Huang De D - OmicsDI

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Unknown (2786)
Transcriptomics (228)
Genomics (85)
Proteomics (75)
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Genomic (1)

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Homo sapiens (213)
Mus musculus (64)
Streptomyces coelicolor (17)
Arabidopsis thaliana (8)
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Drosophila melanogaster (4)
Klebsiella pneumoniae subsp. pneumoniae MGH 78578 (3)
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Streptomyces coelicolor A3(2) (2)
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Oryza sativa Japonica Group (2)
Gastrodia elata (1)
Spalax carmeli (1)
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Nannospalax galili (1)
Camellia sinensis (1)
Nannochloropsis oceanica (1)
Hevea brasiliensis (1)
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biostudies-arrayexpress (256)
pride (61)
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Tissue

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Tongue squamous cell carcinoma (1)

Technology Type

Mass Spectrometry (61)
Shotgun proteomics (28)
Mass spectrometry (24)
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Data-dependent acquisition (7)
NMR spectroscopy (5)
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Gel-based experiment (3)
Top-down proteomics (3)
Data-independent acquisition (2)
Immunopeptidomics (2)
SWATH MS (2)
Affymetrix OncoScan FFPE Express (1)
CAPILLARY, AB 3730xL Genetic Analyzer (1)
Mass spectrometry assay (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)
DiaPASEF (1)

Instrument Platform

Illumina NovaSeq 6000 (16)
N/A (6)
Liquid Chromatography MS - negative - reverse phase (6)
Liquid Chromatography MS - positive - reverse phase (6)
Chromium Next GEM Single Cell Multiome ATAC + Gene Expression Reagent Bundle, (4)
10X Genomics reagent kit (3)
Illumina HiSeq 2500 (3)
Illumina HiSeq 2000 (3)
Illumina HiSeq 4000 (3)
NextSeq 500 (3)
Q Exactive (3)
Bruker (3)
Liquid Chromatography MS - positive - hilic (3)
10X Chromium Nuclei Isolation Kit (2)
Illumina MiSeq (2)
LTQ Orbitrap Elite (2)
Gas Chromatography MS - positive (2)
Liquid Chromatography MS - negative - hilic (2)
Nuclear Magnetic Resonance (NMR) - (2)
10X Chromium On-Chip Multiplex (1)
Chromium Next GEM Single Cell Multiome Reagent Bundle (1)
10X Genomics reagents (1)
10X Genomics Chromium (1)
GenePix 4000B [Axon Instruments] (1)
LTQ (1)
LTQ Orbitrap (1)
SolariX (1)
6530 Q-TOF LC/MS (Agilent) (1)
Agilent 7890A+LECO Chroma TOF PEGASUS HT (1)
Direct infusion MS - negative (1)

Publication Date

2012 (35)
2013 (34)
2015 (31)
2016 (28)
2010 (27)
2014 (25)
2011 (23)
2025 (19)
2021 (19)
2022 (15)
2026 (13)
2023 (13)
2024 (13)
2020 (12)
2019 (10)
2017 (9)
2008 (9)
2018 (7)
2009 (6)
2007 (4)
2005 (4)
2006 (3)
2003 (1)

CHEBI ID

CHEBI:15354 (12)
CHEBI:16708 (12)
CHEBI:16704 (11)
CHEBI:17368 (11)
CHEBI:30769 (11)
CHEBI:15756 (10)
CHEBI:16737 (10)
CHEBI:16919 (10)
CHEBI:17154 (10)
CHEBI:22653 (10)
CHEBI:25094 (10)
CHEBI:15428 (9)
CHEBI:16335 (9)
CHEBI:16811 (9)
CHEBI:17748 (9)
CHEBI:18237 (9)
CHEBI:22660 (9)
CHEBI:24898 (9)
CHEBI:32816 (9)
CHEBI:6650 (9)
CHEBI:15741 (8)
CHEBI:16027 (8)
CHEBI:16449 (8)
CHEBI:17562 (8)
CHEBI:17568 (8)
CHEBI:17750 (8)
CHEBI:17822 (8)
CHEBI:17895 (8)
CHEBI:25017 (8)
CHEBI:26271 (8)

