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Unknown (69020)
Transcriptomics (56588)
Genomics (13494)
Proteomics (9915)
Metabolomics (930)
Other (499)
Models (130)
Methylation profiling (98)
Multiomics (48)
Clinical (29)
Genomic (24)

Organisms

Homo sapiens (25970)
Mus musculus (16133)
Arabidopsis thaliana (2550)
Rattus norvegicus (1895)
Drosophila melanogaster (1500)
Saccharomyces cerevisiae (1462)
Caenorhabditis elegans (1093)
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Escherichia coli str. K-12 substr. MG1655 (136)
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Solanum lycopersicum (120)
Hordeum vulgare (118)
Salmo salar (114)
Xenopus laevis (90)
cellular organisms (77)
Rhodotorula toruloides (2)
Ostreococcus tauri (1)

Organisms

Homo sapiens (3150)
Mus musculus (1645)
Arabidopsis thaliana (161)
Saccharomyces cerevisiae (149)
Drosophila melanogaster (132)
Rattus norvegicus (132)
Caenorhabditis elegans (59)
Schizosaccharomyces pombe (40)
Danio rerio (38)
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Sus scrofa (28)
Macaca mulatta (26)
Plasmodium falciparum (19)
Oryza sativa (18)
Zea mays (18)
synthetic construct (17)
Escherichia coli str. K-12 substr. MG1655 (17)
Escherichia coli (17)
Oncorhynchus mykiss (15)
Anopheles gambiae (11)
Neurospora crassa (10)
Methanococcus maripaludis S2 (10)
Canis lupus familiaris (10)
Cricetulus griseus (9)
Pseudomonas aeruginosa (9)
Caulobacter vibrioides (8)
Synechocystis sp. PCC 6803 (8)
Glycine max (8)
Bacillus subtilis subsp. subtilis str. 168 (8)

Repository

biostudies-arrayexpress (56009)
ENA (7910)
pride (6272)
geo (5131)
EGA (1818)
MassIVE (1772)
MetaboLights (910)
jPOST (526)
iProX (482)
PAXDB (315)
PeptideAtlas (228)
PanoramaPublic (165)
BioModels (87)
GPMDB (56)
LINCS (31)
Cell Collective (26)
dbGaP (24)
EVA (21)
GNPS (19)
FAIRDOMHub (17)
NODE (4)

Tissue

Cell culture (1362)
Epithelial cell (403)
Brain (370)
Blood plasma (225)
Permanent cell line cell (192)
Liver (191)
Blood (147)
Plant cell (146)
Lung (140)
Kidney (118)
Fibroblast (116)
Leaf (114)
Heart (112)
Digestive System (103)
Blood serum (97)
Cell suspension culture (96)
Others (33)
Female Reproductive System (8)
Male Reproductive System (8)
Breast (3)
Liver (3)
Spleen (3)
Cell line (2)
Plasma Non-glyco (2)
Adrenal Gland (1)
Brain (1)
Kidney (1)
Lung (1)
Pancreas (1)
Urine (1)

Disease

Normal (245)
Breast cancer (155)
Colon cancer (104)
Alzheimer's disease (59)
Lymphoma (41)
Parkinson's disease (35)
Neuroblastoma (31)
Melanoma (31)
Prostate cancer (29)
Non-small cell lung carcinoma (28)
Hepatocellular carcinoma (26)
Osteosarcoma (25)
Glioblastoma (24)
Multiple myeloma (20)
Adenocarcinoma (18)
Acute myeloid leukemia (13)
Reference (10)
Chronic lymphocytic leukemia (8)
Prostate carcinoma (8)
Breast carcinoma (8)
Rheumatoid arthritis (7)
Colorectal carcinoma (7)
Cancer (7)
Gastric cancer (6)
Acute lymphoblastic leukemia (5)
Colorectal cancer (5)
Colon adenocarcinoma (5)
Head and neck squamous cell carcinoma (5)
None (5)
Huntington's disease (1)

