Chen R R - OmicsDI

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Unknown (64810)
Transcriptomics (1701)
Proteomics (1514)
Genomics (424)
Metabolomics (278)
Multiomics (24)
Models (16)
Other (7)
Genomic (4)
Methylation profiling (1)

Organisms

Homo sapiens (1182)
Mus musculus (526)
Rattus norvegicus (93)
Arabidopsis thaliana (79)
Drosophila melanogaster (59)
Caenorhabditis elegans (41)
Schizosaccharomyces pombe (27)
Oryza sativa (21)
Saccharomyces cerevisiae (20)
Gallus gallus (19)
Zea mays (15)
Danio rerio (15)
Glycine max (12)
Macaca mulatta (10)
Sus scrofa (10)
Oryza sativa Japonica Group (9)
Apostichopus japonicus (8)
Canis lupus familiaris (8)
Triticum aestivum (8)
Drosophila simulans (6)
Oryza sativa Indica Group (6)
Drosophila yakuba (5)
Apis mellifera (5)
Citrus sinensis (5)
Hordeum vulgare (5)
Populus simonii (4)
Vesicular stomatitis virus (3)
Oryctolagus cuniculus (2)
cellular organisms (2)
Severe acute respiratory syndrome coronavirus 2 (2)

Organisms

Homo sapiens (14)
Mus musculus (10)
Arabidopsis thaliana (2)
Rattus norvegicus (2)
Agrobacterium sp. 31749 (1)
Yersinia pestis (1)
Porphyromonas gingivalis (1)
Measles morbillivirus (1)
Populus x canadensis (1)
Zika virus (1)
Oncorhynchus mykiss (1)
air metagenome (1)
gut metagenome (1)
Zea mays subsp. mays (1)

Repository

biostudies-arrayexpress (1879)
pride (1044)
iProX (291)
MetaboLights (269)
EGA (195)
MassIVE (110)
ENA (46)
PeptideAtlas (33)
jPOST (18)
BioModels (16)
geo (15)
GNPS (9)
PanoramaPublic (8)
GPMDB (7)
dbGaP (4)
LINCS (3)
PAXDB (3)

Tissue

Cell culture (252)
Epithelial cell (87)
Brain (54)
Liver (40)
Lung (31)
Permanent cell line cell (31)
Blood plasma (27)
Leaf (27)
Plant cell (23)
Heart (22)
Testis (22)
Blood (20)
Blood serum (19)
B cell (18)
Others (16)
Whole body (16)
Spleen (16)
Kidney (16)
Plasma Non-glyco (14)
Hepatocyte (14)
Early embryonic cell (13)
Macrophage (13)
Cell suspension culture (13)
Colon (13)
Blood cell (12)
T cell (12)
Root (11)
Fibroblast (11)
Male Reproductive System (2)
Brain (1)

Disease

Disease free (38)
Breast cancer (28)
Colon cancer (16)
Acute leukemia (13)
Non-small cell lung carcinoma (8)
Type 2 diabetes mellitus (8)
Not Available (7)
Prostate adenocarcinoma (7)
Cervix carcinoma (7)
Melanoma (6)
COVID-19 (6)
Prostate cancer (4)
Alzheimer's disease (3)
Astrocytoma (1)
HPV positive (1)
Hepatocellular carcinoma-non tumorous region (1)
Embryonic lethal at day 8.5 to 9.5 (1)
Diffuse large B-cell lymphoma (1)
Metastatic prostate cancer (1)
Infiltrating ductal carcinoma (1)
Ductal breast cancer (1)
Pancreatic tumor (1)
None- acute control (1)
Leukemia (1)
Small cell lung carcinoma (1)
Midgut carcinoid liver metastasis (1)
Megakaryoblastic leukemia (1)
Non-small cell lung cancer (1)
None- Acute Control (1)
Normal (1)

