Yu Shen S - OmicsDI

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Unknown (2220)
Proteomics (54)
Transcriptomics (31)
Metabolomics (18)
Genomics (9)
Multiomics (3)

Organisms

Homo sapiens (47)
Mus musculus (25)
Arabidopsis thaliana (4)
Rattus norvegicus (2)
Staphylococcus aureus (2)
Anaerobutyricum hallii DSM 3353 (2)
Butyrivibrio fibrisolvens DSM 3071 (2)
Escherichia coli (2)
Faecalibacterium prausnitzii (2)
Marvinbryantia formatexigens DSM 14469 (2)
Megasphaera elsdenii DSM 20460 (2)
Roseburia intestinalis L1-82 (2)
Saccharomyces cerevisiae (2)
Xylanibacter ruminicola (2)
Oryza sativa (1)
Sus scrofa (1)
Drosophila melanogaster (1)
Enterococcus faecalis (1)
Fragaria vesca subsp. vesca (1)
Mus sp. (1)
Mycolicibacterium smegmatis MC2 51 (1)
Artemisia annua (1)
Azotobacter vinelandii (1)
Bacillus licheniformis DSM 13 = ATCC 14580 (1)
Bacteria (1)
Capsicum annuum (1)
Homo (1)
Sus scrofa domesticus (1)

Repository

biostudies-arrayexpress (36)
pride (32)
iProX (18)
MetaboLights (18)
EGA (4)
PeptideAtlas (3)
jPOST (1)

Tissue

Cell culture (4)
Others (3)
Kidney (3)
Testis (3)
Macrophage (2)
Stem cell (2)
Blood (1)
Blood cell (1)
Blood plasma (1)
Dentin (1)
Early embryonic cell (1)
Embryonic stem cell (1)
Epithelial cell (1)
Flower bud (1)
Heart (1)
Leaf (1)
Neuron (1)
Pancreas (1)
Pancreatic ductal cell (1)
Peritoneal macrophage (1)
Plant cell (1)
Primary cell (1)
Seedling (1)
Sensory ganglion (1)
Skin (1)
Sperm (1)
Synovia (1)

Disease

Alveolar soft part sarcoma (1)
Breast cancer (1)
Malaria (1)
Neuropathic pain (1)
Obesity (1)
Pancreatic cancer (1)

Technology Type

Mass Spectrometry (32)
Mass spectrometry (16)
Shotgun proteomics (10)
Affinity purification coupled with mass spectrometry proteomics (7)
Bottom-up proteomics (6)
SWATH MS (5)
Gel-based experiment (4)
Mass spectrometry assay (2)
Chemical cross-linking coupled with mass spectrometry proteomics (2)
Data-dependent acquisition (2)
Data-independent acquisition (1)
Proteogenomics (1)
SRM/MRM (1)
Top-down proteomics (1)

Instrument Platform

Liquid Chromatography MS - positive - reverse phase (9)
Liquid Chromatography MS - negative - reverse phase (8)
Liquid Chromatography MS - negative - hilic (3)
Liquid Chromatography MS - positive - hilic (3)
6540 Q-TOF LC/MS (Agilent) (2)
LTQ Orbitrap Elite (2)
Illumina HiSeq 2500 (1)
Illumina NovaSeq 6000 (1)
Liquid Chromatography MS - Negative (LC-MS (NEG)) (1)
Liquid Chromatography MS - Positive (LC-MS (POS)) (1)
Liquid Chromatography MS - alternating – hilic (1)
Liquid Chromatography MS - negative (1)
Liquid Chromatography MS - positive (1)
SYNAPT HDMS (Waters) (1)
QExactive (1)

Publication Date

2022 (13)
2021 (12)
2025 (12)
2016 (9)
2014 (9)
2026 (9)
2013 (7)
2012 (6)
2024 (6)
2019 (5)
2020 (4)
2023 (4)
2010 (3)
2018 (3)
2015 (2)
2009 (1)
2008 (1)
2005 (1)
2017 (1)

UNIPROT ID/AC

A0A024R563 (3)
A0A024R8H9 (3)
A0A024RAN2 (3)
A0A024RC46 (3)
A0A087WUD1 (3)
A0A087WVZ5 (3)
A0A087WWK8 (3)
A0A087WXI0 (3)
A0A087WZE9 (3)
A0A087X1S3 (3)
A0A0A0MR66 (3)
A0A0A0MS51 (3)
A0A0A0MSA7 (3)
A0A0B4J220 (3)
A0A0C4DG89 (3)
A0A0C4DGT3 (3)
A0AV96 (3)
A0AVT1 (3)
A0FGR8 (3)
A0FGR8-2 (3)
A0FGR8-6 (3)
A0JLT2 (3)
A0JNW5 (3)
A0MZ66 (3)
A0PJW6 (3)
A0PK00 (3)
A1A4S6 (3)
A1L0T0 (3)
A1L170 (3)
A1L390 (3)

