28)
2007 (17)
2005 (7)
2006 (6)
2002 (1)

UNIPROT ID/AC

1433A_TOBAC (1)
1433B_TOBAC (1)
1433C_TOBAC (1)
1433D_TOBAC (1)
1433E_TOBAC (1)
1433F_TOBAC (1)
1433T_RABIT (1)
1433_TOBAC (1)
2A5B_RABIT (1)
2A5D_RABIT (1)
2A5E_RABIT (1)
2A5G_RABIT (1)
2ABA_RABIT (1)
2ABB_RABIT (1)
3HIDH_RABIT (1)
4CL1_TOBAC (1)
4CL2_TOBAC (1)
4F2_RABIT (1)
9986.ENSOCUP00000000042 (1)
9986.ENSOCUP00000000055 (1)
9986.ENSOCUP00000000070 (1)
9986.ENSOCUP00000000109 (1)
9986.ENSOCUP00000000131 (1)
9986.ENSOCUP00000000206 (1)
9986.ENSOCUP00000000207 (1)
9986.ENSOCUP00000000305 (1)
9986.ENSOCUP00000000435 (1)
9986.ENSOCUP00000000441 (1)
9986.ENSOCUP00000000514 (1)
9986.ENSOCUP00000000533 (1)

ENSEMBL ID

ENSG00000147251 (3)
ENSG00000170477 (3)
ENSG00000247315 (3)

CHEBI ID

CHEBI:48430 (2)
CHEBI:32816 (2)
CHEBI:17268 (2)
CHEBI:16027 (2)
CHEBI:16919 (2)
CHEBI:30769 (2)
CHEBI:11805 (1)
CHEBI:18095 (1)
CHEBI:28260 (1)
CHEBI:19543 (1)
CHEBI:16001 (1)
CHEBI:17369 (1)
CHEBI:47904 (1)
CHEBI:17225 (1)
CHEBI:35425 (1)
CHEBI:30907 (1)
CHEBI:125405 (1)
CHEBI:28862 (1)
CHEBI:17585 (1)
CHEBI:15558 (1)
CHEBI:27082 (1)
CHEBI:62168 (1)
CHEBI:16142 (1)
CHEBI:29042 (1)
CHEBI:17399 (1)
CHEBI:37240 (1)
CHEBI:89825 (1)
CHEBI:17284 (1)
CHEBI:17588 (1)
CHEBI:1670 (1)

Metabolite Name

Cadaverine (2)
Carnosine (2)
ADP (2)
Taurine (2)
Myo-Inositol (2)
NADH (2)
Creatinine (2)
Creatine (2)
O-b-D-glucopyranosyl-(1->3)-O-2-(acetylamino)-2-deoxy-b-D-glucopyranosyl-(1->3)-O-[6-deoxy-a-L-galactopyranosyl-(1->4)]-O-b-D-galactopyranosyl-(1->4)-O-[6-deoxy-a-L-galactopyranosyl-(1->3)]-D-Glucose (1)
Myristoleoyl-CoA (1)
5Z-tetradecenoyl-CoA (1)
(2E)-Tetradecenoyl-CoA (1)
Congmuyenoside A (1)
Hoduloside II (1)
Centellasaponin A (1)
6-[3-(4-{8-[2-(3,4-dihydroxyphenyl)-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-4-yl]-3,5,7-trihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-6-yl}-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl)phenoxy]-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-(3-{8-[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-6-[2-(3,4-dihydroxyphenyl)-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-4-yl]-3,5,7-trihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl}phenoxy)-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-(3-{6-[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-8-[2-(3,4-dihydroxyphenyl)-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-4-yl]-3,5,7-trihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl}phenoxy)-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-(5-{6,8-bis[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-3,5,7-trihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl}-2-hydroxyphenoxy)-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-[3-(4-{6-[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-2-(3,4-dihydroxyphenyl)-3,5,7-trihydroxy-3,4-dihydro-2H-1-benzopyran-8-yl}-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl)phenoxy]-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-({6,8-bis[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-2-(3,4-dihydroxyphenyl)-3,5-dihydroxy-3,4-dihydro-2H-1-benzopyran-7-yl}oxy)-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-[3-(4-{8-[3,7-dihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-4-yl]-2-(3,4-dihydroxyphenyl)-3,5,7-trihydroxy-3,4-dihydro-2H-1-benzopyran-6-yl}-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl)phenoxy]-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
6-[3-(4-{6-[2-(3,4-dihydroxyphenyl)-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-4-yl]-3,5,7-trihydroxy-2-(3-hydroxyphenyl)-3,4-dihydro-2H-1-benzopyran-8-yl}-3,7-dihydroxy-3,4-dihydro-2H-1-benzopyran-2-yl)phenoxy]-3,4,5-trihydroxyoxane-2-carboxylic acid (1)
PIP2(16:1(9Z)/18:1(9Z)) (1)
PIP2(16:0/18:2(9Z,12Z)) (1)
PIP2(16:1(9Z)/18:1(11Z)) (1)
Calendulaglycoside B (1)
PIP2(18:0/16:2(9Z,12Z)) (1)
PIP2(18:1(9Z)/16:1(9Z)) (1)
28-Glucuronyloleanolic acid 3-[galactosyl-(1->3)-glucoside] (1)

