Ribosome-associated protein

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Transcriptomics (1982)
Unknown (1690)
Genomics (580)
Proteomics (390)
Other (70)
Metabolomics (8)
Multiomics (6)
Methylation profiling (2)

Organisms

Homo sapiens (730)
Mus musculus (520)
Saccharomyces cerevisiae (162)
Arabidopsis thaliana (154)
Drosophila melanogaster (46)
Rattus norvegicus (36)
Escherichia coli (28)
Danio rerio (23)
Caenorhabditis elegans (22)
Oncorhynchus mykiss (19)
Bos taurus (18)
Schizosaccharomyces pombe (18)
Gallus gallus (16)
Escherichia coli str. K-12 substr. MG1655 (12)
Escherichia coli K-12 (11)
Glycine max (10)
Triticum aestivum (9)
Colinus virginianus (8)
Fundulus heteroclitus (8)
Chlorocebus sabaeus (8)
Mytilus galloprovincialis (7)
Hordeum vulgare (7)
Solanum lycopersicum (7)
Medicago truncatula (6)
Pseudomonas aeruginosa PAO1 (6)
Pseudomonas aeruginosa (6)
Sus scrofa (6)
Zea mays (6)
Oryza sativa (5)
Mycobacterium tuberculosis (5)

Organisms

Homo sapiens (130)
Mus musculus (124)
Saccharomyces cerevisiae (48)
Drosophila melanogaster (10)
Caenorhabditis elegans (9)
Danio rerio (7)
Arabidopsis thaliana (7)
Bacillus subtilis subsp. subtilis str. 168 (5)
Rattus norvegicus (5)
Schizosaccharomyces pombe (4)
Candida albicans (3)
Plasmodium falciparum (3)
Escherichia coli (3)
Saccharomyces cerevisiae BY4741 (3)
Bacillus subtilis (3)
Enterococcus faecalis str. Deng (2)
Oncorhynchus mykiss (2)
Neurospora crassa (2)
Streptococcus pneumoniae D39 (1)
Leishmania major (1)
Listeria monocytogenes (1)
Escherichia coli K-12 (1)
Enterococcus faecalis (1)
Escherichia coli str. K-12 substr. MG1655 (1)
Saccharomyces cerevisiae Sigma1278b (1)
Hipposideros armiger (1)
Mycoplasmoides gallisepticum S6 (1)
Halobacterium salinarum (1)
Saccharomyces cerevisiae BY4743 (1)
Heliothis virescens (1)

Repository

biostudies-arrayexpress (1835)
ENA (461)
geo (325)
pride (248)
MassIVE (63)
jPOST (36)
iProX (29)
EGA (14)
MetaboLights (8)
PanoramaPublic (5)
GPMDB (4)
PeptideAtlas (3)
PAXDB (2)
EVA (1)

Tissue

Cell culture (72)
Epithelial cell (13)
Leaf (10)
Permanent cell line cell (9)
Plant cell (8)
Seedling (6)
Blood (6)
Brain (6)
Embryonic stem cell (6)
B cell (5)
Cell suspension culture (5)
Heart (5)
Fibroblast (4)
T cell (4)
Others (3)
HUVEC cell (3)
Primary cell (3)
Stem cell (3)
Liver (3)
Endothelium (2)
Primary neuron (2)
Rosette (2)
HEK-293 cell (2)
Bone marrow (2)
Leukocyte (2)
Root (2)
Spleen (2)
Kidney (2)
Embryo (2)
Whole body (2)

Disease

Disease free (12)
Breast cancer (5)
Normal (4)
Not Available (4)
Hepatocellular carcinoma (2)
Chronic lymphocytic leukemia (2)
Amyotrophic lateral sclerosis (2)
Severe acute respiratory syndrome (2)
Acute leukemia (2)
HIV encephalitis (1)
Prostate carcinoma lymph node metastasis (1)
Rett syndrome (1)
Blumeria graminis hordei (powdery mildew) inoculation (1)
Spinal muscular atrophy (1)
Chronic granulomatous disease (1)
IRAK-4 Q293X mutation (1)
Benign prostatic hyperplasia (1)
Reference (1)
S enteritidis (1)
Non infected (1)
H9N2 infected (1)
Heart septal defect (1)
Parkinson's disease 1 (1)
Medulloblastoma non-WNT/non-SHH group 3 (1)
Glycogen storage disease (1)
Phaeohyphomycosis (1)
Combined oxidative phosphorylation deficiency (1)
Childhood medulloblastoma (1)
Retinal disease (1)
Cockayne syndrome (1)