Metabolite Name

Citric acid (6)
Creatinine (6)
Glycine (6)
Uracil (6)
Adenine (5)
Adenosine (5)
Choline (5)
Creatine (5)
Glycerol (5)
L-tyrosine (5)
Uridine (5)
AMP (4)
Adenine (4)
Allantoin (4)
Betaine (4)
Cholesterol (4)
Citrate (4)
Hypoxanthine (4)
Isoleucine (4)
L-alanine (4)
L-glutamic acid (4)
L-isoleucine (4)
L-leucine (4)
L-methionine (4)
L-proline (4)
L-valine (4)
Palmitic acid (4)
Pyroglutamic acid (4)
Pyruvic acid (4)
Thymidine (4)

Modification

-17.026549 (1)
15.994915 (1)
3-dipalmitoyl-glycerol)cysteine (1)
42.010565 (1)
47.984744 (1)
788.725776 (1)

Study type

Transcription profiling by array (142)
RNA-seq of coding RNA (36)
ChIP-seq (19)
RNA-seq of coding RNA from single cells (9)
ChIP-chip by tiling array (7)
Comparative genomic hybridization by array (7)
Methylation profiling by high throughput sequencing (7)
Unknown experiment type (6)
Single nucleus RNA sequencing (4)
Other (3)
RNA-seq of non coding RNA (3)
MicroRNA profiling by array (2)
DNA-seq (2)
Methylation profiling by array (2)
Transcription profiling by array;comparative genomic hybridization by array (1)
Cell line - Single-cell sequencing (1)
Human - Single-cell sequencing (1)
Human - High-throughput sequencing (1)
Transcription profiling by tiling array (1)
ChIP-chip by array (1)
ScATAC-seq (1)

Release Date

2023 (329)
2025 (321)
2022 (310)
2024 (296)
2021 (285)
2020 (245)
2019 (164)
2015 (154)
2018 (145)
2017 (140)
2016 (138)
2014 (106)
2013 (86)
2012 (80)
2011 (60)
2010 (45)
2026 (44)
2008 (36)
2009 (23)
2007 (10)
2006 (8)
2005 (7)
2003 (4)
2004 (3)
2002 (1)
1998 (1)

Lab affiliation

Department of Biochemistry and Molecular Biology, University of Calgary, Alberta, Canada; Department of Physiology and Pharmacology, University of Calgary, Alberta, Canada; The Hotchkiss Brain Institute, University of Calgary, Alberta, Canada; McCaig Institute for Bone and Joint Health, University of Calgary, Alberta, Canada (2)
Department of Structural Biology and Developmental Neurobiology, St. Jude Children's Research Hospital, Memphis, TN 38105, USA (2)
Section of Paediatric Infectious Diseases, Faculty of Medicine, Imperial College London, UK (2)
1- Head, Translational Antigen Discovery Laboratory, Hudson Institute of Medical Research 2- Director, Clinical Proteomics Facility, Department of Medicine, School of Clinical Sciences, Monash University (1)
Beijing Key Laboratory of Gene Resource and Molecular Development, College of Life Sciences, Beijing Normal University, Beijing China (1)
CNRS, UMR7178, LSMBO, 67087 Strasbourg, FRANCE Université de Strasbourg, IPHC, 25 rue Becquerel, 67087 Strasbourg, FRANCE (1)
Cambridge Institute for Medical Research, University of Cambridge, Cambridge Biomedical Campus, CB2 0XY, UK (1)
Cellular and Molecular Pharmacology, UCSF, San Francisco, CA (1)
Center for Network Systems Biology, Boston University, USA (1)
Centro Nacional de Investigaciones Cardiovasculares (CNIC), Madrid. (1)
Department of Anatomy and Cell Biology Faculty of Medicine and Health Science Université de Sherbrooke (1)
Department of Biochemistry and Molecular Biology, Infection and Immunity theme, Biomedicine Discovery Institute, Monash University, Clayton, VIC, Australia (1)
Department of Biochemistry, Albert Einstein College of Medicine, Bronx, NY 10461, United States (1)
Department of Biological Sciences University of Delaware Newark, DE, USA. (1)
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 (1)
Department of Cellular and Molecular Pharmacology University of California San Francisco (UCSF) (1)
Department of Chemical & Systems Biology, Stanford University, Stanford, CA (1)
Department of Structural Biology, St. Jude Children's Research Hospital, Memphis, TN, USA (1)
Department of oncology UNIL CHUV Ludwig Institute for Cancer Research Lausanne Office B25A/04/94 Rue du Bugnon 25a, CH-1005 Lausanne (1)
Division of Radiation and Genome Stability, Department of Radiation Oncology, Dana-Farber Cancer Institute, Harvard Medical School, Boston, MA 02215, USA Department of Radiation Oncology, Brigham and Women’s Hospital, Boston, MA 02115 (1)
Erasmus MC (1)
Experimental Systems Immunology Laboratory, Max-Planck Institute of Biochemistry, Martinsried, Germany. (1)
Fujian Agricultural and Forestry University (1)
Head of the Department, Proteomics Core (1)
Immunomodulation Group, Navarrabiomed Biomedical Research Center, Institute of Health Carlos III (ISCIII), Navarra Institute for Health Research (IdiSNA), Spain (1)
Institut de Chimie des Substances Naturelles, CNRS, France (1)
Institut de Génomique Fonctionnelle, Université de Montpellier, CNRS, INSERM, Montpellier, France (1)
Institute of Molecular Biology (IMB) Ackermannweg 4 55128 Mainz (1)
Justus Liebig University Giessen Department of Anatomy and Cell Biology Aulweg 123 35392 Giessen (1)
KU Leuven - University of Leuven, Department of Neurosciences, Experimental Neurology and Leuven Research Institute for Neuroscience and Disease (LIND), B-3000 Leuven, Belgium; VIB, Center for Brain and Disease Research, Laboratory of Neurobiology, Leuven, Belgium; University Hospitals Leuven, Department of Neurology, Leuven, Belgium. (1)