First Public Date

2024 (41)
2025 (39)
2026 (33)
2020 (29)
2019 (24)
2023 (21)
2022 (18)
2021 (15)
2014 (15)
2018 (11)
2015 (10)
2013 (10)
2017 (7)
2016 (2)

Classification

bacteria (14)
protozoa (3)

Modification

2x(15)N labeled L-lysine (2)
4x(15)N labeled L-arginine (2)

Study type

Transcription profiling by array (377)
RNA-seq of coding RNA (160)
ChIP-seq (41)
Other (36)
RNA-seq of non coding RNA (16)
Unknown experiment type (14)
ChIP-chip by array (12)
RIP-seq (8)
RNA-seq of coding RNA from single cells (8)
ChIP-chip by tiling array (7)
Methylation profiling by high throughput sequencing (5)
RNA-seq of total RNA (5)
DNA-seq (4)
Translation profiling (3)
Transcription profiling by tiling array (3)
Transcription profiling by RT-PCR (3)
Proteomic profiling by array (3)
Transcription profiling by SAGE (2)
RIP-chip by array (2)
RNAi profiling by array (2)
MicroRNA profiling by high throughput sequencing (2)
Ribo-seq (2)
RNA-seq of non coding RNA from single cells (1)
One-color microarray (1)
Human - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
Trajectory (1)
Genotyping by array (1)
CLIP-seq (1)
Comparative genomic hybridization by array (1)

Release Date

2014 (118)
2015 (115)
2010 (112)
2025 (111)
2023 (106)
2020 (100)
2024 (99)
2021 (98)
2016 (88)
2013 (86)
2012 (85)
2022 (83)
2004 (81)
2011 (78)
2019 (73)
2018 (63)
2017 (59)
2008 (49)
2009 (41)
2026 (30)
2007 (27)
2005 (14)
2006 (13)
2001 (7)
2003 (6)
2002 (3)
2000 (3)
1999 (1)
1998 (1)

Lab affiliation

UCSD (15)
Associate Professor of Genetics Stanford University USA (5)
Institute for Vascular Signalling, Centre for Molecular Medicine, Goethe University, Frankfurt am Main, Germany. (5)
MDC (5)
MRC Toxicology Unit, University of Cambridge, UK (4)
1. Center for Molecular Medicine Cologne, University of Cologne, Robert-Koch-Str. 21, D- 50931 Cologne, Germany 2. Inst. for Neurophysiology, University of Cologne, Robert-Koch-Str. 39, D-50931 Cologne, Germany 3. CECAD; Cologne Cluster of Excellence in Cellular Stress Responses in Ageing-associated Diseases, University of Cologne, Joseph-Stelzmann-Str. 26, D-50931 Cologne, Germany (3)
Molecular Genetics, RPTU Kaiserslautern (3)
Carnegie Mass Spectrometry Facility (2)
Department of Biology, University Kaiserslautern, Germany. (2)
Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany (2)
Department of Urology, University of California San Francisco (2)
Fundação Oswaldo Cruz - Instituto Carlos Chagas (2)
Medical Proteomics Unit, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand (2)
Professor of Molecular Biology. Centre for Gene Regulation and Expression, School of Life Sciences, University of Dundee ,Dundee, DD1 5EH, Scotland, UK (2)
Roswell Park Cancer Center Buffalo, NY, USA (2)
School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, United Kingdom (2)
The Francis Crick Institute (2)
1 The Finsen Laboratory, Rigshospitalet, Faculty of Health Sciences, University of Copenhagen, Denmark 2 Biotech Research and Innovation Centre (BRIC), University of Copenhagen, Copenhagen, Denmark 4 Novo Nordisk Foundation Center for Stem Cell Biology, DanStem, Faculty of Health Sciences, University of Copenhagen, Copenhagen, Denmark (1)
1-Department of Biochemistry and Molecular Medicine; Université de Montréal; C.P. 6128, Succ. Centre-Ville, Montréal, Québec, H3C 3J7; Canada. 2-Institut de Recherches Cliniques de Montréal, 110 Avenue des Pins Ouest, Montréal, Québec, H2W 1R7; Canada. 3-Faculty of Medicine, Division of Experimental Medicine, McGill University, Montréal, Québec, H3A 1A3; Canada. (1)
1. Research Institute for Medical and Health Sciences, University of Sharjah, Sharjah, United Arab Emirates. 2. College of Pharmacy, Department of Medicinal Chemistry, University of Sharjah, United Arab Emirates (1)
1.Department of Plant Biology, Carnegie Institution for Science, Stanford, California, USA 2.Carnegie Mass Spectrometry Facility, Carnegie Institution for Science, Stanford, California, USA (1)
1Natural Sciences and Engineering, University of South Carolina Upstate, Spartanburg, SC 29303 (1)
2The Rappaport Institute and the Bruce Rappaport Faculty of Medicine, Technion – Israel Institute of Technology, Israel. (1)
AG Joachim Kopka Max-Planck-Institut für Molekulare Pflanzenphysiologie Wissenschaftspark Golm Am Mühlenberg 1 14476 Potsdam, Germany (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS) Technical University of Munich (TUM) Gregor-Mendel-Strasse 4 85354 Freising Germany (1)
Bavarian Center for Biomolecular Mass Spectrometry (BayBioMS), Technical University of Munich (TUM), Freising, Germany (1)
Biomedical Research Institute, Foundation for Research and Technology-Hellas, Ioannina, Greece. (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Utrecht, the Netherlands (1)
Biozentrum, University of Basel, CH-4056 Basel, Switzerland (1)
CRG, UPF (1)