Technology Type

Illumina HiSeq 2000 (65)
Illumina HiSeq 2000, ILLUMINA (15)
Illumina HiSeq 2500, ILLUMINA (13)
ILLUMINA, Illumina HiSeq 2000 (13)
ILLUMINA, Illumina HiSeq 2500 (11)
Illumina HiSeq 2500 (10)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (9)
Illumina MiSeq (8)
Illumina Genome Analyzer II (5)
Illumina HiSeq 4000, ILLUMINA (3)
Illumina HiSeq 2000, Illumina HiSeq 2500 (3)
Illumina HiSeq 2000, Illumina Genome Analyzer II (3)
Illumina MiSeq, Illumina HiSeq 2500, ILLUMINA (2)
COMPLETE_GENOMICS, Complete Genomics (2)
ILLUMINA, NextSeq 500 (2)
Illumina HiSeq 4000, Illumina HiSeq 2500, ILLUMINA (2)
HiSeq X Ten, ILLUMINA (2)
ILLUMINA, Illumina MiSeq (2)
Illumina HiSeq 2000, Illumina Genome Analyzer IIx (2)
Illumina HiSeq 2500, Illumina HiSeq 2000 (2)
Unknown, Affymetrix 500K (2)
Genotype (1)
Illumina HiSeq 2500, Illumina HiSeq 4000, ILLUMINA (1)
Illumina HiSeq 2000, ILLUMINA, Illumina HiSeq 4000 (1)
Illumina CytoSNP, Illumina HumanOmni2.5, ILLUMINA, Illumina 450k, Illumina HiSeq 2000 (1)
Illumina DASL Assay (1)
Illumina Oncoscan Array (1)
ILLUMINA, Illumina HiSeq 2500, HiSeq X Ten, Illumina HiSeq 2000 (1)
ILLUMINA, Illumina Genome Analyzer IIx, Illumina HiSeq 2500 (1)
Illumina HiSeq 2000, PacBio RS II (1)

Instrument Platform

Illumina NovaSeq 6000 (1565)
NextSeq 500 (1088)
Illumina HiSeq 2500 (991)
Illumina HiSeq 2000 (920)
Illumina HiSeq 4000 (728)
NextSeq 550 (247)
Illumina MiSeq (202)
NextSeq 2000 (166)
Illumina NovaSeq X (164)
Illumina HiSeq 1500 (137)
Illumina Genome Analyzer IIx (107)
Illumina Genome Analyzer II (95)
Illumina HiSeq 3000 (84)
BGISEQ-500 (73)
Scanning hardware (66)
DNBSEQ-G400 (58)
HiSeq X Ten (53)
Illumina HiSeq 1000 (51)
GenePix 4000B [Axon Instruments] (47)
Ion Torrent Proton (45)
NA (42)
Axon GenePix 4000B scanning hardware (41)
DNBSEQ-T7 (38)
Axon- GenePix4000B (37)
G2565BA DNA microarray scanner [Agilent] (28)
AB SOLiD 4 System (27)
GenePix 4000A [Axon Instruments] (26)
418 [Affymetrix] (26)
Affymetrix GeneChip Scanner 3000 7G (25)
N/A (25)

Publication Date

2013 (7225)
2014 (7098)
2015 (6375)
2010 (5953)
2012 (5930)
2011 (5166)
2016 (4512)
2008 (3097)
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2024 (2498)
2009 (2471)
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2022 (2311)
2021 (2216)
2020 (2090)
2019 (1553)
2018 (1541)
2017 (1401)
2007 (1302)
2005 (603)
2006 (537)
2004 (185)
2003 (39)
2002 (6)
2001 (2)
2027 (1)

UNIPROT ID/AC

P27361 (5)
Q02750 (5)
P04049 (5)
P61225 (4)
P51452 (4)
P29965 (3)
O15111 (3)
O00443 (3)
Q6GQQ9 (2)
Q13489 (2)
Q13490 (2)
Q13114 (2)
P40073 (2)
P40048 (2)
Q01201 (2)
Q9UHD2 (2)
Q99558 (2)
P12385 (2)
P05453 (2)
P32471 (2)
P29547 (2)
P36008 (2)
P39730 (2)
P06634 (2)
P34167 (2)
P10081 (2)
P04147 (2)
P39935 (2)
P39936 (2)
P07260 (2)