Technology Type

Mass Spectrometry (248)
Shotgun proteomics (117)
Bottom-up proteomics (66)
Affinity purification coupled with mass spectrometry proteomics (41)
Data-dependent acquisition (29)
Data-independent acquisition (23)
Gel-based experiment (19)
Chemical cross-linking coupled with mass spectrometry proteomics (9)
HDMSE (7)
Mass spectrometry assay (6)
Top-down proteomics (6)
DiaPASEF (2)
Illumina HiSeq 2500, ILLUMINA (1)
NMR spectroscopy (1)
Mass spectrometry (1)
Metaproteomics (1)
Proteogenomics (1)
SRM/MRM (1)
SWATH MS (1)

Instrument Platform

Illumina NovaSeq 6000 (84)
NextSeq 500 (55)
Illumina HiSeq 2000 (51)
Illumina HiSeq 2500 (43)
Illumina HiSeq 4000 (25)
Illumina MiSeq (15)
NextSeq 550 (13)
Illumina NovaSeq X (12)
NextSeq 2000 (11)
Illumina HiSeq 1500 (11)
Illumina Genome Analyzer IIx (7)
Scanning hardware (5)
Ion Torrent Proton (5)
AB SOLiD 4 System (4)
Illumina HiSeq 3000 (4)
Illumina Genome Analyzer II (3)
NA (3)
Illumina HiSeq X (3)
Illumina HiSeq 1000 (3)
Element AVITI (2)
Flat panel airlift-loop reactor with a 1.7 L working volume (2)
Maxwell® 16 LEV simplyRNA Tissue kit (Promega) (2)
Windows 7 (2)
GeneChip Scanner 3000 [Affymetrix] (2)
Chemostat (2)
Axon GenePix 4000B scanning hardware (2)
10x Genomics Chromium Controller (2)
BGISEQ-500 (2)
Fluidic station FS450 (1)
GCS3000 7G (1)

Publication Date

2014 (256)
2015 (212)
2013 (186)
2010 (183)
2012 (171)
2011 (159)
2026 (152)
2025 (148)
2016 (147)
2024 (118)
2023 (102)
2022 (95)
2020 (89)
2004 (79)
2021 (70)
2019 (67)
2009 (67)
2018 (63)
2017 (60)
2008 (46)
2007 (33)
2005 (18)
2006 (13)
2002 (3)

UNIPROT ID/AC

A0A1S4C5Z3_TOBAC (1)
A1XEL4_TOBAC (1)
SAHH_TOBAC (1)
A0A1S4BAB4_TOBAC (1)
A0A1S4CJ42_TOBAC (1)
A0A1S4ALI5_TOBAC (1)
A0A1S3YAA4_TOBAC (1)
A0A1S4AAJ0_TOBAC (1)
A0A1S4AZF8_TOBAC (1)
A0A1S3XZ12_TOBAC (1)
A0A1S4ASU6_TOBAC (1)
A0A1S4AT66_TOBAC (1)
A0A1S4C8X1_TOBAC (1)
A0A1S4B1W8_TOBAC (1)
A0A1S4AQ88_TOBAC (1)
A0A1S3YC29_TOBAC (1)
A0A1S4AGI8_TOBAC (1)
A0A1S4D1D4_TOBAC (1)
A0A1S4AGZ2_TOBAC (1)
A0A1S4A638_TOBAC (1)
A0A1S3XUV5_TOBAC (1)
A0A1S4BBR9_TOBAC (1)
A0A1S3X2Z3_TOBAC (1)
A0A1S3ZJN1_TOBAC (1)
A0A1S3ZUM6_TOBAC (1)
A0A1S4CKU1_TOBAC (1)
A0A1S3ZIA8_TOBAC (1)
A0A1S4CEY5_TOBAC (1)
A0A1S4CDI0_TOBAC (1)
A0A1S4DGI7_TOBAC (1)

ENSEMBL ID

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

CHEBI ID

CHEBI:48430 (2)
CHEBI:17562 (2)
CHEBI:16919 (2)
CHEBI:32816 (2)
CHEBI:17268 (2)
CHEBI:30769 (2)
CHEBI:16704 (2)
CHEBI:17596 (2)
CHEBI:16750 (2)
CHEBI:16027 (2)
CHEBI:16335 (2)
CHEBI:229468 (1)
CHEBI:75654 (1)
CHEBI:229469 (1)
CHEBI:234279 (1)
CHEBI:62005 (1)
CHEBI:20597 (1)
CHEBI:20598 (1)
CHEBI:17284 (1)
CHEBI:191041 (1)
CHEBI:27384 (1)
CHEBI:86390 (1)
CHEBI:16001 (1)
CHEBI:178092 (1)
CHEBI:178091 (1)
CHEBI:16142 (1)
CHEBI:799 (1)
CHEBI:19688 (1)
CHEBI:17225 (1)
CHEBI:11805 (1)

