Gao J J - OmicsDI

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Unknown (36016)
Proteomics (704)
Transcriptomics (172)
Metabolomics (59)
Genomics (44)
Models (3)
Multiomics (3)
Other (2)
Genomic (1)

Organisms

Homo sapiens (243)
Mus musculus (117)
Escherichia coli (7)
Arabidopsis thaliana (6)
Rattus norvegicus (5)
Saccharomyces cerevisiae (4)
Shewanella oneidensis (2)
Macaca mulatta (2)
Zea mays (2)
Oryza sativa (2)
Escherichia coli str. K-12 substr. MG1655 (2)
Sus scrofa (2)
Danio rerio (2)
Rosa hybrid cultivar (2)
Caenorhabditis elegans (1)
Pseudopodoces humilis (1)
Hevea brasiliensis (1)
Rhizobium etli CFN 42 (1)
Tetrahymena thermophila (1)
Shewanella oneidensis MR-1 (1)
Populus tomentosa (1)
Zea mays subsp. mexicana (1)
Sedum alfredii (1)
Bombyx mori (1)
Brassica rapa subsp. rapa (1)
Pan troglodytes (1)
Yersinia pestis (1)
Hordeum vulgare (1)
Solanum tuberosum (1)
Oncorhynchus mykiss (1)

Organisms

Homo sapiens (2)

Repository

pride (438)
iProX (227)
biostudies-arrayexpress (185)
MetaboLights (56)
MassIVE (34)
EGA (28)
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ENA (2)
dbGaP (1)
geo (1)
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PMR (1)

Tissue

Cell culture (122)
Epithelial cell (32)
Liver (26)
Leaf (20)
Permanent cell line cell (17)
Testis (17)
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Root (8)
Whole body (8)
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Heart (7)
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Cell suspension culture (5)
Colon (5)
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Disease

Colon cancer (14)
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Disease free (12)
Acute leukemia (7)
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Kidney cancer (4)
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Non-small cell lung carcinoma (3)
Pancreatic ductal adenocarcinoma (3)
Lung cancer (2)
Lymphoma (2)
Melanoma (2)
Neuroblastoma (2)
Parkinson's disease (2)
Stomach cancer (2)
Type 2 diabetes mellitus (2)
Osteocytes/osteoblasts (1)
Not Available (1)
Acute kidney failure (1)
Adult hepatocellular carcinoma (1)
COVID-19 (1)
Carcinoma (1)
Endometrial Endometrioid Adenocarcinoma (1)

Technology Type

Mass Spectrometry (438)
Shotgun proteomics (203)
Bottom-up proteomics (67)
Mass spectrometry (51)
Gel-based experiment (42)
Data-dependent acquisition (38)
Affinity purification coupled with mass spectrometry proteomics (37)
Data-independent acquisition (31)
SWATH MS (21)
Top-down proteomics (20)
Chemical cross-linking coupled with mass spectrometry proteomics (7)
Proteogenomics (7)
SRM/MRM (6)
All-ion fragmentation (5)
NMR spectroscopy (4)
DiaPASEF (4)
Illumina HiSeq 2000 (2)
HDMSE (2)
Immunopeptidomics (2)
Mass spectrometry imaging (2)
Illumina Genome Analyzer IIx, Illumina HiSeq 2000 (1)
Mass spectrometry assay (1)
MSE (1)
Metaproteomics (1)

Instrument Platform

Liquid Chromatography MS - negative - reverse phase (21)
Liquid Chromatography MS - positive - reverse phase (21)
Gas Chromatography MS - positive (9)
Q Exactive (7)
Illumina HiSeq 2000 (6)
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Illumina Genome Analyzer IIx (1)
GenePix 4000B [Axon Instruments] (1)
Illumina MiSeq (1)
Illumina HiSeq 2500 (1)
Instrument (1)
6550 iFunnel Q-TOF LC/MS (1)
Bruker maXis ESI Quadrupole TOF (1)
LTQ Orbitrap (1)
LTQ Orbitrap XL (1)
Orbitrap Fusion ETD (1)
Q Exactive HF-X (1)
Synapt G2 MS (1)
TSQ Altis (1)
TripleTOF 5600 (1)

Publication Date

2025 (111)
2023 (98)
2022 (97)
2024 (87)
2026 (57)
2020 (50)
2021 (49)
2019 (49)
2014 (33)
2012 (33)
2015 (31)
2013 (29)
2018 (25)
2017 (19)
2016 (19)
2011 (19)
2010 (19)
2009 (6)
2005 (4)
2007 (2)
2006 (2)
2008 (1)