Technology Type

Mass Spectrometry (1044)
Shotgun proteomics (508)
Bottom-up proteomics (203)
Mass spectrometry (202)
Affinity purification coupled with mass spectrometry proteomics (104)
Data-dependent acquisition (102)
Mass spectrometry assay (57)
Illumina HiSeq 2000 (12)
NMR spectroscopy (11)
ELISA (3)
Chemiluminescence (3)
ILLUMINA, Illumina HiSeq 4000, Illumina HiSeq 2500 (1)
Illumina HiSeq 2500, ILLUMINA (1)
ILLUMINA, Illumina HiSeq 2500 (1)
CAPILLARY, AB 3730xL Genetic Analyzer (1)
Illumina HiSeq 2000, Illumina HumanOmni2-5M-8v1-1_B (1)
Illumina HiSeq 2000, Affymetrix SNP 6.0 (1)
AB 5500 Genetic Analyzer, Ion Torrent PGM (1)
Illumina HiSeq 2000, unknown (1)
Illumina HiSeq 1000, Ion Torrent PGM, Illumina Genome Analyzer IIx (1)
Illumina HiSeq 2000, Affymetrics_SNP_6.0-, Illumina Genome Analyzer IIx (1)
ZCall, HumanExome_12v1.1_A -GenCall (1)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, Illumina HumanOmni2-5_8v1_A (1)
HumanOmniExpress-12 v1.1 BeadChip-GenCall (1)
Affymetrix_U133v2, Illumina HiSeq 2000 (1)
Illumina HiSeq 2000, Illumina HiSeq 2000 (ILLUMINA) (1)
Illumina HiSeq 2500 (1)
Life Tech - Solid (1)
Illumina Genome Analyzer II (1)

Instrument Platform

Illumina NovaSeq 6000 (34)
Illumina HiSeq 2000 (24)
Illumina HiSeq 2500 (20)
Illumina HiSeq 4000 (13)
NextSeq 500 (8)
Axon GenePix 4000B scanning hardware (6)
BGISEQ-500 (5)
NextSeq 550 (4)
Illumina Genome Analyzer II (3)
Illumina MiSeq (3)
AB SOLiD 5500 (2)
High resolution C. scanner (2)
Illumina Genome Analyzer (2)
Illumina Genome Analyzer IIx (2)
DNBSEQ-T7 (2)
HiSeq X Ten (2)
Illumina HiSeq 2000 platform (1)
BD FACSAria™ III (1)
BGIseq500 (1)
BD FACSMelody (1)
Dell T8310 (1)
FACS (1)
Agilent 2100 bioanalyzer (1)
NanoDrop ND-1000 (1)
Affymetrix Array scanner (1)
Affymetrix hybridization station (1)
IScan (Illumina) (1)
BD FACSAria III (1)
Becton Dickinson INFLUX (1)
Affymetrix Genechip Command Console software (1)

Publication Date

2014 (272)
2010 (261)
2012 (256)
2025 (254)
2013 (253)
2022 (237)
2023 (228)
2015 (208)
2024 (207)
2026 (207)
2011 (207)
2021 (177)
2016 (155)
2020 (130)
2019 (87)
2017 (83)
2009 (74)
2018 (73)
2008 (64)
2005 (45)
2007 (42)
2006 (24)
2004 (18)
2003 (4)
2027 (1)

UNIPROT ID/AC

I1JBY6_SOYBN (2)
I1MV75_SOYBN (2)
K7MRI2_SOYBN (2)
I1N7R4_SOYBN (2)
P38987 (1)
P08153 (1)
P11938 (1)
P06700 (1)
P38698 (1)
P40316 (1)
P47035 (1)
P11746 (1)
P40958 (1)
P07866 (1)
Q03018 (1)
P13365 (1)
P20438 (1)
P20437 (1)
P53197 (1)
P09119 (1)
P26309 (1)
P27636 (1)
Q00684 (1)
P32943 (1)
P30283 (1)
P24869 (1)
P38634 (1)
P24868 (1)
P26448 (1)
P33306 (1)

ENSEMBL ID

ENSG00000170477 (22)
ENSG00000247315 (9)
ENSG00000147251 (7)
ENSG00000229353 (6)
ENSG00000214897 (2)
ENSG00000204131 (1)

CHEBI ID

CHEBI:17368 (69)
CHEBI:30769 (66)
CHEBI:16704 (65)
CHEBI:16335 (62)
CHEBI:17596 (61)
CHEBI:17568 (59)
CHEBI:16708 (58)
CHEBI:17154 (58)
CHEBI:16750 (55)
CHEBI:15741 (55)
CHEBI:16919 (54)
CHEBI:15891 (52)
CHEBI:17895 (52)
CHEBI:7916 (51)
CHEBI:15354 (51)
CHEBI:17295 (51)
CHEBI:15756 (51)
CHEBI:17562 (50)
CHEBI:17750 (48)
CHEBI:15428 (47)
CHEBI:18050 (46)
CHEBI:16737 (46)
CHEBI:16828 (46)
CHEBI:6650 (45)
CHEBI:17821 (45)
CHEBI:16235 (45)
CHEBI:17203 (45)
CHEBI:16015 (45)
CHEBI:144829 (1)
CHEBI:36080 (1)

