Choi A A - OmicsDI

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Unknown (29136)
Proteomics (478)
Transcriptomics (442)
Genomics (113)
Metabolomics (22)
Models (10)
Genomic (2)
Multiomics (2)
Clinical (1)
Other (1)

Organisms

Homo sapiens (418)
Mus musculus (226)
Arabidopsis thaliana (60)
Saccharomyces cerevisiae (19)
Escherichia coli (17)
Rattus norvegicus (16)
Danio rerio (15)
Oryza sativa (12)
Drosophila melanogaster (12)
Gallus gallus (10)
Daphnia pulex (9)
Caenorhabditis elegans (9)
Oryza sativa Indica Group (6)
Schizosaccharomyces pombe (5)
Sus scrofa (5)
Agrobacterium tumefaciens (4)
Aplysia californica (4)
Vibrio vulnificus (4)
Oryza sativa Japonica Group (4)
Glycine max (3)
Cryptococcus neoformans (3)
Capsicum annuum (2)
Fusarium graminearum (2)
Aedes aegypti (2)
Populus alba x Populus glandulosa (1)
Burkholderia glumae BGR1 (1)
Chrysanthemum (1)
unidentified methanotrophic bacterium (1)
Saccharomyces cerevisiae BY4741 (1)
Staphylococcus sp. OJ82 (1)

Organisms

Homo sapiens (12)
Mus musculus (11)
Brassica rapa (2)
Arabidopsis thaliana (2)
Mabikibacter ruber (1)
Piper retrofractum (1)
Lactiplantibacillus plantarum (1)
Sus scrofa (1)

Repository

biostudies-arrayexpress (480)
pride (418)
ENA (52)
MassIVE (38)
EGA (21)
MetaboLights (19)
BioModels (10)
PAXDB (9)
geo (4)
iProX (4)
GNPS (3)
PanoramaPublic (3)
dbGaP (2)
jPOST (2)
PeptideAtlas (2)
GPMDB (1)

Tissue

Cell culture (91)
Brain (38)
Epithelial cell (34)
Blood plasma (17)
Embryo (15)
Permanent cell line cell (14)
Kidney (13)
Inner ear (10)
Blood serum (9)
Hepatocyte (9)
Blood cell (8)
Early embryonic cell (8)
Blood (7)
Leaf (7)
Liver (7)
T cell (7)
Utricle (7)
HEK-293T cell (6)
Lung (6)
Plant cell (6)
Primary cell (6)
B cell (5)
Cell suspension culture (5)
Fibroblast (5)
HeLa cell (5)
Heart (5)
Monocyte (5)
Embryonic stem cell (4)
Macular hair cell (4)
Others (2)

Disease

Disease free (13)
Breast cancer (9)
Acute leukemia (6)
Malignant neoplasm of ovary (6)
Prostate adenocarcinoma (6)
Cervix carcinoma (5)
Type 2 diabetes mellitus (5)
Colon cancer (4)
Osteosarcoma (4)
Parkinson's disease (4)
Alzheimer's disease (3)
Brain cancer (3)
Brain glioblastoma multiforme (3)
Lung adenocarcinoma (3)
Urinary bladder cancer (3)
Bacterial sepsis (2)
Cardiovascular system disease (2)
Human immunodeficiency virus infectious disease (2)
Influenza (2)
Lymphoma (2)
Melanoma (2)
Pancreatic ductal adenocarcinoma (2)
Skin melanoma (2)
Pancreatic ductal carcinoma (1)
Hepatocellular carcinoma-non tumorous region (1)
Colorectal carcinoma (1)
Acute myeloid leukemia (1)
Normal (1)
Malignant neoplasm of stomach (1)
Not Available (1)