UNIPROT ID/AC

P0DP23 (1)
P28482 (1)
Q02750 (1)
P04049 (1)
14331_SOLTU (1)
14332_SOLTU (1)
14335_SOLTU (1)
3BHS1_MACMU (1)
4113.PGSC0003DMT400001418 (1)
4113.PGSC0003DMT400002078 (1)
4113.PGSC0003DMT400003947 (1)
4113.PGSC0003DMT400005135 (1)
4113.PGSC0003DMT400005136 (1)
4113.PGSC0003DMT400005427 (1)
4113.PGSC0003DMT400009647 (1)
4113.PGSC0003DMT400009751 (1)
4113.PGSC0003DMT400013958 (1)
4113.PGSC0003DMT400015957 (1)
4113.PGSC0003DMT400016201 (1)
4113.PGSC0003DMT400022438 (1)
4113.PGSC0003DMT400027147 (1)
4113.PGSC0003DMT400027379 (1)
4113.PGSC0003DMT400029003 (1)
4113.PGSC0003DMT400031900 (1)
4113.PGSC0003DMT400034164 (1)
4113.PGSC0003DMT400034190 (1)
4113.PGSC0003DMT400035006 (1)
4113.PGSC0003DMT400035007 (1)
4113.PGSC0003DMT400038109 (1)
4113.PGSC0003DMT400040121 (1)

ENSEMBL ID

ENSG00000170477 (2)
ENSG00000214897 (2)
ENSG00000229353 (2)
ENSG00000247315 (2)
ENSG00000147251 (1)
ENSG00000204131 (1)

CHEBI ID

CHEBI:140697 (1)
CHEBI:140695 (1)
CHEBI:78797 (1)
CHEBI:140694 (1)
CHEBI:140692 (1)
CHEBI:70991 (1)
CHEBI:70775 (1)
CHEBI:140040 (1)
CHEBI:70771 (1)
CHEBI:140037 (1)
CHEBI:70829 (1)
CHEBI:140034 (1)
CHEBI:71030 (1)
CHEBI:140031 (1)
CHEBI:71021 (1)
CHEBI:140028 (1)
CHEBI:140054 (1)
CHEBI:140024 (1)
CHEBI:140021 (1)
CHEBI:70815 (1)
CHEBI:140018 (1)
CHEBI:140530 (1)
CHEBI:140015 (1)
CHEBI:82899 (1)
CHEBI:140012 (1)
CHEBI:70845 (1)
CHEBI:140009 (1)
CHEBI:140006 (1)
CHEBI:71156 (1)
CHEBI:140003 (1)

Metabolite Name

Citric acid (17)
Adenosine (15)
Uridine (14)
L-Arginine (13)
Uric acid (13)
Sucrose (13)
Inosine (13)
Hypoxanthine (13)
Uracil (12)
Azelaic acid (12)
Adenine (12)
Xanthine (12)
L-Phenylalanine (12)
Benzaldehyde (11)
Benzoic acid (11)
Taurine (11)
Palmitic acid (11)
Linoleic acid (11)
Pyroglutamic acid (10)
Allantoin (10)
Choline (10)
Pantothenic acid (10)
L-Proline (10)
Gluconic acid (10)
Succinic acid (10)
L-Tryptophan (10)
Myristic acid (10)
Cytidine (10)
Creatinine (10)
Creatine (10)

First Public Date

2022 (2)

Modelling Approach

Constraint-based model (1)
Ordinary differential equation model (1)

