Huang He H - OmicsDI

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Unknown (5969)
Proteomics (146)
Transcriptomics (67)
Genomics (65)
Metabolomics (21)
Models (2)

Organisms

Homo sapiens (103)
Andropogon gerardi (100)
Bacteria (100)
Bartonella quintana JK 31 (100)
Canis lupus familiaris (100)
Cnidaria (100)
Ensifer adhaerens (100)
Halictus scabiosae (100)
Mus musculus (18)
Arabidopsis thaliana (9)
Rattus rattus (4)
Severe acute respiratory syndrome coronavirus 2 (4)
Eukaryota (2)
Rattus norvegicus (2)
Hevea brasiliensis (1)
Methanococcus maripaludis S2 (1)
Aspergillus flavus (1)
seed metagenome (1)
Phaeodactylum tricornutum (1)
Oryza sativa Indica Group (1)
Caenorhabditis elegans (1)
Drosophila melanogaster (1)
Canis lupus (1)
Escherichia coli (1)
Ligilactobacillus salivarius (1)
Mus (1)
Penicillium digitatum (1)
Staphylococcus aureus (1)
Staphylococcus aureus subsp. aureus RN4220 (1)
Yarrowia lipolytica (1)

Repository

pride (100)
biostudies-arrayexpress (76)
EGA (54)
iProX (46)
MetaboLights (21)
BioModels (2)
ENA (2)

Tissue

Cell culture (27)
Epithelial cell (8)
Brain (7)
Blood cell (5)
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Liver (4)
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B cell (3)
Blood serum (3)
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Seedling (3)
Blood (2)
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Byssus (1)
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Cornea (1)
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Sertoli cell (1)

Disease

Colon cancer (6)
Disease free (4)
Breast cancer (3)
Brain disease (2)
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Influenza (2)
Stomach carcinoma (2)
Abnormality of prenatal development or birth (1)
Acute leukemia (1)
Alzheimer's disease (1)
Cholangiocarcinoma (1)
Major depressive disorder (1)
Non-small cell lung carcinoma (1)
Pancreatic cancer (1)
Pancreatic ductal adenocarcinoma (1)
Severe acute respiratory syndrome (1)
Skin cancer (1)
Stomach cancer (1)
Wounds and Injuries (1)

Technology Type

Mass Spectrometry (100)
Shotgun proteomics (53)
Bottom-up proteomics (18)
Mass spectrometry (16)
Affinity purification coupled with mass spectrometry proteomics (7)
Data-dependent acquisition (7)
Gel-based experiment (5)
Mass spectrometry assay (4)
Affinity proteomics (4)
Data-independent acquisition (4)
Olink affinity proteomics (3)
Top-down proteomics (3)
Illumina HiSeq 2000, ILLUMINA (2)
All-ion fragmentation (2)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)
NMR spectroscopy (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
Mass spectrometry imaging (1)

Instrument Platform

Illumina NovaSeq 6000 (6)
Liquid Chromatography MS - negative - reverse phase (6)
Liquid Chromatography MS - positive - reverse phase (6)
Liquid Chromatography MS - positive - hilic (4)
Liquid Chromatography MS - alternating - reverse phase (3)
Liquid Chromatography MS - negative - hilic (3)
Illumina HiSeq 4000 (2)
Gas Chromatography MS - (2)
Hamamatsu Nanozoomer S60 (1)
Illumina HiSeq 2500 (1)
Illumina HiSeq 2000 (1)
Gas Chromatography MS - Positive (GC-MS (Positive)) (1)
Liquid Chromatography Tandem MS (LC-MS/MS) (1)
Agilent 7890A+LECO Chroma TOF PEGASUS HT (1)
Xevo G2 QTOF (Waters) (1)
Liquid Chromatography MS - (1)
Bruker (1)
Liquid Chromatography MS - negative (1)
Applied biosystems / mds sciex 4700 proteomics analyzer (1)
Applied biosystems / mds sciex q trap (1)
Applied biosystems / mds sciex qstar (1)
Thermo lcq deca (1)
Thermo lcq deca xp (1)
Thermo ltq (1)
UNKNOWN UNKNOWN (1)
Waters q-tof (1)

Publication Date

2025 (29)
2021 (25)
2024 (24)
2026 (20)
2022 (19)
2023 (19)
2011 (11)
2020 (10)
2015 (10)
2013 (9)
2012 (9)
2019 (9)
2018 (9)
2017 (9)
2010 (7)
2008 (7)
2016 (6)
2014 (6)
2007 (4)
2005 (2)
2009 (1)