ENSEMBL ID

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

CHEBI ID

CHEBI:16704 (10)
CHEBI:16919 (10)
CHEBI:17015 (9)
CHEBI:17154 (9)
CHEBI:17351 (9)
CHEBI:55328 (9)
CHEBI:16359 (8)
CHEBI:16750 (8)
CHEBI:17203 (8)
CHEBI:17405 (8)
CHEBI:17568 (8)
CHEBI:17748 (8)
CHEBI:18089 (8)
CHEBI:116314 (7)
CHEBI:15756 (7)
CHEBI:16015 (7)
CHEBI:16040 (7)
CHEBI:16335 (7)
CHEBI:16347 (7)
CHEBI:16467 (7)
CHEBI:17368 (7)
CHEBI:17596 (7)
CHEBI:17821 (7)
CHEBI:18344 (7)
CHEBI:27823 (7)
CHEBI:28834 (7)
CHEBI:28842 (7)
CHEBI:28875 (7)
CHEBI:48131 (7)
CHEBI:73026 (7)

Metabolite Name

Guanosine (6)
Uridine (6)
Cholic acid (5)
Creatine (5)
Hypoxanthine (5)
Taurine (5)
Thymine (5)
Uracil (5)
Urocanic acid (5)
16-Hydroxy hexadecanoic acid (4)
5-Hydroxyindoleacetic acid (4)
Adenosine (4)
Citric acid (4)
Cytidine (4)
Cytosine (4)
Deoxycholic acid (4)
Glycerophosphocholine (4)
Isonicotinic acid (4)
L-Arginine (4)
L-Carnitine (4)
L-Palmitoylcarnitine (4)
L-Proline (4)
LysoPE(16:1(9Z)/0:0) (4)
N-Acetyl-L-phenylalanine (4)
N4-Acetylcytidine (4)
Niacinamide (4)
Riboflavin (4)
Stearoylcarnitine (4)
Taurocholic acid (4)
Thymidine (4)

Study type

Transcription profiling by array (12)
RNA-seq of coding RNA (8)
Other (4)
ChIP-seq (3)
Unknown experiment type (2)
Methylation profiling by array (2)
Methylation profiling by high throughput sequencing (2)
ChIP-chip by tiling array (1)
Comparative genomic hybridization by array (1)
RNA-seq of coding RNA from single cells (1)

Release Date

2025 (353)
2022 (285)
2024 (273)
2023 (264)
2021 (231)
2020 (171)
2019 (124)
2018 (99)
2016 (87)
2017 (70)
2015 (66)
2026 (45)
2014 (44)
2013 (37)
2012 (34)
2011 (24)
2009 (13)
2010 (11)
2008 (8)
2007 (6)
2005 (3)
2006 (2)
2004 (1)
2003 (1)
2002 (1)
2001 (1)
1999 (1)
1997 (1)

Lab affiliation

Abbvie Bioresearch Center (2)
Department of Physiology & Biophysics, University of California, Irvine, Irvine, CA 92697, USA (2)
Institut für Mikrobiologie, Universität Greifswald, Felix-Hausdorff-Str. 8, 17489 Greifswald (2)
1Department of Pathophysiology, Key Laboratory of Cell Differentiation and Apoptosis of Chinese Ministry of Education, Shanghai Jiao Tong University School of Medicine (SJTU-SM), Shanghai 200025, China. 2Institute of Health Sciences, Shanghai Institutes for Biological Sciences of Chinese Academy of Sciences and SJTU-SM, Shanghai 200025, China. (1)
AbbVie Bioresearch Center (1)
BGI-Shenzhen,China (1)
Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver V5Z 1L3, Canada (1)
College of Veterinary Medicine, Shaanxi Centre of Stem Cells Engineering & Technology, Northwest A&F University, Yangling, Shaanxi, 712100, China (1)
Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology (1)
Department of Orthopedics, the Eighth Affiliated Hospital of Sun Yat-sen University, Shenzhen 518003, P.R. China (1)
Department of Pathophysiology, Key Laboratory of Cell Differentiation and Apoptosis of Chinese Ministry of Education, Rui-Jin Hospital, Shanghai Jiao Tong University School of Medicine (SJTU-SM), Shanghai 200025, China. (1)
Department of Pharmacology, Tianjin Key Laboratory of Inflammatory Biology, The Province and Ministry Co-sponsored Collaborative Innovation Center for Medical Epigenetics, Key Laboratory of Experimental Hematology, School of Basic Medical Sciences, Tianjin Medical University, Tianjin, China. (1)
Departments of Critical Care Medicine, the First Affiliated Hospital of Harbin Medical University, Harbin, Heilongjiang, 150001, China. (1)
Head of Proteomics at MRC Laboratory of Medical Sciences (1)
Institute of Agricultural Equipment, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China (1)
Institute of Blood Transfusion, Chinese Academy of Medical Sciences & Peking Union Medical College, Chengdu, China, 610052 (1)
Institutes of Biomedicine Science, Fudan University (1)
Joint International Research Laboratory of Metabolic & Developmental Sciences, Key Laboratory of Urban Agriculture (South) Ministry of Agriculture, Plant Biotechnology Research Center, Fudan-SJTU-Nottingham Plant Biotechnology R&D Center, School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai 200240, P. R. China (1)
Proteome Exploration Laboratory, California Institute of Technology, Pasadena, CA, USA (1)
R602, Institute of Biological Chemistry, Academia Sinica (1)
R602, Institute of Biological Chemistry, Academia Sinica, Taiwan (1)
Shanghai Sixth People’s Hospital Affiliated to Shanghai Jiao Tong University School of Medicine, Shanghai, China. (1)
State Key Laboratory of Microbial Technology, Shandong University, Qingdao 266237, People’s Republic of China (1)
State Key Laboratory of Reproductive Medicine and Offspring Health, Center for Reproduction and Genetics, The Affiliated Suzhou Hospital of Nanjing Medical University, Suzhou Municipal Hospital, Gusu School of Nanjing Medical University, Suzhou 215002, China (1)
State Key Laboratory of Reproductive Medicine, Nanjing Medical University (1)
Tongji University (1)
Wellcome Trust Sanger Institute (1)
Zhejiang University (1)
westlake university (1)