Metabolite Name

NADP+ (2)
IMP (2)
Cadaverine (2)
NAD+ (2)
UMP (2)
Creatine (2)
Carnitine (2)
Threonine (2)
Glutamine (2)
Phenylalanine (2)
Betaine (2)
Arginine (2)
Tyrosine (2)
Adenosine (2)
Isoleucine (2)
Tryptophan (2)
Taurine (2)
Alanine (2)
ADP (2)
Guanosine (2)
(2S)-1-[(2S)-2-[(5-methoxy-1-methylindole-2-carbonyl)amino]-3-methylbutanoyl]pyrrolidine-2-carboxylic acid (1)
Methyl 2-[(4-hydroxyphenyl)methylene]-3-oxobenzo[b]furan-5-carboxylate (1)
(19E)-4-Ethyl-2,16-Didehydrocur-19-En-4-Ium-17-Al (1)
1H,1H,2H,2H-Perfluorohexanol (1)
Ethyl 5-hydroxy-2-methyl-1-[2-(4-propylphenoxy)ethyl]benzo[g]indole-3-carboxyl ate (1)
(E)-N-butyl-N-(1-(cyclohexylamino)-1-oxobutan-2-yl)but-2-enamide (1)
Ethyl 3-nitrocinnamate (1)
NCGC00386084-01_C23H32N2O3_ (1)
2-Chloro-N-[2-(5-Methoxy-2-Methyl-1H-Indol-3-Yl)Ethyl]-5-Nitrobenzamide (1)
5-[(E)-3-hydroxybut-1-enyl]-4-[4-[(E)-3-oxobut-1-enyl]anilino]oxolan-2-one (1)

First Public Date

2024 (67)
2025 (62)
2026 (59)
2020 (45)
2023 (39)
2022 (37)
2019 (33)
2018 (23)
2014 (21)
2021 (20)
2017 (17)
2015 (16)
2013 (12)
2016 (10)

Classification

bacteria (10)
protozoa (4)
fungi (3)

Modification

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

Study type

Transcription profiling by array (957)
RNA-seq of coding RNA (433)
Other (64)
ChIP-seq (61)
RNA-seq of non coding RNA (45)
Comparative genomic hybridization by array (37)
RNA-seq of coding RNA from single cells (30)
Unknown experiment type (24)
Ribo-seq (19)
ChIP-chip by array (18)
RNA-seq of total RNA (17)
Methylation profiling by high throughput sequencing (16)
ChIP-chip by tiling array (10)
Transcription profiling by RT-PCR (10)
RIP-seq (10)
High-throughput sequencing (9)
DNA-seq (7)
MicroRNA profiling by array (6)
Genotyping by high throughput sequencing (6)
Translation profiling (5)
Transcription profiling by tiling array (5)
Methylation profiling by array (5)
Cell line - High-throughput sequencing (4)
MicroRNA profiling by high throughput sequencing (4)
Proteomic profiling by array (4)
Human - High-throughput sequencing (3)
Transcription profiling by SAGE (2)
RIP-chip by array (2)
RNAi profiling by array (2)
CUT&RUN (2)

Release Date

2014 (307)
2015 (259)
2025 (223)
2013 (211)
2010 (208)
2012 (207)
2016 (206)
2011 (188)
2024 (184)
2022 (177)
2023 (176)
2021 (173)
2020 (159)
2019 (137)
2018 (125)
2017 (123)
2026 (86)
2009 (85)
2004 (85)
2008 (71)
2007 (47)
2005 (26)
2006 (24)
2001 (11)
2003 (7)
2002 (6)
2000 (4)
1999 (4)
1998 (3)

