Yu H H - OmicsDI

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Unknown (40509)
Proteomics (1167)
Transcriptomics (879)
Genomics (187)
Metabolomics (140)
Models (13)
Multiomics (7)
Genomic (1)
Other (1)

Organisms

Homo sapiens (738)
Mus musculus (257)
Arabidopsis thaliana (81)
Rattus norvegicus (32)
Drosophila melanogaster (19)
Saccharomyces cerevisiae (16)
Danio rerio (13)
Oryza sativa Japonica Group (10)
Sus scrofa (10)
Escherichia coli (9)
Oryza sativa (9)
Zea mays (9)
Glycine max (7)
Yersinia pestis (6)
cellular organisms (5)
Geobacter sulfurreducens PCA (5)
Candida albicans (5)
Gallus gallus (5)
Rattus rattus (4)
Cryptococcus neoformans (4)
Caenorhabditis elegans (4)
Thermotoga maritima MSB8 (3)
Gossypium hirsutum (3)
Populus tremula x Populus tremuloides (3)
Mycobacterium tuberculosis (3)
Rattus (2)
Boehmeria nivea (2)
Aplysia californica (2)
Helicobacter pylori 26695 (2)
Aspergillus flavus (2)

Organisms

Mus musculus (7)
Rattus norvegicus (3)
Aspergillus nidulans (1)
Haloferax volcanii (1)
Pseudomonas aeruginosa (1)
Drosophila melanogaster (1)
Saccharomyces cerevisiae (1)

Repository

biostudies-arrayexpress (933)
pride (750)
iProX (330)
MetaboLights (135)
EGA (116)
MassIVE (45)
jPOST (33)
ENA (17)
BioModels (13)
PeptideAtlas (8)
GNPS (5)
geo (2)
dbGaP (1)
GPMDB (1)
PanoramaPublic (1)

Tissue

Cell culture (181)
Brain (45)
Epithelial cell (38)
Plant cell (35)
Liver (28)
Kidney (26)
Whole body (23)
Leaf (23)
Permanent cell line cell (22)
Blood plasma (20)
Heart (19)
Testis (17)
Lung (16)
Cell suspension culture (13)
Urine (12)
Blood serum (11)
Embryonic stem cell (10)
Root (10)
Stem cell (10)
Bone marrow (9)
Embryo (9)
Spleen (9)
Fibroblast (9)
Colon (9)
Blood (9)
Hepatocyte (8)
Others (7)
HeLa cell (7)
B cell (7)
Flower (6)

Disease

Colon cancer (20)
Breast cancer (15)
Disease free (15)
Acute leukemia (13)
Prostate adenocarcinoma (8)
Cervix carcinoma (6)
Alzheimer's disease (6)
Type 2 diabetes mellitus (6)
Lymphoma (5)
Cardiovascular system disease (4)
Skin melanoma (3)
Lung carcinoma (3)
Osteosarcoma (3)
Pancreatic cancer (3)
Brain cancer (3)
Malignant neoplasm of ovary (3)
Liver cancer (3)
Normal (2)
Ovarian cancer (2)
HPV positive (1)
Benign nevi (1)
Systemic lupus erythematosus (1)
Colorectal cancer recurrence-free (1)
Mammary tumor (1)
Hypertensive (1)
S enteritidis (1)
VSV infection (1)
Healthy (1)
Acute myeloid leukemia (1)
Not Available (1)

Technology Type

Mass Spectrometry (750)
Shotgun proteomics (350)
Bottom-up proteomics (125)
Mass spectrometry (104)
Affinity purification coupled with mass spectrometry proteomics (93)
Data-dependent acquisition (80)
Gel-based experiment (51)
Data-independent acquisition (32)
Chemical cross-linking coupled with mass spectrometry proteomics (31)
Top-down proteomics (28)
SWATH MS (26)
Mass spectrometry assay (22)
Proteogenomics (11)
NMR spectroscopy (9)
SRM/MRM (7)
Mass spectrometry imaging (5)
MSE (4)
DiaPASEF (4)
Affinity proteomics (3)
Illumina HiSeq 2000 (2)
Illumina HiSeq 2000, ILLUMINA (2)
Illumina HiSeq 2000 (ILLUMINA), Illumina HiSeq 1500 (ILLUMINA) (1)
Illumina HiSeq 2000, HiSeq X Ten, Illumina HiSeq 2500, ILLUMINA (1)
Illumina HiSeq 2500, Illumina HiSeq 4000, ILLUMINA, NextSeq 500 (1)
Complete Genomics (COMPLETE_GENOMICS) (1)
Affymetrix OncoScan FFPE Express (1)
Illumina 2.5M, Illumina HiSeq 2000 (1)
AB SOLiD System 3.0 (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)

