Ye F F - OmicsDI

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Unknown (7139)
Proteomics (158)
Transcriptomics (73)
Genomics (41)
Metabolomics (25)

Organisms

Homo sapiens (162)
Mus musculus (50)
Schizosaccharomyces pombe (9)
Schizosaccharomyces pombe 972h- (3)
Severe acute respiratory syndrome coronavirus 2 (3)
Camponotus floridanus (2)
Pseudomonas aeruginosa (2)
Bombyx mori (2)
Rattus norvegicus (2)
Sus scrofa domesticus (2)
Vibrio parahaemolyticus RIMD 2210633 (2)
Haemonchus contortus (2)
Saccharomyces cerevisiae (2)
Ruegeria pomeroyi (1)
Bursaphelenchus xylophilus (1)
Drosophila serrata (1)
Pyropia yezoensis (1)
Metallosphaera sedula (1)
Phytophthora sojae (1)
Mycobacterium tuberculosis (1)
Glycine max (1)
Ovis aries (1)
Oryza sativa Japonica Group (1)
Drosophila melanogaster (1)
Bos taurus (1)
Mus (1)
Pachycrepoideus vindemmiae (1)
Staphylococcus aureus (1)
Oryza sativa (1)
Leptobalanus humilis (1)

Organisms

Mus musculus (2)

Repository

pride (102)
biostudies-arrayexpress (94)
iProX (47)
MetaboLights (25)
EGA (18)
MassIVE (6)
PeptideAtlas (2)
ENA (2)
jPOST (1)

Tissue

Cell culture (24)
Epithelial cell (11)
Blood (5)
Fibroblast (4)
Whole body (4)
Blood plasma (3)
Brain (3)
Lung (3)
Skin (3)
Others (2)
Colon (2)
Heart (2)
Keratinocyte (2)
Macrophage (2)
Melanocyte (2)
Permanent cell line cell (2)
Primary cell (2)
T cell (2)
Adipose tissue (1)
Bark (1)
Blood serum (1)
Bone marrow stromal stem cell (1)
Cell suspension culture (1)
Diploid cell (1)
Electrically active cell (1)
Flower (1)
Haematopoietic stem cells (1)
HeLa cell (1)
HuH-7 cell (1)
Hypothalamus (1)

Disease

Disease free (4)
Prostate adenocarcinoma (3)
Severe acute respiratory syndrome (3)
COVID-19 (2)
Neuroblastoma (2)
Breast cancer (1)
Cervix carcinoma (1)
Colon cancer (1)
Cystic fibrosis (1)
Huntington Disease (1)
Inflammation (1)
Intellectual disability (1)
Multiple myeloma (1)
Periodontitis (1)

Technology Type

Mass Spectrometry (102)
Shotgun proteomics (51)
Mass spectrometry (21)
Bottom-up proteomics (20)
Affinity purification coupled with mass spectrometry proteomics (16)
Data-dependent acquisition (9)
Data-independent acquisition (6)
Gel-based experiment (6)
Top-down proteomics (6)
NMR spectroscopy (5)
SWATH MS (3)
CAPILLARY, AB 3730xL Genetic Analyzer (1)
Illumina Genome Analyzer II, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, Illumina HumanOmni5-Quad and exome sequencing, ILLUMINA (1)
Affinity proteomics (1)
Glycoproteomics (1)
Immunopeptidomics (1)
Proteogenomics (1)

Instrument Platform

Liquid Chromatography MS - positive - reverse phase (11)
Liquid Chromatography MS - negative - reverse phase (9)
Nuclear Magnetic Resonance (NMR) - (4)
Liquid Chromatography MS - positive - hilic (3)
Illumina HiSeq 2000 (2)
Q Exactive (2)
Gas Chromatography MS - (2)
Liquid Chromatography MS - Positive (LC-MS (Positive)) (2)
LTQ Orbitrap XL (2)
Axon GenePix 4000B scanning hardware (1)
Illumina NovaSeq X (1)
NextSeq 2000 (1)
NextSeq 500 (1)
6520A Quadrupole Time-of-Flight LC/MS (1)
LTQ Orbitrap (1)
Orbitrap Astral (1)
Orbitrap Exploris 480 (1)
Bruker (1)
Liquid Chromatography MS - Alternating (LC-MS (Alt)) (1)
Liquid Chromatography MS - Negative (LC-MS (Negative)) (1)
Liquid Chromatography MS - alternating - reverse phase (1)
Liquid Chromatography MS - negative - hilic (1)
MS Imaging - (1)
Matrix-assisted laser desorption-ionisation imaging MS - (1)
Ultra-High Performance Liquid Chromatography - Time Of Flight MS - Negative (UPLC-TOF MS(Negative)) (Waters) (1)
Ultra-High Performance Liquid Chromatography-Q Exactive Plus MS&MS/MS-Negative(UHPLC-MS&MS/MS(Negative))(Thermo Scientific) (1)
Xevo G2 QTOF (Waters) (1)