Metabolite Name

Hypoxanthine (65)
Creatine (60)
Adenosine (55)
Uracil (53)
Inosine (52)
Adenine (51)
Uridine (51)
Cytidine (49)
Taurine (48)
Guanosine (48)
Guanine (47)
Creatinine (47)
L-Tyrosine (46)
Betaine (45)
L-Phenylalanine (45)
Choline (44)
Thymine (43)
L-Arginine (43)
Xanthine (43)
L-Histidine (42)
Thymidine (41)
L-Glutamine (39)
Xanthosine (38)
Spermidine (38)
Indole (37)
Cytosine (37)
Riboflavin (37)
L-Tryptophan (37)
Citric acid (36)
Ornithine (35)

First Public Date

2014 (12)
2025 (5)
2026 (4)
2017 (4)
2013 (4)
2021 (3)
2015 (3)
2023 (2)
2022 (2)
2019 (2)
2018 (2)
2024 (1)
2020 (1)
2016 (1)

Modelling Approach

Ordinary differential equation model (12)
Constraint-based model (2)
Other (1)
Population model (1)

Lab affiliation

Staff Scientist Biological Systems & Engineering Division Lawrence Berkeley National Laboratory Berkeley CA 94720 (8)
Bioplatforms Australia (7)
Univeristy of Georgia (5)
Tsinghua University, China (5)
Department of Cardiovascular Medicine, Center for Circadian Metabolism and Cardiovascular Disease, Southwest Hospital, Army Medical University; Chongqing, China. (4)
Nanjing Med Univ, State Key Lab Reprod Med, Dept Histol & Embryol, 140 Hanzhong Rd, Nanjing 210029, Jiangsu, Peoples R China. (4)
University of Florida (4)
State Key Laboratory of Cellular Stress Biology, Innovation Center for Cell Signaling Network, School of Life Sciences, Xiamen University, Xiamen 361102, Fujian Province, P. R. China (4)
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 (4)
Northwest 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)
Medical University of Vienna, Austria (3)
Medical Basic Research Innovation Center for Cardiovascular and Cerebrovascular Diseases, Ministry of Education, Nanjing Medical University, Nanjing, Jiangsu, China (3)
Key Laboratory of Tropical Marine Bio-resources and Ecology,South China Sea Institute of Oceanology, Chinese Academy of Sciences (3)
Shanghai Institute of Materia Medica, Chinese Academy of Sciences (3)
Sun yat-sen university cancer center (3)
Molecular Oncology Chemical Biology and Molecular Medicine Moffitt Cancer Center (3)
School of Pharmaceutical Science and Technology, Tianjin University, Tianjin 300072, China (3)
Proteomics facility, Central Science Laboratory, University of Tasmania (3)
Yale University (3)
Zhejiang University (3)
The University of Melbourne (3)
BMI, Faculty of Medicine, University of Ottawa, Canada (3)
Department of Microbiology, Immunobiology and Genetics, Max Perutz Labs, University of Vienna, Vienna BioCenter (VBC), Vienna, Austria. (2)
Human Phenome Institute,Zhangjiang FudanInternational Innovation Center, Fudan UniversityShanghai, 201203, China. (2)
1 Interdisciplinary Research Center on Biology and Chemistry, State Key Laboratory of Chemical Biology, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China 2 Shanghai Academy of Natural Sciences (SANS), Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, Shanghai 201210, China (2)
Institute of Molecular Medicine and Cell Research, University Freiburg (2)
UMR_S1134 Inserm/Université Paris Cité, Paris, France (2)
Shenzhen Hospital of Southern Medical University (2)

IsPrivate

False (16)

Model Flag

Non Kinetic (1)

Submitter Keywords

Immuno-oncology (2)
Machine Learning Model (1)
FROG (1)
COVID-19 (1)

Classification

viruses (2)
bacteria (2)

Modification

15.994915 (4)
57.021464 (4)
2x(15)N labeled L-lysine (3)
4x(15)N labeled L-arginine (3)
10.008269 (1)
3.98814 (1)
8.014199 (1)
1.99407 (1)
0.984016 (1)
79.966331 (1)
71.037114 (1)
6-dioxaoctanediamine derivatized cysteine (1)
42.010565 (1)
N6 (1)
4-tetrahydrothiazine-3-carboxylic acid (1)
Not available (1)