Technology Type

Mass Spectrometry (418)
Shotgun proteomics (208)
Bottom-up proteomics (87)
Affinity purification coupled with mass spectrometry proteomics (69)
Data-dependent acquisition (34)
SWATH MS (28)
Gel-based experiment (24)
Top-down proteomics (15)
Data-independent acquisition (13)
Mass spectrometry (12)
Chemical cross-linking coupled with mass spectrometry proteomics (9)
SRM/MRM (8)
Mass spectrometry assay (4)
NMR spectroscopy (4)
All-ion fragmentation (4)
Illumina HiSeq 2500, ILLUMINA (2)
HDMSE (2)
Illumina HiSeq 2000, Affymetrix SNP 6.0 (1)
DiaPASEF (1)
Immunopeptidomics (1)
Proteogenomics (1)

Instrument Platform

HiSeq X Ten (17)
Q Exactive (10)
PromethION (6)
Illumina NovaSeq 6000 (6)
NextSeq 500 (6)
Illumina NovaSeq X (5)
Illumina HiSeq 2000 (5)
Orbitrap Fusion Lumos (5)
Q Exactive HF (5)
LTQ Orbitrap Velos (4)
TripleTOF 5600 (3)
Illumina HiScanSQ (2)
DNBSEQ-G400 (2)
Xevo G2 Q-Tof (2)
Orbitrap Fusion (2)
Q Exactive HF-X (2)
Growth chamber (1)
Illumina Genome Analyzer (1)
Illumina Genome Analyzer IIx (1)
Illumina HiSeq X (1)
BGISEQ-500 (1)
Illumina MiSeq (1)
NextSeq 550 (1)
Illumina HiSeq 2500 (1)
Instrument (1)
4000 QTRAP (1)
Easy n-LC and LTQ Orbitrap XL mass spectrometers (both from Thermo Fisher, San Jose, CA, USA), each equipped with a nano-electrospray source, were used for nano LC-MS/MS. (1)
LTQ FT (1)
LTQ Orbitrap (1)
LTQ Orbitrap Elite (1)

Publication Date

2014 (82)
2013 (74)
2015 (73)
2023 (73)
2024 (67)
2025 (66)
2012 (61)
2022 (56)
2026 (55)
2021 (54)
2016 (52)
2011 (48)
2010 (41)
2020 (34)
2018 (28)
2019 (26)
2009 (25)
2008 (24)
2017 (22)
2007 (12)
2005 (9)
2004 (5)
2003 (2)

UNIPROT ID/AC

3HIDH_MOUSE (4)
A0A1W2P6N8_MOUSE (4)
AATC_MOUSE (4)
ABCA5_MOUSE (4)
ACAD9_MOUSE (4)
ACON_MOUSE (4)
ACSL1_MOUSE (4)
ACSL3_MOUSE (4)
ACTN1_MOUSE (4)
ACTS_MOUSE (4)
ACTZ_MOUSE (4)
AGR3_MOUSE (4)
AIFM1_MOUSE (4)
AIMP1_MOUSE (4)
AK1A1_MOUSE (4)
AL1A3_MOUSE (4)
AL7A1_MOUSE (4)
AMPB_MOUSE (4)
AMPL_MOUSE (4)
AMRP_MOUSE (4)
AN32E_MOUSE (4)
ANXA2_MOUSE (4)
ANXA5_MOUSE (4)
ANXA6_MOUSE (4)
ANXA7_MOUSE (4)
AP1B1_MOUSE (4)
AP3B2_MOUSE (4)
ARC1A_MOUSE (4)
ARP2_MOUSE (4)
P01730 (1)

ENSEMBL ID

ENSG00000147251 (2)
ENSG00000170477 (2)
ENSG00000247315 (2)

CHEBI ID

CHEBI:28790 (7)
CHEBI:15354 (6)
CHEBI:18012 (6)
CHEBI:26986 (6)
CHEBI:27266 (6)
CHEBI:28300 (6)
CHEBI:15741 (5)
CHEBI:16449 (5)
CHEBI:16680 (5)
CHEBI:16708 (5)
CHEBI:16750 (5)
CHEBI:17015 (5)
CHEBI:17234 (5)
CHEBI:17345 (5)
CHEBI:17562 (5)
CHEBI:17596 (5)
CHEBI:17750 (5)
CHEBI:17992 (5)
CHEBI:18186 (5)
CHEBI:18344 (5)
CHEBI:22653 (5)
CHEBI:24898 (5)
CHEBI:25094 (5)
CHEBI:27897 (5)
CHEBI:15422 (1)
CHEBI:16761 (1)
CHEBI:22984 (1)
CHEBI:26216 (1)
CHEBI:32635 (1)
CHEBI:46195 (1)