Lab affiliation

UCSD (15)
Associate Professor of Genetics Stanford University USA (5)
MDC (5)
Institute for Vascular Signalling, Centre for Molecular Medicine, Goethe University, Frankfurt am Main, Germany. (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)
School of Molecular and Cellular Biology, Faculty of Biological Sciences, University of Leeds, Leeds, LS2 9JT, United Kingdom (2)
Department of Cellular Biochemistry, Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany (2)
Fundação Oswaldo Cruz - Instituto Carlos Chagas (2)
Department of Biology, University Kaiserslautern, Germany. (2)
Professor of Molecular Biology. Centre for Gene Regulation and Expression, School of Life Sciences, University of Dundee ,Dundee, DD1 5EH, Scotland, UK (2)
Department of Urology, University of California San Francisco (2)
Roswell Park Cancer Center Buffalo, NY, USA (2)
Medical Proteomics Unit, Research Department, Faculty of Medicine Siriraj Hospital, Mahidol University, Bangkok, Thailand (2)
The Francis Crick Institute (2)
Carnegie Mass Spectrometry Facility (2)
Laboratory of Transcriptional Networks, Department of Cellular, Computational, and Integrative Biology, CIBIO, University of Trento, via Sommarive 9, 38123 Trento, Italy (1)
MPI of Biophysics, Frankfurt (1)
Laboratory for RNA Cancer Biology Department of Oncology, LKI, KU Leuven (1)
Laboratório de Biotecnologia, Centro de Biociências e Biotecnologia (CBB), Universidade Estadual do Norte Fluminense Darcy Ribeiro (UENF), Av. Alberto Lamego, Campos dos Goytacazes, RJ, Brazil. Unidade de Biologia Integrativa, Setor de Genômica e Proteômica, UENF, Campos dos Goytacazes, RJ, Brazil (1)
Cambridge Centre for Proteomics, Department of Biochemistry, University of Cambridge, Cambridge, CB2 1QR UK (1)
IMMAGINA BioTechnology S.r.l, Via Sommarive 18, Povo (Italy) (1)
2The Rappaport Institute and the Bruce Rappaport Faculty of Medicine, Technion – Israel Institute of Technology, Israel. (1)
Department of Veterinary Medecine, University of Milan, Milan (1)
Director, Max-Planck-Institute for Biochemistry, Am Klopferspitz 18, Martinsried, Germany (1)
Biomedical Research Institute, Foundation for Research and Technology-Hellas, Ioannina, Greece. (1)
Westlake University 600 Dunyu, Hangzhou Zhejiang, 310030, China (1)
UMR 1095 GDEC, INRA Clermont Ferrand, Blaise Pascal University Aubière, FRANCE (1)
Department of Biochemistry, Institute of Chemistry, University of São Paulo, 05508-000, São Paulo, SP, Brazil. (1)

Tags

pathogen (17)
pathogen:bacterium (10)
pathogen:protozoan (4)
pathogen:fungus (3)

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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

Ultra-deep sequencing of ribosome-associated poly-adenylated RNA in early Drosophila embryo reveals hundreds of conserved translating sORFs

Identification of translating small open reading frames (sORFs) through deep sequecing of ribosome-associated poly-adenylated RNA and conservation analysis in early Drosophila embryo

ORGANISM(S): Drosophila melanogaster

2017-03-05 | E-MTAB-4571 | biostudies-arrayexpress

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

Ribosomal Protein Gene Deletions in Diamond Blackfan Anemia

Diamond Blackfan anemia is a congenital bone marrow failure syndrome characterized by hypoproliferative anemia, often with associated physical abnormalities. Perturbations of the ribosome appear critically important to the development of DBA, as alterations in 9 different ribosomal protein genes ha...

ORGANISM(S): Homo sapiens

2012-01-15 | E-GEOD-31575 | 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

Impact of regulatory variation from RNA to protein

Data from ProteomeXchange, PXD ID: PXD001406. Experiment: GM19138, MSB14233, file: GM19138_MSB14233_29.mzml. Published as part of Science 2014 Dec. 18 . From the Abstract: {{i}} ... we mapped genetic variants that are associated with eQTLs, ribosome occupancy (rQTLs), or protein abundance (pQTLs). ...

ORGANISM(S): Homo_sapiens_viruses, Human

GPM32320005946 | GPMDB

Resource Reanalysis

Impact of regulatory variation from RNA to protein

Data from ProteomeXchange, PXD ID: PXD001406. Experiment: GM18519, MSB14195, file: GM18519_MSB14195_16.mzml. Published as part of Science 2014 Dec. 18 . From the Abstract: {{i}} ... we mapped genetic variants that are associated with eQTLs, ribosome occupancy (rQTLs), or protein abundance (pQTLs). ...

ORGANISM(S): Homo_sapiens_viruses, Human

GPM11210033257 | GPMDB

Resource Reanalysis

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

In vivo analysis of astrocyte ribosome-associated mRNA after traumatic spinal cord injury

Analysis of gene expression by astrocytes or non-astrocyte cells in spinal cord injury (SCI) lesions may lead to the identification of molecules that impact on axon regrowth. We conducted genome-wide RNA sequencing of (i) immunoprecipitated astrocyte-specific ribosome-associated RNA (ramRNA) from WT...

ORGANISM(S): Mus musculus

2016-03-30 | E-GEOD-76097 | biostudies-arrayexpress

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4724 Results

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