Study type

Transcription profiling by array (1113)
RNA-seq of coding RNA (291)
ChIP-seq (141)
Comparative genomic hybridization by array (55)
RNA-seq of non coding RNA (53)
Unknown experiment type (33)
Methylation profiling by array (33)
Methylation profiling by high throughput sequencing (33)
Other (13)
ChIP-chip by tiling array (12)
RNA-seq of coding RNA from single cells (12)
Genotyping by array (11)
DNA-seq (9)
RNA-seq of total RNA (9)
ChIP-chip by array (8)
Transcription profiling by RT-PCR (8)
Transcription profiling by tiling array (7)
MicroRNA profiling by array (6)
Proteomic profiling by array (6)
Transcription profiling by SAGE (4)
ATAC-seq (4)
Cell line - High-throughput sequencing (3)
RNAi profiling by array (3)
ChIP-chip by SNP array (1)
Human - Single-cell sequencing (1)
Human - High-throughput sequencing (1)
Translation profiling (1)
Animal - High-throughput sequencing (1)
Antigen profiling (1)
MicroRNA profiling by high throughput sequencing (1)

Release Date

2025 (9933)
2022 (8464)
2023 (7944)
2024 (7895)
2021 (6432)
2020 (4841)
2019 (3652)
2018 (3058)
2017 (2551)
2016 (2286)
2015 (1929)
2014 (1581)
2026 (1362)
2013 (1225)
2012 (947)
2011 (741)
2010 (649)
2009 (390)
2008 (267)
2007 (157)
2006 (113)
2005 (100)
2004 (58)
2003 (29)
2002 (28)
2000 (13)
2001 (11)
1998 (10)
1999 (9)
1997 (8)

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Liver hydatid disease project of Chen xinhua

PRJEB9109 | ENA

R-ChIP Using Inactive RNase H Reveals Dynamic Coupling of R-loops with Transcriptional Pausing at Gene Promoters.

Not available

S-EPMC5957070 | biostudies-literature

Quantitative proteomics reveals that distant recurrence-associated protein R-Ras and Transgelin predict post-surgical survival of colorectal cancer Stage III patients

Surgical resection is the major clinical intervention for Stage III colorectal cancer (CRC) currently. However, as much as 30.8% of the patients who had ever taken curative resection came out of recurrence eventually. Therefore, to facilitate formulating effective treatment plans, there is an intens...

ORGANISM(S): Homo sapiens (Human)

2016-06-20 | PXD002903 | Pride

RNA-seq of RNase R treated poly(A)-/ribo- RNAs from H9 cells

We have used RNA-seq to examine circular RNAs from RNase R treated poly(A)-/ribo- RNAs in human embryonic stem cells Examine circular RNAs in human embryonic stem cells

ORGANISM(S): Homo sapiens

2013-06-18 | E-GEOD-48003 | biostudies-arrayexpress

Randomized trial of bendamustine-rituximab or R-CHOP/R-CVP in first-line treatment of indolent NHL or MCL: the BRIGHT study.

Not available

S-EPMC4260975 | biostudies-literature

Splicing function of mitotic regulators links R-loop mediated DNA damage to tumor cell killing

We discovered that two mitotic regulators, BuGZ and Bub3, involved in splicing regulation during interphase 8 samples from primary Human foreskin fibroblast cells (HFFs) , 12 samples from TOV21G cells. Control siRNA. BuGZ siRNA or Bub3 siRNA were transfected for 48 h before sample collection. Cells ...

ORGANISM(S): Homo sapiens

2015-04-11 | E-GEOD-67770 | biostudies-arrayexpress

R-loopBase: a knowledgebase for genome-wide R-loop formation and regulation.

Not available

S-EPMC8728142 | biostudies-literature

human leukemia cell line K562 offspring acquring imatinib resistance(K562-r) : Control vs. Drug treated

Transcriptional profiling of K562-r comparing control untreated human leukemia cells with human leukemia cells treated with AMN107 and ATO individually or combined.Four timepoints included are 3h,12h,24h,48h, covering the whole time window of K562-r cells responsing to the drug treatment.At the comb...

ORGANISM(S): Homo sapiens

2010-12-30 | E-GEOD-24946 | biostudies-arrayexpress

Positive allosteric regulation of PAC1-R up-regulates PAC1-R and its specific ligand PACAP.

Not available

S-EPMC9828401 | biostudies-literature

Silibinin-derived microbiota enrich (R)-2,3-dihydroxy-isovalerate and ameliorate colitis via the GAT-3/RARβ/RORγt axis.

Not available

S-EPMC12448484 | biostudies-literature

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68760 Results

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