Lab affiliation

Pacific Northwest National Laboratory (4)
SIMM (4)
Shanghai Institute of Materia Medica, Chinese Academy of Sciences (4)
Department of Orthopedic Surgery, Sir Run Run Shaw Hospital, Medical College of Zhejiang University, Hangzhou City, China. (3)
Key Laboratory of Tropical Marine Bio-resources and Ecology,South China Sea Institute of Oceanology, Chinese Academy of Sciences (3)
Shandong University (3)
State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Sun Yat-sen University Cancer Center, Guangzhou, 510060, China (3)
State Key Laboratory of Reproductive Medicine, Nanjing Medical University (3)
Tianjin Medical University Cancer Institute and Hospital (3)
Baylor College of Medicine (2)
Boston University (2)
Breast Cancer Now The Institute of Cancer Research (2)
Cancer Center and Research Institute of Intestinal Diseases, Shanghai Tenth People's Hospital, School of Medicine, Tongji University (2)
China Agricultural University (2)
Department of Analytical Chemistry and CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences (2)
Department of Analytical Chemistry and CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, China (2)
Department of Pathophysiology, Key Laboratory of Ministry of Education for Neurological Disorders, School of Basic Medicine, Tongji Medical College, Huazhong University of Science and Technology (2)
Department of Radiation and Medical Oncology, Zhongnan Hospital of Wuhan University (2)
Durbrain (2)
ETH Zurich (2)
Jiangnan University (2)
Mayo Clinic, Department of Oncology (2)
Nankai University (2)
Proteomics program, Novo Nordisk Foundation Center for Protein Research, Faculty of Health and Medical Sciences, University of Copenhagen, Blegdamsvej 3B, 2200 Copenhagen, Denmark (2)
Rutgers University, Newark, USA (2)
School of Tropical Agriculture and Forestry, Hainan University (2)
Shandong Normal University (2)
Shanghai Tenth People's Hospital, Tongji University School of Medicine (2)
Shanghaitech University (2)
South China Sea Institute of Oceanology, Chinese Academy of Sciences (2)

IsPrivate

False (2)

Model Flag

Non Kinetic (1)

Modification

15.994915 (1)
57.021464 (1)
N6 (1)
N6-dimethyl-L-lysine (1)

Study type

Transcription profiling by array (95)
RNA-seq of coding RNA (41)
ChIP-seq (10)
RNA-seq of non coding RNA (9)
Comparative genomic hybridization by array (6)
Methylation profiling by array (5)
MicroRNA profiling by array (4)
Unknown experiment type (3)
ChIP-chip by tiling array (2)
Transcription profiling by tiling array (2)
DNA-seq (2)
RNA-seq of coding RNA from single cells (2)
Methylation profiling by high throughput sequencing (2)
High-throughput sequencing (1)
Bisulfite-seq (1)

Release Date

2025 (5716)
2022 (4919)
2023 (4429)
2024 (4367)
2021 (3731)
2020 (2837)
2019 (1976)
2018 (1636)
2017 (1353)
2016 (1190)
2015 (930)
2026 (746)
2014 (723)
2013 (488)
2012 (356)
2011 (241)
2010 (177)
2009 (130)
2008 (95)
2007 (56)
2006 (27)
2005 (24)
2004 (13)
2003 (12)
2002 (12)
2001 (5)
2000 (4)
1997 (3)
1999 (2)
1998 (2)

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Response of Shewanella oneidensis wild type and arcA mutant strains to H2O2

We undertook a transcriptional profiling to identify genes coping with H2O2-induced oxidative stress in S. oneidensis. The data revealed that the well conserved scavenging genes such as as ahpCF, katB, and katG formed the first line of defense while iron-sulfur protecting proteins may not play a sig...

ORGANISM(S): Shewanella oneidensis

2012-07-31 | E-GEOD-31053 | biostudies-arrayexpress

Differential DNA Methylation and Gene Expression Between ALV-J-Positive and ALV-J-Negative Chickens.

Not available

S-EPMC8203102 | biostudies-literature

Genetic diversity of avian leukosis virus subgroup J (ALV-J): toward a unified phylogenetic classification and nomenclature system.

Not available

S-EPMC8129623 | biostudies-literature

The histone methyltransferase Setd2 is indispensable for V(D)J recombination.

Not available

S-EPMC6659703 | biostudies-literature

Gp37 Regulates the Pathogenesis of Avian Leukosis Virus Subgroup J via Its C Terminus.

Not available

S-EPMC7269434 | biostudies-literature

MR-1 nitrate sample to fumarate sample

One of the most striking observations in the S. oneidensis genome regarding nitrate respiration is that napC is missing and nrfBCD is degenerated. To gain insights into candidate genes encoding the protein(s) in place of NapC and NrfBCD function, i.e., delivering electrons to NapA and NrfA, transcri...

ORGANISM(S): Shewanella oneidensis MR-1

2010-05-19 | E-GEOD-11198 | biostudies-arrayexpress

Molecular epidemiology of avian leukosis virus subgroup J in layer flocks in China.

Not available

S-EPMC3295186 | biostudies-literature

Metabolites from Bacillus subtilis J-15 Affect Seedling Growth of Arabidopsis thaliana and Cotton Plants

Not available

S-EPMC9739671 | biostudies-literature

Avian leukosis virus subgroup J induces VEGF expression via NF-κB/PI3K-dependent IL-6 production.

Not available

S-EPMC5348319 | biostudies-literature

Excised DNA circles from V(D)J recombination promote relapsed leukaemia.