Instrument Platform

Illumina NovaSeq 6000 (30)
Illumina HiSeq 2000 (18)
Q Exactive (15)
Illumina HiSeq 4000 (9)
Illumina HiSeq 2500 (8)
Q Exactive HF (7)
Orbitrap Fusion Lumos (7)
Orbitrap Eclipse (5)
GenePix 4000A [Axon Instruments] (3)
Scanning hardware (2)
NextSeq 550 (2)
NextSeq 500 (2)
LTQ Orbitrap Velos Pro (2)
LTQ FT (2)
Agilent Bioanalyzer 2100 (or TapeStation); Qubit 4 Fluorometer (Thermo Fisher Scientific) (1)
NanoDrop ND-1000 spectrophotometer (1)
RNeasy Plant Mini Kit (Qiagen) (1)
10X Genomics Chromium (1)
Agilent Bioanalyzer 2100 (1)
Agilent Microarray Scanner (1)
Other (1)
GenePix Professional 4200A [Axon Instruments] (1)
Illumina Genome Analyzer IIx (1)
GenePix 4000B [Axon Instruments] (1)
Illumina Genome Analyzer II (1)
Nanodrop (1)
Illumina HiSeq X (1)
Illumina HiSeq 3000 (1)
MaXis (1)
Instrument (1)

Publication Date

2025 (203)
2022 (166)
2024 (144)
2021 (135)
2026 (131)
2013 (131)
2023 (130)
2020 (127)
2015 (117)
2014 (113)
2010 (104)
2012 (103)
2011 (98)
2019 (96)
2016 (92)
2008 (54)
2009 (41)
2017 (39)
2018 (37)
2007 (25)
2005 (11)
2006 (5)
2004 (2)
2003 (1)
2002 (1)

UNIPROT ID/AC

P06213 (8)
P62755 (3)
Q63484 (3)
P07522 (3)
P17858 (2)
P04075 (2)
P35739 (2)
P25427 (2)
P09467 (2)
Q9WTS1 (2)
P06238 (1)
P20961 (1)
Q71SA3 (1)
P17246 (1)
P29598 (1)
Q01177 (1)
P00749 (1)
P23443 (1)
P42345 (1)
P00747 (1)
P28028 (1)
Q8C180 (1)
P62716 (1)
P63331 (1)
Q8K4S7 (1)
D4A244 (1)
Q63768 (1)
Q4QQV2 (1)
Q64346 (1)
Q5M824 (1)

ENSEMBL ID

ENSG00000170477 (7)
ENSG00000147251 (5)
ENSG00000247315 (3)

CHEBI ID

CHEBI:16704 (45)
CHEBI:30769 (39)
CHEBI:16919 (39)
CHEBI:17596 (38)
CHEBI:17368 (38)
CHEBI:15891 (37)
CHEBI:17750 (36)
CHEBI:16335 (36)
CHEBI:16750 (36)
CHEBI:16708 (36)
CHEBI:15354 (35)
CHEBI:16040 (35)
CHEBI:17351 (34)
CHEBI:6650 (24)
CHEBI:30915 (22)
CHEBI:30887 (18)
CHEBI:17268 (18)
CHEBI:57579 (2)
CHEBI:15996 (2)
CHEBI:17552 (2)
CHEBI:28602 (2)
CHEBI:16905 (2)
CHEBI:18021 (2)
CHEBI:15946 (2)
CHEBI:49603 (1)
CHEBI:36080 (1)
CHEBI:16595 (1)
CHEBI:18035 (1)
CHEBI:18348 (1)
CHEBI:29108 (1)

Metabolite Name

Uridine (30)
Hypoxanthine (29)
Creatine (28)
Inosine (28)
Adenine (27)
Taurine (27)
Cytosine (26)
Adenosine (26)
Cytidine (26)
L-Tyrosine (25)
Betaine (24)
Uracil (23)
Creatinine (23)
Guanosine (23)
L-Phenylalanine (22)
Thymidine (22)
Linoleic acid (19)
Guanine (19)
Choline (19)
L-Glutamine (19)
L-Arginine (18)
L-Valine (18)
L-Leucine (18)
Acetylcholine (17)
Urocanic acid (17)
Glycerophosphocholine (17)
Riboflavin (17)
L-Proline (17)
Xanthine (17)
Thymine (16)