Publication Date

2022 (37)
2024 (31)
2023 (26)
2026 (22)
2025 (18)
2021 (18)
2014 (17)
2012 (15)
2015 (13)
2016 (12)
2013 (11)
2020 (9)
2010 (8)
2019 (7)
2011 (7)
2017 (7)
2018 (6)
2007 (5)
2008 (4)
2009 (2)
2004 (1)

UNIPROT ID/AC

A0A024RC46 (2)
A0A0A0MR66 (2)
A0A0A0MSA7 (2)
A0A0C4DG89 (2)
A0FGR8 (2)
A0FGR8-2 (2)
A0FGR8-6 (2)
A5A3E0 (2)
B1AKZ5 (2)
B4DHB3 (2)
B4DKM5 (2)
B4DRV9 (2)
B4DY08 (2)
B4E3A4 (2)
B8ZZQ6 (2)
B9VP19 (2)
E7EVA0 (2)
E7EX29 (2)
E9PAV3 (2)
G5E972 (2)
G8JLB6 (2)
H0Y612 (2)
H0YAC7 (2)
H0YFY6 (2)
H0YJH7 (2)
H0YM50 (2)
H7BXH2 (2)
I3L2J0 (2)
I3L4N8 (2)
J3KPF3 (2)

ENSEMBL ID

ENSG00000147251 (1)

CHEBI ID

CHEBI:18186 (8)
CHEBI:16449 (7)
CHEBI:16704 (7)
CHEBI:16919 (7)
CHEBI:17368 (7)
CHEBI:15354 (6)
CHEBI:15756 (6)
CHEBI:15843 (6)
CHEBI:16467 (6)
CHEBI:16811 (6)
CHEBI:17351 (6)
CHEBI:17405 (6)
CHEBI:17596 (6)
CHEBI:17750 (6)
CHEBI:17895 (6)
CHEBI:18237 (6)
CHEBI:24898 (6)
CHEBI:27266 (6)
CHEBI:27823 (6)
CHEBI:27897 (6)
CHEBI:28044 (6)
CHEBI:30769 (6)
CHEBI:15428 (5)
CHEBI:15891 (5)
CHEBI:15971 (5)
CHEBI:16347 (5)
CHEBI:16411 (5)
CHEBI:16610 (5)
CHEBI:16737 (5)
CHEBI:17295 (5)

Metabolite Name

Hypoxanthine (7)
Creatine (6)
Betaine (5)
Choline (5)
Methionine (5)
Proline (5)
Uracil (5)
Valine (5)
Adenosine (4)
Alanine (4)
Arachidonic acid (4)
Creatinine (4)
Cytosine (4)
Docosahexaenoic acid (4)
Glutamine (4)
Inosine (4)
Isoleucine (4)
L-Arginine (4)
Leucine (4)
Lysine (4)
LysoPC(17:0) (4)
LysoPC(20:2(11Z,14Z)) (4)
LysoPC(20:3(5Z,8Z,11Z)) (4)
LysoPE(18:2(9Z,12Z)/0:0) (4)
Palmitic acid (4)
Phenylalanine (4)
Spermidine (4)
Taurine (4)
Tyrosine (4)
3,4,5-Trimethoxycinnamic acid (3)

First Public Date

2025 (1)
2016 (1)

Study type

Transcription profiling by array (37)
ChIP-seq (18)
RNA-seq of coding RNA (14)
RNA-seq of non coding RNA (4)
RIP-chip by array (3)
ChIP-chip by tiling array (3)
Other (3)
Methylation profiling by high throughput sequencing (3)
ChIP-chip by array (2)
Transcription profiling by SAGE (1)
Unknown experiment type (1)
Two-color microarray (1)
Cell line - One-color microarray (1)
RNAi profiling by array (1)
RIP-seq (1)
Methylation profiling by array (1)

Release Date

2025 (1010)
2022 (939)
2023 (891)
2024 (881)
2021 (764)
2020 (593)
2019 (338)
2018 (325)
2017 (315)
2016 (252)
2015 (217)
2014 (190)
2026 (140)
2013 (102)
2012 (87)
2011 (59)
2010 (49)
2009 (25)
2008 (20)
2007 (14)
2005 (9)
2004 (4)
2006 (4)
1998 (3)
2003 (2)