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Gene expression arrays of cardiomyocyte ribosome-associated RNAs during zebrafish heart regeneration

A transgenic line cmlc2:TRAP was made to express EGFP-fused ribosomal protein L10a (EGFP-L10a) in zebrafish cardiomyocytes. Then ribosome-associated RNAs were immuoprecipitated from uninjured and injured adult cmlc2:TRAP fish to determine the differential expression changes during zebrafish heart re...

ORGANISM(S): Danio rerio

2013-08-01 | E-GEOD-48914 | biostudies-arrayexpress

Defining the specificity of cotranslationally acting chaperones by systematic analysis of mRNAs associated with ribosome-nascent chain complexes.

This SuperSeries is composed of the SubSeries listed below. Refer to individual Series

ORGANISM(S): Saccharomyces cerevisiae

2013-04-05 | E-GEOD-45798 | biostudies-arrayexpress

RAPIDASH: Tag-free enrichment of ribosome-associated proteins reveals compositional dynamics in embryonic tissues, cancer cells, and macrophages - label-free MS RAPIDASH of E12.5 mouse forebrain

Ribosomes are emerging as direct regulators of gene expression, with ribosome-associated proteins (RAPs) allowing ribosomes to modulate translation. Nevertheless, a lack of technologies to enrich RAPs across sample types has prevented systematic analysis of RAP identities, dynamics, and functions. W...

ORGANISM(S): Mus musculus (Mouse)

2025-09-22 | PXD054303 | Pride

RNA coimmunoprecipitations

Nascent polypeptides emerging from the ribosome during biogenesis can interact with many chaperones and protein homeostasis factors. The high sensitivity of RNA identification can be used to identify substrates of specific cotranslationally acting chaperones. Protein A-tagged (TAP-tag) chaperones as...

ORGANISM(S): Saccharomyces cerevisiae

2013-04-05 | E-GEOD-45794 | biostudies-arrayexpress

Ribosome profiling of chondrocytic cell line SW1353 following exposure to IL-1B

Osteoarthritis is a chronic disease characterised by the loss of articular cartilage in synovial joints through a process of extracellular matrix destruction that is strongly associated with inflammatory stimuli. Chondrocytes undergo changes to their protein translation capacity during osteoarthriti...

ORGANISM(S): Homo sapiens

2019-07-12 | E-MTAB-7466 | biostudies-arrayexpress

Study of ribosome dynamics of rpl3[W255C] and its interactions with ribosome-associated chaperones

PRJNA473001 | ENA

RAPIDASH: Tag-free enrichment of ribosome-associated proteins reveals compositional dynamics in embryonic tissues, cancer cells, and macrophages [RNA-Seq]

PRJNA1145353 | ENA

Impaired ribosome-associated quality control of C9orf72 arginine-rich dipeptide-repeat proteins.

Not available

S-EPMC10316761 | biostudies-literature

A screen of Campylobacter jejuni protein microarrays with antisera to identify immunogenic proteins

Campylobacter jejuni (C. jejuni) protein microarrays were used to identify immunogenic C. jejuni proteins that may be useful in the development of biomarkers, diagnostic assays, or subunit vaccines for humans or livestock. A native protein microarray with over 1400 individually purified GST-tagged C...

ORGANISM(S): Mus musculus

2018-12-29 | E-MTAB-7535 | biostudies-arrayexpress

Prophage excision switches the primary ribosome rescue pathway and rescue-associated gene regulations in Escherichia coli

Total proteome analysis of CP4-57 prophage- and ssrA-related variants in Escherichia coli. Quantification was performed by SWATH-MS method.

ORGANISM(S): Escherichia Coli

2022-12-07 | PXD033190 | JPOST Repository