Yin D D - OmicsDI

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Unknown (7833)
Transcriptomics (940)
Proteomics (266)
Genomics (122)
Metabolomics (46)
Other (5)
Multiomics (3)
Models (1)
Genomic (1)

Organisms

Homo sapiens (420)
Mus musculus (294)
Saccharomyces cerevisiae (76)
Rattus norvegicus (33)
Escherichia coli (28)
Mycobacterium tuberculosis (14)
Candida albicans (13)
Drosophila melanogaster (10)
Streptococcus pneumoniae (9)
Escherichia coli str. K-12 substr. MG1655 (9)
Pseudomonas aeruginosa (9)
Arabidopsis thaliana (9)
Schizosaccharomyces pombe (8)
Danio rerio (8)
Gallus gallus (7)
Caenorhabditis elegans (6)
Bos taurus (6)
Francisella tularensis (5)
Bacillus subtilis (5)
Oryza sativa (5)
Caulobacter vibrioides (4)
Yersinia pestis (4)
Salmonella enterica subsp. enterica serovar Typhimurium (4)
Pseudomonas aeruginosa PAO1 (4)
Enterococcus faecalis (4)
Citrus limonia (3)
Campylobacter jejuni subsp. jejuni NCTC 11168 = ATCC 700819 (3)
Dictyostelium discoideum (3)
Macaca mulatta (3)
Aspergillus fumigatus (3)

Organisms

Homo sapiens (4)
Mus musculus (4)

Repository

biostudies-arrayexpress (1017)
pride (150)
MassIVE (53)
iProX (46)
MetaboLights (46)
EGA (33)
ENA (14)
jPOST (13)
geo (4)
PAXDB (4)
GPMDB (3)
BioModels (1)
dbGaP (1)

Tissue

Cell culture (43)
Epithelial cell (10)
Liver (8)
Brain (6)
Heart (6)
Kidney (6)
Leaf (6)
Whole body (6)
Hepatocyte (5)
T cell (4)
Blood (3)
Blood serum (3)
Early embryonic cell (3)
Epithelial cell of prostate (3)
Lung (3)
Primary cell (3)
Prostate adenocarcinoma cell line (3)
Skin (3)
Urine (3)
Colon (2)
Colonic mucosa (2)
Dendritic cell (2)
Permanent cell line cell (2)
Photosynthetic cell (2)
Spleen (2)
Tendon (2)
B cell (1)
HEK-293T cell (1)
IgG short lived plasma cell (1)
MIN6-N8 cell (1)

Disease

Cardiovascular system disease (5)
Normal (3)
Breast cancer (3)
Not Available (3)
Acute leukemia (3)
Colon cancer (3)
Prostate carcinoma (3)
Lung cancer (2)
Type 1 diabetes mellitus (2)
Respiratory syncytial virus infection (1)
EAE-resistant (1)
Glioma (1)
Infected with Influenza A/WSN/33 (H1N1) (1)
Xenografts with H1299 cell line (1)
Colon cancer metastasis (1)
Not infected (1)
Resistant (1)
Acute promyelocytic leukemia (1)
Osteosarcoma (1)
Breast carcinoma (1)
Atherosclerosis (1)
Autism spectrum disorder (1)
Brain cancer (1)
COVID-19 (1)
Cervix carcinoma (1)
Chronic bronchitis (1)
Chronic lymphocytic leukemia (1)
Dilatation of the ascending aorta (1)
Dilated cardiomyopathy (1)
Disease free (1)

Technology Type

Mass Spectrometry (150)
Shotgun proteomics (79)
Mass spectrometry (37)
Bottom-up proteomics (30)
Affinity purification coupled with mass spectrometry proteomics (13)
Gel-based experiment (13)
Data-dependent acquisition (12)
Mass spectrometry assay (9)
Data-independent acquisition (7)
SWATH MS (5)
Mass spectrometry imaging (3)
Top-down proteomics (3)
Affinity proteomics (2)
Chemical cross-linking coupled with mass spectrometry proteomics (2)
SRM/MRM (2)
Illumina HiSeq 2500 (1)
Illumina HiSeq 2500, ILLUMINA, Illumina HiSeq 2000 (1)