CHEBI ID

CHEBI:15354 (6)
CHEBI:17895 (6)
CHEBI:16828 (5)
CHEBI:17368 (5)
CHEBI:30769 (5)
CHEBI:49168 (4)
CHEBI:17597 (4)
CHEBI:18183 (4)
CHEBI:17295 (4)
CHEBI:27082 (3)
CHEBI:28997 (3)
CHEBI:17992 (3)
CHEBI:16755 (3)
CHEBI:16708 (3)
CHEBI:17748 (3)
CHEBI:25017 (3)
CHEBI:17780 (3)
CHEBI:18086 (3)
CHEBI:27266 (3)
CHEBI:55328 (3)
CHEBI:28834 (3)
CHEBI:17306 (3)
CHEBI:16995 (3)
CHEBI:17750 (3)
CHEBI:36313 (3)
CHEBI:15891 (3)
CHEBI:6650 (3)
CHEBI:15971 (3)
CHEBI:18050 (3)
CHEBI:16865 (3)

Metabolite Name

Pyroglutamic acid (5)
Uric acid (5)
Leucine (4)
Uracil (4)
Valine (4)
Cellobiose (4)
Xanthurenic acid (4)
DL-Dopa (4)
Choline (4)
4-Hydroxybenzaldehyde (4)
Citric acid (4)
Adenine (4)
L-Tyrosine (4)
Hypoxanthine (4)
Pyrrole-2-carboxylic acid (3)
Myristoleic acid (3)
Kynurenic acid (3)
Indole-3-carboxylic acid (3)
Cortisone (3)
Indole (3)
Taurine (3)
Xanthosine (3)
Jasmonic acid (3)
Taurocholic acid (3)
Deoxycholic acid (3)
Cholic acid (3)
Stearic acid (3)
Dehydrocholic acid (3)
Malic acid (3)
Indoleacrylic acid (3)

IsPrivate

False (2)

First Public Date

2023 (2)

Modelling Approach

Ordinary differential equation model (2)

Modification

Not available (2)

Study type

Transcription profiling by array (34)
RNA-seq of coding RNA (17)
Unknown experiment type (5)
Methylation profiling by high throughput sequencing (5)
RNA-seq of non coding RNA (5)
ChIP-seq (4)
RNA-seq of coding RNA from single cells (4)
Cell line - Single-cell sequencing (1)
Cell line - One-color microarray (1)

Release Date

2025 (1038)
2024 (793)
2022 (775)
2023 (755)
2021 (706)
2020 (431)
2019 (300)
2018 (238)
2017 (208)
2016 (167)
2015 (167)
2026 (135)
2014 (85)
2013 (66)
2012 (54)
2011 (44)
2010 (28)
2008 (18)
2009 (17)
2007 (6)
2005 (5)
2006 (2)
2004 (2)
2003 (1)
2002 (1)
2001 (1)
1999 (1)
1998 (1)

Lab affiliation

Chinese Academy of Sciences Shanghai Institute of Materia Medica (7)
Institutes of Biomedical Sciences and department of Chemistry, Fudan University, Shanghai, China (6)
The University of Chicago (3)
Brain Injury Center, Renji Hospital, School of Medicine, Shanghai Jiao Tong University; Shanghai Institute of Head Trauma, Shanghai, China, 200127. (2)
Department of Biomedical Engineering, College of Life Science and Technology, Huazhong University of Science and Technology, N0. 1037 Luoyudong Road, Hongshan District, Wuhan 430074 (2)
Professor and president of BGI Academy of Marine Sciences (2)
Shanghai Institute of Materia Medica (2)
Shenzhen Key Laboratory of Plant Genetic Engineering and Molecular Design, Institute of Plant and Food Science, Department of Biology, School of Life Sciences, Southern University of Science and Technology, Shenzhen 518055, China (2)
The First Affiliated Hospital of Fujian Medical University (2)
The First Affiliated Hospital, School of Medicine, Zhejiang University (2)
Zhejiang University (2)
1State Key Laboratory of Digital Medical Engineering, Department of Otolaryngology Head and Neck Surgery, Zhongda Hospital, School of Life Sciences and Technology, School of Medicine, Advanced Institute for Life and Health, Jiangsu Province High-Tech Key Laboratory for Bio-Medical Research, Southeast University, Nanjing 210096, China.2 Co-Innovation Center of Neuroregeneration, Nantong University, Nantong 226001, China. (1)
Anhui Medical University (1)
Baylor College of Medicine Houston, Texas (1)
Ben May Department for Cancer Research, The University of Chicago (1)
Ben May Department for Cancer Research, The University of Chicago, Chicago, IL 60637, USA (1)
Ben May department of cancer research, The university of Chicago (1)
Bone Marrow Transplantation Center, Department of Hematology, The First Affiliated Hospital, School of Medicine, Zhejiang University, Hangzhou, China (1)
Central South University (1)
Children's Hospital of Nanjing Medical University (1)
China-Japan Friendship Hospital, Beijing, China (1)
China-Japan Friendship Hospital, China (1)
Chinese Academy of Sciences Shanghai Institute of MateriaMedica (1)
Chongqing Medical University (1)
City of Hope medical centre, Diabetes Institute (1)
College of Agronomy, Henan Agricultural University/ National Engineering Research Center for Wheat/ Co-construction State Key Laboratory of Wheat and Maize Crop Science/ Collaborative Innovation Center of Henan Grain Crops (1)
College of Pharmacy, Jinan University, Guangzhou, China (1)
Department of Anesthesiology and Perioperative Medicine, Xijing Hospital,the Fourth Military Medical University, Xi'an 710032, China (1)
Department of Anesthesiology, Xiangya Hospital, Central South University, Changsha, China (1)
Department of Biochemistry and Molecular Biology Department of Urology, Mayo clinic, Rochester MN, US (1)