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Molecular mechanism of Dang-Shen-Yu-Xing decoction against Mycoplasma bovis pneumonia based on network pharmacology, molecular docking, molecular dynamics simulations and experimental verification.

Not available

S-EPMC11458528 | biostudies-literature

Subsets of visceral adipose tissue nuclei with discrete levels of 5-hydroxymethylcytosine

We explored the hypothesis that adipose tissue contains epigenetically distinct subpopulations of adipocytes that are differentially potentiated to record cellular memories of their environment. Adipocytes are large, fragile, and technically difficult to efficiently isolate and fractionate. We devel...

ORGANISM(S): Sus scrofa

2016-07-20 | E-GEOD-73684 | biostudies-arrayexpress

DNA Cytosine Hydroxymethylation Levels Are Distinct Among Peripheral Blood Leukocytes

Peripheral blood leukocytes are the most commonly used surrogates to study epigenome-induced risk and epigenomic response to disease related stress. We considered the hypothesis that the TET enzyme catalyzed hydroxymethylation of 5mC to 5hmC might vary among peripheral blood leukocytes and reflect t...

ORGANISM(S): Homo sapiens

2016-07-05 | E-GEOD-70519 | biostudies-arrayexpress

Jian-Pi-Gu-Shen-Hua-Yu Decoction Alleviated Diabetic Nephropathy in Mice through Reducing Ferroptosis.

Not available

S-EPMC10960652 | biostudies-literature

S. aureus aggregate with in human synovia

Proteomic data exploring the protein components of bacterial aggregate that formed within human synovial fluid.

ORGANISM(S): Homo sapiens (Human)

2025-11-06 | PXD060998 | Pride

Mechanism of interventional effect and targets of Zhuyu Pill in regulating and suppressing colitis and cholestasis

Zhuyu pill (ZYP) is a traditional Chinese medicine prescription composed of two drugs, Coptis chinensis Franch. and Tetradium ruticarpum (A. Jussieu) T. G. Hartley, and is commonly used in the clinical treatment of diseases of the digestive system. However, the mechanism underly...

2022-11-02 | MTBLS4980 | MetaboLights

Genome-Wide binding sites of two MADS-domain transcription factors SOC1 and SVP in Arabidopsis during the floral transition

The floral transition in Arabidopsis is tightly controlled by complex genetic regulatory networks in response to endogenous and environmental flowering signals. SUPPRESSOR OF OVEREXPRESSION OF CONSTANS 1 (SOC1) and SHORT VEGETATIVE PHASE (SVP), two key MADS-domain transcription factors, perceive the...

ORGANISM(S): Arabidopsis thaliana

2012-02-01 | E-GEOD-33297 | biostudies-arrayexpress

Oxygen-evolving photosystem II structures during S₁-S₂-S₃ transitions.

Not available

S-EPMC10866707 | biostudies-literature

A Maize Necrotic Leaf Mutant Caused by Defect of Coproporphyrinogen III Oxidase in the Porphyrin Pathway.

Not available

S-EPMC8872553 | biostudies-literature

Identification of the Active Constituents and Significant Pathways of Shen-qi-Yi-zhu Decoction on Antigastric Cancer: A Network Pharmacology Research and Experimental Validation.

Not available

S-EPMC8629626 | biostudies-literature