Instrument Platform

Illumina HiSeq 2000 (21)
NextSeq 500 (16)
Illumina NovaSeq 6000 (14)
Illumina HiSeq 2500 (11)
Illumina HiSeq 4000 (7)
Illumina MiSeq (6)
GenePix 4000B [Axon Instruments] (4)
Other (3)
Illumina HiSeq 1500 (3)
G2500A GeneArray scanner [Agilent Technologies] (2)
GenePix Professional 4200A [Axon Instruments] (2)
Illumina Genome Analyzer II (2)
Illumina NovaSeq X (2)
Illumina HiSeq 3000 (2)
BD FACSAria™ III (1)
DNBSEQ-G50 (1)
Bioinformatics Core Facility, Centre for Molecular Medicine, CEITEC Masaryk University (1)
Cell culture laboratory, BSL-3 lab (1)
Library preparation kit (1)
RNA isolation laboratory (1)
BSL-3 laboratory (1)
Desktop (1)
GenePix4000B (1)
DNA microarray scanner (Agilent #G2565CA) (1)
IScan Illumina (1)
Ion Chef™ System and Ion S5™ System or Ion GeneStudio™ S5 Systems. (1)
Affymetrix GeneChip Scanner 3000 7G (1)
454 GS FLX+ (1)
ScanArray Lite [PerkinElmer] (1)
HP GeneArray [Affymetrix/HP] (1)

Publication Date

2010 (156)
2012 (139)
2013 (122)
2011 (114)
2014 (101)
2015 (81)
2008 (70)
2022 (60)
2016 (58)
2023 (54)
2024 (50)
2025 (47)
2021 (46)
2009 (45)
2017 (34)
2020 (33)
2026 (31)
2007 (30)
2018 (22)
2019 (16)
2005 (11)
2006 (10)
2004 (1)

UNIPROT ID/AC

1433B_HUMAN (3)
1433F_HUMAN (3)
1433G_HUMAN (3)
1433S_HUMAN (3)
1433T_HUMAN (3)
1433Z_HUMAN (3)
2A5A_HUMAN (3)
2A5B_HUMAN (3)
2A5D_HUMAN (3)
2A5E_HUMAN (3)
2A5G_HUMAN (3)
2AAA_HUMAN (3)
2AAB_HUMAN (3)
2ABA_HUMAN (3)
2ABB_HUMAN (3)
2ABD_HUMAN (3)
2ABG_HUMAN (3)
3BP1_HUMAN (3)
3BP5L_HUMAN (3)
3HAO_HUMAN (3)
3HIDH_HUMAN (3)
3MG_HUMAN (3)
41_HUMAN (3)
4EBP1_HUMAN (3)
4EBP2_HUMAN (3)
4ET_HUMAN (3)
4F2_HUMAN (3)
5HT1A_HUMAN (3)
5HT1B_HUMAN (3)
5HT2A_HUMAN (3)

CHEBI ID

CHEBI:30769 (12)
CHEBI:16335 (11)
CHEBI:16708 (11)
CHEBI:16750 (11)
CHEBI:17596 (11)
CHEBI:28044 (11)
CHEBI:15741 (10)
CHEBI:15756 (10)
CHEBI:15891 (10)
CHEBI:16865 (10)
CHEBI:17351 (10)
CHEBI:15971 (9)
CHEBI:16027 (9)
CHEBI:16411 (9)
CHEBI:16680 (9)
CHEBI:17295 (9)
CHEBI:17368 (9)
CHEBI:17509 (9)
CHEBI:17752 (9)
CHEBI:17895 (9)
CHEBI:18012 (9)
CHEBI:28842 (9)
CHEBI:30805 (9)
CHEBI:7916 (9)
CHEBI:16015 (8)
CHEBI:17154 (8)
CHEBI:17562 (8)
CHEBI:17750 (8)
CHEBI:17929 (8)
CHEBI:50211 (1)

Metabolite Name

Adenine (17)
Guanosine (14)
Adenosine (13)
Inosine (13)
Hypoxanthine (12)
Cytidine (11)
Lysine (11)
Uracil (11)
Betaine (10)
Riboflavin (10)
Taurine (10)
Choline (9)
Cytosine (9)
Deoxyinosine (9)
L-Phenylalanine (9)
Nicotinamide (9)
Oxypurinol (9)
4-Guanidinobutyric acid (8)
Alanine (8)
Creatine (8)
Creatinine (8)
Glycerophosphocholine (8)
Glycine (8)
Guanine (8)
N-Acetylneuraminic acid (8)
N-Acetylputrescine (8)
N1-Methyl-2-pyridone-5-carboxamide (8)
Ornithine (8)
Palmitic acid (8)
Phenylalanine (8)

First Public Date

2018 (6)
2022 (2)
2017 (2)
2016 (2)
2025 (1)
2023 (1)

Modelling Approach

Differential equation model (1)