ENSEMBL ID

ENSG00000170477 (156)
ENSG00000229353 (95)
ENSG00000147251 (42)
ENSDARG00000000103 (17)
ENSDARG00000001431 (17)
ENSDARG00000001915 (17)
ENSDARG00000001950 (17)
ENSDARG00000001993 (17)
ENSDARG00000002480 (17)
ENSDARG00000005039 (17)
ENSDARG00000005560 (17)
ENSDARG00000005791 (17)
ENSDARG00000006399 (17)
ENSDARG00000007219 (17)
ENSDARG00000009285 (17)
ENSDARG00000009484 (17)
ENSDARG00000010149 (17)
ENSDARG00000013078 (17)
ENSDARG00000016301 (17)
ENSDARG00000016393 (17)
ENSDARG00000017014 (17)
ENSDARG00000017624 (17)
ENSDARG00000018404 (17)
ENSDARG00000021124 (17)
ENSG00000101017 (3)
ENSG00000175104 (1)
ENSG00000102245 (1)
ENST00000403290 (1)
ENST00000008527 (1)
ENST00000317276 (1)

CHEBI ID

CHEBI:15891 (145)
CHEBI:16828 (99)
CHEBI:17196 (95)
CHEBI:15971 (95)
CHEBI:17754 (90)
CHEBI:17509 (87)
CHEBI:17306 (64)
CHEBI:16283 (51)
CHEBI:17380 (7)
CHEBI:17432 (7)
CHEBI:16424 (7)
CHEBI:18403 (7)
CHEBI:28528 (7)
CHEBI:27868 (7)
CHEBI:28726 (7)
CHEBI:16842 (7)
CHEBI:17549 (7)
CHEBI:17151 (7)
CHEBI:17924 (7)
CHEBI:17158 (7)
CHEBI:18191 (7)
CHEBI:17544 (7)
CHEBI:17378 (7)
CHEBI:16551 (7)
CHEBI:15343 (7)
CHEBI:18364 (7)
CHEBI:18252 (7)
CHEBI:17232 (7)
CHEBI:16189 (7)
CHEBI:16240 (7)

Metabolite Name

Creatine (152)
Hypoxanthine (137)
Adenosine (135)
Creatinine (132)
Uracil (130)
Adenine (130)
Taurine (129)
Uridine (123)
Choline (120)
Xanthine (119)
Inosine (117)
L-Phenylalanine (116)
L-Tyrosine (115)
Betaine (110)
Guanosine (108)
L-Tryptophan (104)
Glycine (103)
Cytidine (103)
Guanine (101)
Citric acid (100)
Ornithine (97)
L-Valine (95)
L-Histidine (93)
Cytosine (93)
L-Glutamine (93)
Pantothenic acid (92)
L-Threonine (91)
L-Proline (91)
Thymine (90)
Phenylalanine (88)

First Public Date

2014 (1059)
2025 (927)
2024 (914)
2026 (799)
2023 (692)
2021 (550)
2020 (531)
2022 (503)
2019 (414)
2018 (368)
2017 (345)
2013 (306)
2015 (282)
2016 (202)
2012 (9)
2011 (5)
2010 (4)

Modelling Approach

Ordinary differential equation model (58)
Constraint-based model (6)
Petri net (3)
Machine learning (2)
Mathematical model (2)
Fuzzy logic model (1)
Computational model (1)
Steady-state model (1)
Boolean model (1)
Differential equation model (1)
Other (1)
Partial differential equation model (1)
Delayed differential equation model (1)

Study status

Recruiting (10)
Completed (9)
Not yet recruiting (5)
Not provided (3)
Terminated (1)
Withdrawn (1)