First Public Date

2025 (5)
2014 (5)
2026 (3)
2023 (1)
2021 (1)
2018 (1)
2015 (1)

Modelling Approach

Ordinary differential equation model (12)
Constraint-based model (1)

Lab affiliation

J. Craig Venter Institute, Rockville, MD 20850 (7)
The Institute of Cancer Research (7)
Wellcome Trust Sanger Institute (6)
Department of Convergence Medicine, Convergence Medicine Research Center/Biomedical Research Center, Asan Medical Center, Asan Institute for Life Sciences, University of Ulsan College of Medicine, 88 Olympic-ro 43-gil, Songpa-gu, Seoul 05505, Republic of Korea. (5)
Ocean University of China (5)
Zhejiang University (5)
1 Department of Cardiac Surgery, Fujian Medical University Union Hospital, Fuzhou, China 2 Department of Toxicology, Fujian Center for Evaluation of New Drug, Fujian Medical University, Fuzhou, China (4)
Alkali Soil Natural Environmental Science Center, Northeast Forestry University, Key Laboratory of Saline-alkali Vegetation Ecology Restoration in Oil Field, Ministry of Education, Harbin 150040, China (4)
Center of Molecular and Cellular Oncology, Yale University (4)
School of Food and Biological Engineering, Hefei University of Technology, Hefei, 230009, China (4)
Department of Cell and Molecular Biology, College of Medicine, Chang Gung University, Taoyuan, Taiwan (4)
Tsinghua University, China (4)
Peking University (4)
State Key Laboratory of Oncology in South China, Collaborative Innovation Center for Cancer Medicine, Guangdong Key Laboratory of Nasopharyngeal Carcinoma Diagnosis and Therapy, Sun Yat-sen University Cancer Center, Guangzhou 510060, China (3)
Yazhouwan National Laboratory, Sanya 572024, China (3)
School of Life Sciences, The Chinese University of Hong Kong (3)
Department of Structural Biology and Developmental Neurobiology, Center for Proteomics and Metabolomics, St. Jude Children's Research Hospital, Memphis, TN 38105, USA (3)
Key Laboratory of Dairy Biotechnology and Engineering, Ministry of Education, Inner Mongolia Agricultural University, China (3)
State Key Laboratory of Biocatalysis and Enzyme Engineering, School of Life Sciences, Hubei University, Wuhan,Hubei 430062, China (3)
Department of Immunology, College of Basic Medical Science, China Medical University, Shenyang, Liaoning 110122, China (3)
St. Jude Children’s Research Hospital (3)
Shandong Provincial Key Laboratory of Applied Mycology, College of Life Sciences, Qingdao Agricultural University, China (3)
State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing 100193, China (2)
Department of Physiology & Biophysics, University of California, Irvine, Irvine, California, USA (2)
Division of Life Science, The Hong Kong University of Science and Technology, Hong Kong SAR, China (2)
Department of Proteomics and Signal Transduction, Systems Biology of Membrane Trafficking Research Group, Max-Planck Institute of Biochemistry, Martinsried, Germany (2)
Durbrain (2)
Shanghai Institute of Thoracic Oncology, Shanghai Chest Hospital, Shanghai Jiao Tong University, Shanghai 200030 (2)
Department of Clinical Microbiology, Sahlgrenska University Hospital, Gothenburg, Sweden (2)
Key Laboratory of Molecular Epigenetics of Ministry of Education (MOE), Northeast Normal University, Changchun, China. (2)

IsPrivate

False (13)

Submitter Keywords

FROG (1)

Classification

fungi (1)
bacteria (1)

Modification

15.994915 (3)
57.021464 (3)
0.984016 (2)
-17.026549 (2)
42.010565 (2)
4x(2)H labeled dimethylated L-lysine (2)
27.994915 (1)
31.989829 (1)
Not available (1)