Lab affiliation

CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (3)
Shenzhen People’s Hospital (3)
1) Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA 2) Proteomics Core Facility, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA 3) Metabolomics Core Facility, Department of Bioinformatics and Computational Biology, The University of Texas MD Anderson Cancer Center (MDACC), Houston, TX 77030, USA (2)
CRUK Beatson Institute (2)
College of Horticulture, Northwest A&F University (2)
College of Pharmacy, Jinan University, Guangzhou, China (2)
Georgia State University (2)
Mayo Clinic, Department of Oncology (2)
Pacific Northwest National Laboratory (2)
Peking University (2)
School of Pharmaceutical Sciences, Sun Yat-sen University, Guangzhou, 510006, Guangdong, P.R. China. (2)
Sequence database group (2)
Shanghai Institute of Rheumatology, Renji Hospital, Shanghai Jiao Tong University School of Medicine (SJTUSM) (2)
The University of Melbourne (2)
Analytics Core Facility Essen (ACE), Chemische Biologie, Universität Duisburg-Essen, ZMB, Germany (1)
Assistant Professor Department of Neurology (1)
Assistant Professor of Microbiology, Immunology, and Cancer Biology Associate Director for Diversity, Equity, and Inclusio at the Carter Immunology Center University of Virginia Charlottesville, VA (1)
Baylor College of Medicine (1)
Biochemistry and Molecular Biology, Michael Smith Laboratories, University of British Columbia, Canada (1)
Biomolecular Mass Spectrometry and Proteomics, Utrecht University, Utrecht, The Netherlands (1)
CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences, Guangzhou, China (1)
CAS Key Laboratory of Tropical Marine Bio-resources and Ecology, South China Sea Institute of Oceanology, Chinese Academy of Sciences,Guangzhou, China (1)
CVRTI, University of Utah (1)
CVRTI, University of Utah (lab head) (1)
Cancer Institute, Fudan University Shanghai Cancer Center (1)
Cardiovascular Division, King's College London, London, UK (1)
Chinese Academy of Medical Science (CAMS) Oxford Institute (COI), University of Oxford; Oxford, U.K.; 3MRC Human Immunology Unit, MRC Weatherall Institute of Molecular Medicine, Radcliffe Department of Medicine, University of Oxford; Oxford, U.K. (1)
City of Hope medical centre, Diabetes Institute (1)
College of Animal Sciences and Technology, Huazhong Agricultural University, China (1)
College of Marine Science and Engineering, Nanjing Normal University, Nanjing 210023, China (1)

IsPrivate

False (1)

Modification

Not available (3)
4-tetrahydrothiazine-3-carboxylic acid (1)

Study type

Transcription profiling by array (595)
RNA-seq of coding RNA (104)
Transcription profiling by RT-PCR (65)
ChIP-seq (63)
Other (41)
Unknown experiment type (35)
RNA-seq of non coding RNA (15)
Transcription profiling by tiling array (13)
Methylation profiling by array (11)
Comparative genomic hybridization by array (10)
High-throughput sequencing (9)
ChIP-chip by tiling array (8)
Methylation profiling by high throughput sequencing (7)
RNA-seq of coding RNA from single cells (6)
DNA-seq (4)
RNA-seq of total RNA (4)
Animal - High-throughput sequencing (3)
ChIP-chip by array (3)
RNAi profiling by array (2)
Genotyping by array (2)
Transcription profiling by SAGE (1)
Cell line - Single-cell sequencing (1)
Baseline (1)
CLIP-Seq (1)
Human - High-throughput sequencing (1)
Antigen profiling (1)
Bisulfite-seq (1)
ATAC-seq (1)
Hi-C (1)
RIP-seq (1)

Release Date

2025 (1201)
2022 (1056)
2023 (959)
2024 (910)
2021 (856)
2020 (611)
2019 (461)
2018 (345)
2017 (345)
2016 (317)
2015 (277)
2014 (265)
2012 (229)
2013 (226)
2010 (193)
2011 (174)
2026 (164)
2008 (102)
2009 (83)
2007 (33)
2005 (18)
2006 (14)
2004 (4)
2003 (2)
2002 (2)
2000 (2)
2001 (1)

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Regulation of the Endocytosis and Prion Chaperoning Machineries by Yeast E3 Ubiquitin Ligase Rsp5 as Revealed by Orthogonal Ubiquitin Transfer

Attachment of the ubiquitin (UB) peptide to proteins via the E1-E2-E3 enzymatic machinery regulates diverse biological pathways, yet identification of the substrates of E3 UB ligases remains a challenge. We overcame this challenge by constructing an “orthogonal UB transfer (OUT) cascade with yeast E...

ORGANISM(S): Saccharomyces cerevisiae (Baker's yeast)

2022-10-13 | PXD023688 | Pride

Ubiquitin Lc-ms/ms

D. shibae luxI1

This SuperSeries is composed of the following subset Series: GSE42010: Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones GSE42011: Cell-density resolved comparative analysis of D. shibae wild-type vs. delta-luxI1 GSE42012: Cell-den...