Lab affiliation

Department of Cancer Biology, Dana-Farber Cancer Institute, Boston, MA 02215, USA., Department of Biological Chemistry and Molecular Pharmacology, Harvard Medical School, Boston, MA 02115, USA (106)
University of Vienna, Faculty of Chemistry, Department of Analytical Chemistry (46)
University of Victoria (19)
The University of Melbourne (16)
iBET – Instituto de Biologia Experimental e Tecnológica, Av. da República, Oeiras, 2780-157, Portugal (13)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (12)
Center for Structural Biology, Center for Cancer Research, National Cancer Institute (NCI), National Institutes of Health, Frederick, MD 21702-1201, USA (11)
Head of the Curie Institute Mass Spectrometry Platform (11)
Proteomics Core Facility and Research Group Proteomics, CEITEC-MU, Masaryk University, Brno, Czech Republic (11)
Amsterdam UMC, Vrije Universiteit Amsterdam, Medical Oncology, Cancer Center Amsterdam, OncoProteomics Laboratory, Amsterdam, Netherlands (10)
Institute for Research in Immunology and Cancer, Department of Biochemistry, Department of Chemistry, Université de Montréal, Québec, Canada H3T 1J4 (10)
Molecular Genetics, RPTU Kaiserslautern, Germany (10)
Ghent University, Department of Plant Biotechnology and Bioinformatics, Technologiepark 71, 9052 Ghent, Belgium VIB Center for Plant Systems Biology, Technologiepark 71, 9052 Ghent, Belgium (9)
Institute of Biochemistry II, Faculty of Medicine, Goethe University, Frankfurt am Main, Germany Frankfurt Cancer Institute, Frankfurt am Main, Germany Cardio-Pulmonary Institute, Frankfurt am Main, Germany (9)
Instituto de Investigaciones Sanitarias de Santiago de Compostela (9)
Keck MS & Proteomics Resource Yale School of Medicine (9)
Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Melbourne 3000, Australia (8)
EDyP (8)
University of Edinburgh (8)
University of Oxford (8)
Centre for Applied Pharmacokinetic Research, School of Health Sciences, The University of Manchester, UK (7)
Evolutionary and translational venomics Lab, Instituto de Biomedicina de Valencia, CSIC (7)
King's College London (7)
LMU Munich Plant Biochemistry and Physiology, Germany (7)
Liverpool John Moores University (7)
UMR 7367 CNRS-UL IMoPA Biopôle de l'Université de Lorraine Campus Brabois-Santé 9 avenue de la forêt de Haye 54505 Vandoeuvre-les-Nancy FRANCE (7)
Utrecht University (7)
VIB-UGent Center for Medical Biotechnology (7)
Cancer Science Institute of Singapore (CSI), National University of Singapore (NUS) (6)
Carnegie Mass Spectrometry Facility (6)

Keyword

Immunotherapy (4)
CRC (2)
Bendamustine Hydrochloride (1)
Intestinal microbiota, microbial genes, oncology (1)
Platinum analogues (1)
Cisplatin, carboplatin, oxaliplatin (1)
Hemoglobin (1)
KISIMA-01 (1)
ATP128 (1)
BI 754091 (Ezabenlimab) (1)
MMRp (1)
VSV-GP128 (1)
Therapeutic viral vaccine (1)
Heterologous prime-boost (1)
Maintenance setting (1)
MUC-1 (1)
Metastatic Adenocarcinoma (1)
Hyponatremia (1)
C-reactive protein (1)
Atorvastatin (1)
Proteomics (1)
CAR-macrophage (1)
Post menopausal (1)
Premenopausal (1)
Lung Cancer, Non-Small Cell (1)
Cell therapy (1)
Targeted (1)
Malignancy (1)
Malignancies (1)
Interleukin-2 (1)

IsPrivate

False (87)

Model Flag

Non Kinetic (6)

Submitter Keywords

FROG (4)
FAIR-AIML (2)
Machine Learning Model (2)
Not Peer Reviewed (1)

Classification

bacteria (170)
protozoa (64)
viruses (53)
fungi (23)
helminths (3)

Modification

4x(15)N labeled L-arginine (21)
2x(15)N labeled L-lysine (20)
4-tetrahydrothiazine-3-carboxylic acid (13)
Not available (9)
N6-dimethyl-L-lysine (8)
15.994915 (7)
57.021464 (7)
N6 (7)
4 (5)
42.010565 (4)
-17.026549 (3)
4x(2)H labeled dimethylated L-lysine (3)
56.026215 (2)
6x(2)H labeled dimethylated L-arginine (2)
71.037114 (2)
-18.010565 (1)
0.984 (1)
15.99491 (1)
1x(15)N labeled L-leucine (1)
1x(15)N labeled L-valine (1)
3'' (1)
3x(2)H labeled N6-acetyl-L-lysine (1)
4'-dihydroxyphenylalanine (1)
4-dinitrophenyl modified residue (1)
57.02146 (1)
58.005479 (1)
59.036279 (1)
79.966331 (1)