Metabolite Name

Lactate (4)
Alanine (3)
Asparagine (3)
Fructose (3)
Glucose (3)
Glycine (3)
N-Acetylneuraminic acid (3)
Proline (3)
Threonine (3)
Uridine (3)
Valine (3)
(R)-3-hydroxybutyrylcarnitine (2)
1-methyladenosine (2)
1-methylnicotinamide (2)
2'-deoxycytidine (2)
2'-deoxyuridine (2)
2-aminoadipic acid (2)
4-pyridoxic acid (2)
Adenine (2)
Aminopterin (2)
Bis(3,5,5-trimethylhexyl) phthalate (2)
CDP-ethanolamine (2)
Caffeic acid (2)
Choline (2)
Cytidine (2)
Dihydrothymine (2)
Doxofylline (2)
FAD (2)
GABA (2)
Indole (2)

First Public Date

2024 (16)
2026 (10)
2014 (8)
2023 (4)
2019 (4)
2018 (3)
2015 (3)
2025 (2)
2020 (1)
2016 (1)

Modelling Approach

Ordinary differential equation model (9)
Constraint-based model (1)

Study status

Completed (1)

Lab affiliation

Donnelly Centre for Cellular and Biomolecular Research, Department of Molecular Genetics, University of Toronto, Toronto, Ontario, Canada (10)
Proteomics core facility, Biomedical Research Institute, Seoul National University Hospital (9)
Fraunhofer Institute for Molecular Biology and Applied Ecology IME Auf dem Aberg 1 | 57392 Schmallenberg | Germany (5)
Kyungpook national university (5)
IBS, KAIST (4)
Oregon Hearing Research Center Oregon Health & Science University Portland OR 97239 (4)
Oregon Hearing Research Center Oregon Health & Science University Portland, OR, USA (4)
Seoul National University (4)
UCSF (4)
Weill Cornell Medicine - Qatar (4)
Center for Theragnosis, Korea Institute of Science and Technology, Seoul, Korea (3)
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. (3)
Department of Plant Science and Technology, Chung-Ang University, Anseong, Republic of Korea (3)
Laboratory for Cell Biology and Signalling, Division of Molecular Biology, Ruder Boskovic Institute, Zagreb, Croatia (3)
Vetsuisse Faculty (VET), Department of Molecular Mechanisms of Disease, University of Zurich (UZH) (3)
Associate professor, Department of Chemistry, Ulsan National Institute of Science and Technology (UNIST) (2)
BCMP, Harvard Medical School, Boston, USA Cancer Biology, Dana-Farber Cancer Institute, Boston, USA (2)
CeMM Research Center for Molecular Medicine of the Austrian Academy of Sciences, 1090 Vienna, Austria (2)
Creative Research Initiatives Center for Epigenetic Code and Diseases, School of Biological Sciences, Seoul National University, Seoul 08826, South Korea (2)
Daegu Catholic University School of Medicine (2)
Department of Biochemistry and Functional Proteomics, Institute of Biology II, Faculty of Biology and Signalling Research Centres BIOSS and CIBSS, University of Freiburg, 79104 Freiburg im Breisgau, Germany (2)
Department of Biochemistry, Soonchunhyang University, College of Medicine, 31 Suncheonhyang 6-gil, Bongmyeong-dong, office# 310, Cheonan-si, Chungcheongnam-do, 31151, Republic of Korea (2)
Department of Biochemistry, Soonchunhyang University, College of Medicine, Cheonan, 31151, Republic of Korea (2)
Department of Biology, Institute of Molecular Systems Biology, ETH Zurich, Zurich, Switzerland (2)
Department of Biotechnology, College of Life Science and Biotechnology, Yonsei University, Seoul 03722, Korea (2)
Department of Biotechnology, Stem cell and biomaterial engineering Lab, Yonsei University, Republic of Korea. (2)
Department of Life Science (2)
Department of Life Sciences, Pohang University of Science and Technology (POSTECH), Pohang, Republic of Korea (2)
Department of Pharmacology, Brain Korea 21 PLUS Project for Medical Sciences, Yonsei University College of Medicine, Seoul 03722, Korea (2)
Department of Plant Science and Technology, Chung-Ang University, Anseong 17546, Republic of Korea (2)