ORGANISM(S): Dinoroseobacter shibae DFL 12

2012-11-03 | E-GEOD-42013 | biostudies-arrayexpress

Transcription profiling of mouse white adipose tissue from PPARb/d knockout

Analysis of white adipose tissue of PPARb/d knockout mice. Data may point towards putative target genes of PPARb/d and thus the function of PPARb/d in white adipose tissue. Datasets were used to identify glycogen synthase 2 as novel PPAR target. Experiment Overall Design: Three month old male PPARb/...

ORGANISM(S): Mus musculus

2008-06-16 | E-GEOD-8344 | biostudies-arrayexpress

Genes expression profiles of postmenopausal osteoporosis with kidney Yin deficiency

Investigate genes expression profiles of postmenopausal osteoporosis with kidney Yin deficiency in peripheral blood By TCM syndrome, 10 patients with postmenopausal osteoporosis were divided into three groups: kidney Yin deficiency (n=4), kidney Yang deficiency (n=3), non-kidney deficiency (n=3), a...

ORGANISM(S): Homo sapiens

2014-03-23 | E-GEOD-56116 | biostudies-arrayexpress

Gene expression profiles of Liuwei Dihuang Pill treatment postmenopausal osteoporosis with kidney Yin deficiency

Investigate gene expression profiles of Liuwei Dihuang Pill treatment postmenopausal osteoporosis with kidney Yin deficiency in peripheral blood Liuwei Dihuang Pill (LDP), a classic Chinese medicinal formula, has been used to treat PMO with kidney YIN deficiency for three months. Whole human genome ...

ORGANISM(S): Homo sapiens

2014-05-06 | E-GEOD-57273 | biostudies-arrayexpress

Comparative analysis of D. shibae wild-type vs. delta-luxI1 supplemented with different acetylated homoserine-lactones

Comparison of a quorum sensing null mutant supplemented with C18-HSL, C18en-HSL, C18dien-HSL with D. shibae wild-type in order to identify traits induced by distinct autoinducers in this organism. Loop-design, two to three biological replicates of D. shibae wild-type, delta-luxI1 and delta-luxI1 sup...

ORGANISM(S): Dinoroseobacter shibae DFL 12

2012-11-03 | E-GEOD-42010 | biostudies-arrayexpress

mRNA and sRNA Transcriptomes Reveal Insights into Dynamic Homoeolog Regulation for Allopolyploid Heterosis in Nascent Hexaploid Wheat

Nascent allohexaploid wheat may represent the initial genetic state for the evolution and domestication of common wheat, which arose by combining the AB genomes of tetraploid Triticum turgidum with the D genome from Aegilops tauschii and out-competed its parents in growth vigor and adaptability. To ...

ORGANISM(S): Triticum dicoccon

2014-10-20 | E-GEOD-56587 | biostudies-arrayexpress

Brown Adipose YY1 Deficiency Activates Expression of Secreted Proteins Linked to Energy Expenditure and Prevents Diet-Induced Obesity [IWAT]

Analysis of subcutaneous adipose tissue (IWAT) from Yin Yang 1 brown fat specific knockout mice fed a high fat diet for 2 weeks. The goal was to identify a gene signature of IWAT browning in YY1 mutant mice. Control mice YY1flox/flox versus YY1flox/flox; Ucp1Cre were fed a high fat diet for 2 weeks

ORGANISM(S): Mus musculus

2015-11-10 | E-GEOD-68382 | biostudies-arrayexpress

Brown fat-specific YY1 deficiency effect on subcutaneous white adipose tissue

Analysis of visceral white adipose tissue (EWAT) from Yin Yang 1 adipose-specific knockout mice exposed to cold (4ºC) for 4 days. Control mice YY1flox/flox versus YY1flox/flox; Adiponectin Cre were cold exposed for 4 days.

ORGANISM(S): Mus musculus

2015-11-10 | E-GEOD-70562 | biostudies-arrayexpress

Brown Adipose YY1 Deficiency Activates Expression of Secreted Proteins Linked to Energy Expenditure and Prevents Diet-Induced Obesity [BAT]

Analysis of brown adipose tissue from Yin Yang 1 (YY1) brown fat specific knockout mice fed a high fat diet for 3 months. YY1 deficiency in brown adipose tissue leads to strong thermogenic deficiency. The goal was to identify the genes controlled by YY1 responsible of brown fat defective function. C...

ORGANISM(S): Mus musculus

2015-11-10 | E-GEOD-68429 | biostudies-arrayexpress

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9218 Results

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