Study type

Transcription profiling by array (35550)
RNA-seq of coding RNA (8782)
ChIP-seq (2266)
RNA-seq of non coding RNA (1281)
Unknown experiment type (761)
ChIP-chip by tiling array (711)
Other (710)
Comparative genomic hybridization by array (698)
Methylation profiling by array (570)
RNA-seq of coding RNA from single cells (528)
RNA-seq of total RNA (420)
Transcription profiling by tiling array (380)
Methylation profiling by high throughput sequencing (316)
MicroRNA profiling by array (283)
ChIP-chip by array (244)
Transcription profiling by RT-PCR (226)
Cell line - High-throughput sequencing (203)
Animal - High-throughput sequencing (193)
DNA-seq (192)
Genotyping by array (149)
High-throughput sequencing (124)
Proteomic profiling by array (111)
RNAi profiling by array (94)
Transcription profiling by SAGE (89)
MicroRNA profiling by high throughput sequencing (87)
Human - High-throughput sequencing (84)
RIP-seq (64)
ATAC-seq (60)
Plant - High-throughput sequencing (55)
Animal - One-color microarray (54)

Release Date

2014 (9224)
2013 (8961)
2015 (8932)
2022 (8147)
2021 (7753)
2012 (7508)
2016 (7449)
2023 (7272)
2010 (7048)
2025 (6645)
2011 (6592)
2020 (6367)
2024 (5938)
2019 (5196)
2018 (4728)
2017 (4505)
2008 (3727)
2009 (3362)
2007 (1735)
2026 (1499)
2006 (846)
2005 (810)
2004 (314)
2003 (151)
2002 (88)
2000 (73)
2001 (71)
1999 (23)
1998 (23)
1997 (9)

Location

Japan (5)
United States (5)
France (4)
Australia (3)
Belgium (3)
Canada (2)
Germany (2)
Cyprus (1)
Slovenia (1)
Singapore (1)
Denmark (1)
Egypt (1)
Turkey (1)
Greece (1)
Bulgaria (1)
Israel (1)
Spain (1)
Netherlands (1)
Switzerland (1)

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Sequencing of Echinococcus multilocularis densovirus non capsid protein 1 gene

PRJEB29456 | ENA

Bacterial non-coding RNAs excised from within protein-coding transcripts

PRJEB27518 | ENA

Human endothelial cells stimulated with dengue virus non-structural protein 1

PRJNA580464 | ENA

Sequencing of the non-ribosomal transcriptome allows the simultaneous identification of protein-coding and non-protein-coding RNAs

Deep Sequencing of protein-coding and non-protein-coding RNAs from mouse differentiated embryonic stem cells and 14.5dpc mouse fetal head Analysis of Ribominus RNA from mouse differentiated embryonic stem cells and 14.5dpc mouse fetal head There are no processed data files for GSM566806-GSM566811. ...

ORGANISM(S): Mus musculus

2011-12-06 | E-GEOD-22959 | biostudies-arrayexpress

Dissecting non-coding and pathogen RNA-protein interactomes

RNA-protein interactions are central to biological regulation. Cross-linking immunoprecipitation (CLIP)-seq is a powerful tool for genome-wide interrogation of RNA-protein interactomes, but current CLIP methods are limited by challenging biochemical steps and fail to detect many classes of noncoding...

ORGANISM(S): Homo sapiens

2014-11-18 | E-GEOD-59840 | biostudies-arrayexpress

Transposable element exonization by non-canonical splicing generates a diversity reservoir of functional protein isoforms

PRJNA980573 | ENA

Deep mutational scanning reveals a tight correlation between protein degradation and toxicity of thousands of non-native aspartoacylase protein variants

PRJNA1071173 | ENA

A secreted viral non-structural protein determines intestinal norovirus pathogenesis and vaccination

Secreted non-structural protein 1 of norovirus counteracts IFN-l immunity and is a vaccine target.

PRJEB27021 | ENA

Long non-coding RNAs associated with mitogen-activated protein kinase in pancreatic cancer cells.

PRJNA895033 | ENA

Ribosome queuing enables non-AUG translation to be resistant to multiple protein synthesis inhibitors