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Hydrogen vs Lactate as electron donor in Sulfate reduction

In order to obtain a global view of energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough and the proteins involved therein whole-genome microarrays were used to compare the transcriptional response of cells grown with hydrogen/sulfate, pyruvate/sulfate, lactate/thio...

ORGANISM(S): Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

2008-05-31 | E-GEOD-8037 | biostudies-arrayexpress

Acetone stress response in Desulfovibrio vulgaris

Desulfovibrio vulgaris has been studied extensively for its potential in the bioremediation of heavy metals and radionuclides. Hydrocarbons and solvents, as frequent environmental co-contaminants, have been reported to inhibit microbial activities and thereby pose a limitation on bioremediation effi...

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2009-08-08 | E-GEOD-5569 | biostudies-arrayexpress

Pyruvate fermentation vs Lactate-Sulfate

ORGANISM(S): Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

2008-05-31 | E-GEOD-8015 | biostudies-arrayexpress

Pyruvate vs Lactate as electron donor in Sulfate reduction

ORGANISM(S): Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

2008-05-31 | E-GEOD-8071 | biostudies-arrayexpress

Thiosulfate vs Sulfate as electron acceptor in Sulfate reduction

ORGANISM(S): Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

2008-05-31 | E-GEOD-8072 | biostudies-arrayexpress

Energy metabolism pathways of the sulfate-reducer Desulfovibrio vulgaris Hildenborough

This SuperSeries is composed of the following subset Series: GSE8015: Pyruvate fermentation vs Lactate-Sulfate GSE8037: Hydrogen vs Lactate as electron donor in Sulfate reduction GSE8071: Pyruvate vs Lactate as electron donor in Sulfate reduction GSE8072: Thiosulfate vs Sulfate as electron acceptor ...

ORGANISM(S): Desulfovibrio vulgaris subsp. vulgaris str. Hildenborough

2008-04-05 | E-GEOD-8069 | biostudies-arrayexpress

Ethanol stress response in Desulfovibrio vulgaris

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2010-06-24 | E-GEOD-7489 | biostudies-arrayexpress

Hydrogen peroxide Stress in Desulfovibrio vulgaris Hildenborough (REPLACED BY GSE21441)

Using data from microarray experiments, we investigated the effects of excess hydrogen peroxide on D. vulgaris. Keywords: stress response, time course Comparison of wild type and deletion mutant cells treated with 1 mM H2O2 to untreated cells at times of 0 and 120 min. See also Series GSE4447 (http...

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2011-10-03 | E-GEOD-14345 | biostudies-arrayexpress

Hydrogen peroxide Stress in Desulfovibrio vulgaris Hildenborough (REPLACED BY GSE21438)

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2011-10-03 | E-GEOD-14355 | biostudies-arrayexpress

pH stress in Desulfovibrio vulgaris Hildenborough

Using data from microarray experiments, we investigated the effects of excess NaCl on D. vulgaris. Keywords: stress response, time course Comparison of cells treated with pH10 pH to untreated cells at times of 0,120,240,30,60 min.

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2007-08-31 | E-GEOD-8197 | biostudies-arrayexpress

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