Lab affiliation

1Department of Hematology, Tongji Hospital, Frontier Science Center for Stem Cell Research, Shanghai Key Laboratory of Signaling and Disease Research, School of Life Sciences and Technology, Tongji University, Shanghai, 200092, China (2)
Copenhagen Center for Glycomics, Department of Cellular and Molecular Medicine, University of Copenhagen (2)
Department of Cellular and Molecular Medicine, University of Copenhagen (2)
Huazhong Agricultural University (2)
Human Phenome Institute,Zhangjiang FudanInternational Innovation Center, Fudan UniversityShanghai, 201203, China. (2)
Wiita Lab, Department of Laboratory Medicine, University of California San Francisco, USA (2)
1 Shanghai Key Laboratory of Tuberculosis, Shanghai Pulmonary Hospital, Tongji University School of Medicine, Shanghai 200433, PR China 2 Department of Microbiology and Immunology, Tongji University School of Medicine, Shanghai 200049, PR China 3 Clinical Translation Research Center, Shanghai Pulmonary Hospital, Tongji University School of Medicine, Shanghai 200433, China. (1)
Amgen Inc. (1)
Anhui Agricultural University,China (1)
Beijing Tongren Hospital, Capital Medical University (1)
Bengbu medical college (1)
Biomolecular Mass Spectrometry and Proteomics Utrecht University The Netherlands (1)
Biomolecular Mass Spectrometry and Proteomics, Bijvoet Center for Biomolecular Research and Utrecht Institute for Pharmaceutical Sciences, Utrecht University, Padualaan 8, 3584 CH Utrecht, The Netherlands. Netherlands Proteomics Centre, Padualaan 8, 3584 CH Utrecht, The Netherlands (1)
Cell Biology Department, Harvard Medical School (1)
Center for Proteomics and Metabolomics, Leiden University Medical Center, Leiden, The Netherlands (1)
Center for Translational Research in Hematological Malignancies, Houston Methodist Neal Cancer Center, Houston Methodist Academic Institute (1)
Center of Neurodevelopmental Disorders (KIND), Centre for Psychiatry Research, Department of Women’s and Children’s Health, Karolinska Institute, Region Stockholm, Stockholm, Sweden Astrid Lindgren Children’s Hospital, Karolinska University Hospital, Region Stockholm, Stockholm, Sweden (1)
Chemical Biology & Proteomics, Discovery Sciences (1)
Chinese Academy of Medical Sciences (CAMS) & Peking Union Medical College (PUMC) (1)
College of Animal Science and Technology, China Agricultural University.College of Animal Science and Technology, China Agricultural University. (1)
College of Animal Sciences, Zhejiang University,Hangzhou, China (1)
College of Pharmacy, Anhui University of Chinese Medicine, Hefei 230012, China (1)
College of Pharmacy, Jinan University, Guangzhou, China (1)
Copenhagen Center for Glycomics (CCG), Department of Cellular and Molecular Medicine, University of Copenhagen (1)
Copenhagen Center for Glycomics (CCG), Glyco-MS Group Department of Cellular and Molecular Medicine University of Copenhagen (1)
Copenhagen Center for Glycomics, University of Copenhagen (1)
Dalian Institute of Chemical Physics, CAS (1)
Dalian medical university (1)
Department of Analytical Chemistry and CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, 201203, China (1)
Department of Biochemistry and Molecular Biology, Health Science Center, Ningbo University, Fenghua Road No.818, Ningbo, 315211, China. (1)

Tags

xref:PubMed:27576952 (1)
xref:PubMed:40054462 (1)

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Transcriptional Response of 0.1%YE-grown M. sedula cells to ferrous sulfate

(from abstract): Iron oxidation is a desirable trait of biomining microorganisms, although the mechanism is not well-understood in extreme thermoacidophiles. The complete genome sequence of the extremely thermoacidophilic archaeon Metallosphaera sedula DSM 5348 (2.2 Mb, ~2300 ORFs) provides insights...

ORGANISM(S): Metallosphaera sedula

2008-05-02 | E-GEOD-11296 | biostudies-arrayexpress

Host Preference Associated With Deoxynivalenol and Nivalenol Chemotypes in Fusarium graminearum, F. asiaticum, and F. meridionale.

Not available

S-EPMC12904605 | biostudies-literature

A Breast Cancer Stem Cell Niche Supported by Juxtacrine Signaling from Monocytes and Macrophages

Lu H, Clauser KR, Tam WL, Fröse J, Ye X, Eaton EN, Reinhart F, Donnenberg VS, Bhargava R, Carr SA, Weinberg RA, Nature Cell Biol 2014 in press

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

2014-08-04 | MSV000078799 | MassIVE

New Highly Potent NLRP3 Inhibitors: Furanochalcone Velutone F Analogues.

Not available

S-EPMC9014504 | biostudies-literature