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Differential effects of Huang-Lian-Jie-Du Decoction on Alzheimer’s disease and normal rats

Introduction: Huang-Lian-Jie-Du Decoction (HLJDD), a botanical drug used in traditional medicine, has been used in the management of Alzheimer’s disease (AD). However, the mechanisms underlying its preventive effects remain inadequately understood, particularly due to the absence of metabolomic s...

2025-11-04 | MTBLS13256 | MetaboLights

Pyruvate 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-8071 | biostudies-arrayexpress

Hydrogen vs Lactate as electron donor in Sulfate reduction

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

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

Interactomes of Macrophage migration inhibitory factor (MIF) and its homologue D-dopachrome tautomerase (D-DT )

NIH 3T3 fibroblasts that express little detectable levels of the MIF binding receptor CD74 but do express the signalling component CD44 were used for the identification of interacting proteins that are shared by MIF and D-DT. Endogenously expressed MIF and D-DT were tagged at the C-terminus using a ...

ORGANISM(S): Mus musculus (Mouse)

2021-01-27 | PXD020449 | Pride

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

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

SRA of transcriptome of Hevea brasiliensis

We first report the use of next-generation massively parallel sequencing technologies and de novo transcriptome assembly to gain insight into the wide range of transcriptome of Hevea brasiliensis. The output of sequenced data showed that more than 12 million sequence reads with average length of 90n...

ORGANISM(S): Hevea brasiliensis

2011-09-01 | E-GEOD-26514 | biostudies-arrayexpress

Salt/NaCl stress in Desulfovibrio vulgaris Hildenborough

This set of microarray data was used to investigate the effects of D. vulgaris adaptation to excess NaCl. Keywords: stress response, one time point (the mid-log phase for both control and treated cells) Comparison of cells treated with 250 Salt:NaCl to untreated cells at times of mid-log phase min.

ORGANISM(S): Desulfovibrio vulgaris str. Hildenborough

2010-04-11 | E-GEOD-14343 | biostudies-arrayexpress

NaCl Stress in Desulfovibrio vulgaris Hildenborough (Series 1)

Increased salinity constitutes an important and frequent fluctuation faced by D. vulgaris in its natural habitat. 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 250mM NaCl to u...

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

2006-03-21 | E-GEOD-4504 | biostudies-arrayexpress

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