Study type

Transcription profiling by array (546)
RNA-seq of coding RNA (163)
ChIP-seq (39)
RNA-seq of non coding RNA (22)
Other (18)
Methylation profiling by array (17)
RNA-seq of coding RNA from single cells (16)
Unknown experiment type (15)
Comparative genomic hybridization by array (15)
Transcription profiling by tiling array (14)
Methylation profiling by high throughput sequencing (14)
ChIP-chip by tiling array (11)
MicroRNA profiling by array (6)
Transcription profiling by SAGE (5)
ChIP-chip by array (3)
RNA-seq of total RNA (3)
Animal - One-color microarray (2)
Human - Single-cell sequencing (2)
Cell line - One-color microarray (2)
High-throughput sequencing (2)
Genotyping by array (2)
Transcription profiling by RT-PCR (2)
Cell line - Single-cell sequencing (1)
RNA-seq of non coding RNA from single cells (1)
Differential (1)
Human - High-throughput sequencing (1)
Plant - High-throughput sequencing (1)
Human - One-color microarray (1)
Animal - High-throughput sequencing (1)
RNAi profiling by array (1)

Release Date

2025 (6062)
2022 (5520)
2023 (4859)
2024 (4794)
2021 (4231)
2020 (3099)
2019 (2171)
2018 (1924)
2017 (1725)
2016 (1413)
2015 (1187)
2014 (928)
2026 (815)
2013 (623)
2012 (524)
2011 (455)
2010 (363)
2009 (272)
2008 (209)
2007 (95)
2006 (50)
2005 (41)
2004 (27)
2002 (16)
2003 (11)
2001 (8)
2000 (7)
1998 (5)
1999 (4)

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Transcriptomics of Bacillus thuringiensis Strain CT-43.

We investigated the gene expression and metabolic regulatory mechanisms associated with the high-level accumulation of ICPs by performing the transcriptomics analysis of B. thuringiensis strain CT-43, using Illumina high throughout sequencing (RNA-seq) technique. The bacterial cells were collected a...

ORGANISM(S): Bacillus thuringiensis

2013-04-17 | E-GEOD-39479 | biostudies-arrayexpress

H. pylori 26695: wild-type vs nitro-oxide (NO) treated; knockout-crdS in H. pylori 26695 vs knockout-crdS with NO treatment

There are two transcription profiles. The first profiling is comparing control untreated H. pylori with H. pylori with NO treatment. And the second profiling is comparing knockout-crdS in H. pylori untreated with knockout-crdS with NO treatment. The goal was determine the effects of NO-responsive ge...

ORGANISM(S): Helicobacter pylori 26695

2015-06-13 | E-GEOD-69846 | biostudies-arrayexpress

Proteomics analysis of Hypsizygus marmoreus

Hypsizygus marmoreus is one of the most popular industrialized cultivation mushrooms in East Asia. H. marmoreus is the third wildly cultivated industrialized cultivated mushroom in China now behind only Flammulina velutipes and Pleurotus eryngii. H. marmoreus is a low-temperature fruiting mushroom. ...

ORGANISM(S): Hypsizygus marmoreus

2020-12-14 | PXD017654 | Pride

Expression data from Colossolactone H treated H1650 cells

Ganoderma colossum (Fr.) Baker, a white rot fungus distributed in tropical and subtropical forests, is a rare Ganoderma mushroom belonging to the family Ganodermataceae. In Asia, the fruiting body of G. colossum has been used as tonics or as folk medicine for a variety of illnesses, including malign...

ORGANISM(S): Homo sapiens

2016-06-10 | E-GEOD-83161 | biostudies-arrayexpress

Rational Development of Remote C-H Functionalization of Biphenyl: Experimental and Computational Studies.

Not available

S-EPMC7064431 | biostudies-literature

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

Prenatal Dexamethasone and Postnatal High-Fat Diet Decrease Interferon Gamma Production through an Age-Dependent Histone Modification in Male Sprague-Dawley Rats.

Not available

S-EPMC5085643 | biostudies-literature

Large spatial extension of the zero-energy Yu-Shiba-Rusinov state in a magnetic field.

Not available

S-EPMC7156378 | biostudies-literature

Crystal structure and Hirshfeld surface analysis of 6-amino-8-(2,6-di-chloro-phen-yl)-1,3,4,8-tetra-hydro-2H-pyrido[1,2-a]pyrimidine-7,9-dicarbo-nitrile.

Not available

S-EPMC8100256 | biostudies-literature

How does Mei-yu precipitation respond to climate change?