IsPrivate

False (10)

Model Flag

Non Kinetic (1)

Modification

15.994915 (2)
-17.026549 (1)
-18.010565 (1)
57.021464 (1)
Not available (1)

Study type

Transcription profiling by array (280)
RNA-seq of coding RNA (55)
ChIP-seq (20)
Methylation profiling by array (16)
Genotyping by high throughput sequencing (16)
Comparative genomic hybridization by array (15)
Transcription profiling by tiling array (14)
Unknown experiment type (13)
DNA-seq (13)
RNA-seq of non coding RNA (11)
Methylation profiling by high throughput sequencing (6)
MNase-seq (3)
ChIP-chip by tiling array (3)
Plant - High-throughput sequencing (2)
ATAC-seq (2)
Proteomic profiling by array (2)
RNA-seq of coding RNA from single cells (2)
Transcription profiling by SAGE (1)
MicroRNA profiling by high-throughput sequencing (1)
Human - High-throughput sequencing (1)
ChIP-chip by array (1)
Bisulfite-seq (1)
Hi-C (1)
Other (1)
Interventional (1)

Release Date

2022 (3305)
2021 (3195)
2025 (3039)
2023 (3016)
2024 (2791)
2020 (2612)
2019 (1959)
2018 (1658)
2017 (1471)
2016 (1355)
2015 (1099)
2014 (916)
2013 (548)
2012 (522)
2026 (480)
2011 (453)
2010 (346)
2009 (265)
2008 (226)
2007 (101)
2006 (59)
2005 (56)
2004 (41)
2003 (33)
2002 (16)
2001 (12)
2000 (12)
1999 (11)
1998 (11)
1997 (2)

Location

Germany (1)
Japan (1)
United Kingdom (1)

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MetaboKit: a comprehensive data extraction tool for untargeted metabolomics (Mouse liver assays)

We have developed MetaboKit, a comprehensive software package for compound identification and relative quantification in mass spectrometry-based untargeted metabolomics analysis. In data dependent acquisition (DDA) analysis, MetaboKit constructs a customized spectral library with compound identit...

2021-11-02 | MTBLS1266 | MetaboLights

MetaboKit: a comprehensive data extraction tool for untargeted metabolomics (Standard mixture assay)

2021-11-05 | MTBLS1311 | MetaboLights

Endophytic mycobiont provides growth benefits via a Phenylpropanoid-Auxin axis in host plants

Beneficial association with symbiotic fungi helps improve the growth and fitness in most land plants, and shows great potential as biofertilizers in precision agriculture. Here, we demonstrated that a root fungal endophyte, Tinctoporellus species isolate AR8, enabled yield improvement in...

2025-04-11 | MTBLS12374 | MetaboLights

Gene Expression Analysis of Pak Choi in Response to Vernalization.

Not available

S-EPMC4627790 | biostudies-literature

Mabikibacter ruber strain:YP382-1-A

Mabikibacter ruber strain:YP382-1-A Genome sequencing and assembly

PRJNA547486 | ENA

Array-Based Screening of Silver Nanoparticle Mineralization Peptides.

Not available

S-EPMC7178033 | biostudies-literature

Characterization of volatile aroma compounds in pak choi.

Not available