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Unknown (3003)
Transcriptomics (1438)
Genomics (260)
Proteomics (191)
Metabolomics (25)
Models (9)
Genomic (3)
Other (2)
Methylation profiling (1)

Organisms

Homo sapiens (626)
Mus musculus (389)
Saccharomyces cerevisiae (55)
Danio rerio (40)
Arabidopsis thaliana (36)
Rattus norvegicus (32)
Drosophila melanogaster (30)
Oryza sativa Japonica Group (22)
Oryza sativa (21)
Candida albicans (14)
Caenorhabditis elegans (14)
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Sus scrofa (10)
Schizosaccharomyces pombe (9)
Gallus gallus (9)
Streptococcus pneumoniae (8)
Ovis aries (7)
Shewanella oneidensis MR-1 (6)
Macaca fascicularis (6)
Bos taurus (6)
Vibrio harveyi (5)
Aspergillus niger (5)
Podospora anserina (5)
Chlorocebus sabaeus (5)
Macaca mulatta (4)
Sphingomonas sp. LH128 (4)
Escherichia coli str. K-12 substr. MG1655 (2)
Geobacter metallireducens (1)

Organisms

Homo sapiens (34)
Mus musculus (19)
Taeniopygia guttata (8)
Carlito syrichta fraterculus (4)
Anomalurus derbianus (4)
Melopsittacus undulatus (4)
Phyllostomus discolor (3)
Hemiscyllium ocellatum (3)
Gopherus evgoodei (3)
Alca torda (3)
Balaenoptera musculus (3)
Ornithorhynchus anatinus (3)
Lestoros inca (3)
Ascaphus truei (3)
Lynx canadensis (3)
Amblysomus hottentotus (3)
Quercus robur (3)
Arabidopsis thaliana (3)
Strigops habroptila (2)
Calypte anna (2)
Populus trichocarpa (2)
Canis lupus familiaris (2)
Rhizoglyphus robini (2)
Hordeum vulgare (2)
Gallus gallus (2)
Lupinus mutabilis (1)
Syringophilus bipectinatus (1)
Taenia solium (1)
Apopellia endiviifolia (species B) (1)
Lupinus albus (1)

Repository

biostudies-arrayexpress (1481)
ENA (167)
pride (125)
MassIVE (57)
EGA (45)
MetaboLights (25)
geo (13)
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dbGaP (3)
jPOST (3)
GPMDB (2)
iProX (2)
PanoramaPublic (2)

Tissue

Cell culture (28)
Epithelial cell (10)
Liver (8)
Skin (8)
Leaf (7)
Blood serum (5)
Brain (5)
Fibroblast (5)
HeLa cell (4)
Plant cell (4)
Primary cell (4)
Blood (3)
Cervicovaginal fluid (3)
Kidney (3)
Permanent cell line cell (3)
Bile (2)
Blood plasma (2)
Cell suspension culture (2)
Colon (2)
Early embryonic cell (2)
Embryonic cell (2)
Heart (2)
Hepatocyte (2)
Keratinocyte (2)
Lung (2)
Macrophage (2)
Urine (2)
Whole body (2)
B cell (1)
T cell (1)

Disease

Normal (6)
Alzheimer's disease (2)
Insulitis and diabetes (1)
Unspecified peripheral T-cell lymphoma (1)
Allergic airways disease (1)
Infected (1)
Scrapie infected (1)
Primary tumor (1)
Dukes D primary colon cancer (1)
Mock infected (1)
Colon cancer metastasis (1)
Infected (1)
Rheumatoid arthritis (1)
None- acute control (1)
Invasive lobular carcinoma (1)
Non-infected (1)
Squamous cell carcinoma (1)
IBDV infected (1)
Acute Myeloid Leukemia (1)
Neurological disease (1)
Benign adenoma (1)
Mastitis (1)
Reference (1)
Chicken Anaemia Virus infected (1)
None- Acute Control (1)
Psoroptes ovis infestation (1)
Carcinoma (1)
Lung cancer (1)
Central nervous system cancer (1)
Neurofibromatosis type 1 (1)

Technology Type

Mass Spectrometry (125)
Shotgun proteomics (73)
Mass spectrometry (23)
Affinity purification coupled with mass spectrometry proteomics (19)
Bottom-up proteomics (16)
Data-dependent acquisition (9)
Data-independent acquisition (9)
Chemical cross-linking coupled with mass spectrometry proteomics (7)
Top-down proteomics (4)
SWATH MS (2)
AB 5500 Genetic Analyzer, Ion Torrent PGM (1)
Illumina HiSeq 1000, Ion Torrent PGM, Illumina Genome Analyzer IIx (1)
Illumina HiSeq 2000 (1)
Illumina_450K (1)
Mass spectrometry assay (1)
NMR spectroscopy assay (1)
Affinity proteomics (1)
All-ion fragmentation (1)
DiaPASEF (1)
Gel-based experiment (1)
SRM/MRM (1)

Instrument Platform

NextSeq 500 (25)
Illumina NovaSeq 6000 (24)
Illumina HiSeq 4000 (19)
Illumina HiSeq 2500 (13)
NextSeq 2000 (10)
ScanArray 5000 [PerkinElmer] (5)
Illumina HiSeq 2000 (5)
Illumina NovaSeq X (4)
DNBSEQ-G400 (4)
Illumina MiSeq (4)
GenePix Professional 4200A [Axon Instruments] (3)
GenePix 4000A [Axon Instruments] (3)
G2565BA DNA microarray scanner [Agilent] (3)
NextSeq 550 (3)
Cell culture hood, centrifuge, culture dishes (2)
Not applicable (2)
DNBSEQ-T7 (2)
Hamamatsu Nanozoomer S60 (1)
Bravo automated liquid handling robot station (Agilent) (1)
BD FACS Melody, liquid handlers, centrifuge, thermo cycler (1)
Illumina-compatible library preparation equipment (1)
Monarch RNA purification column system (1)
Standard mammalian cell culture equipment (1)
Chromium Controller (1)
GeneQuant DNA/RNA caluculator (1)
Affymetrix Array scanner (1)
Affymetrix hybridization station (1)
Lightwave (1)
Axon Instruments GenePix 4000B scanner (1)
Agilent DNA Microarray Scanner Model # G2505B (1)

Publication Date

2012 (262)
2011 (209)
2013 (198)
2010 (180)
2014 (166)
2015 (116)
2016 (76)
2008 (62)
2026 (43)
2009 (42)
2022 (38)
2017 (38)
2025 (37)
2021 (35)
2024 (34)
2020 (31)
2023 (29)
2019 (27)
2007 (26)
2005 (24)
2018 (22)
2006 (15)
2004 (2)
2003 (1)

UNIPROT ID/AC

P05067 (1)

CHEBI ID

CHEBI:1001 (1)
CHEBI:1002 (1)
CHEBI:10049 (1)
CHEBI:10059 (1)
CHEBI:10066 (1)
CHEBI:10067 (1)
CHEBI:10113 (1)
CHEBI:10194 (1)
CHEBI:1020 (1)
CHEBI:10202 (1)
CHEBI:10246 (1)
CHEBI:10261 (1)
CHEBI:10269 (1)
CHEBI:10270 (1)
CHEBI:1029 (1)
CHEBI:10296 (1)
CHEBI:1030 (1)
CHEBI:10300 (1)
CHEBI:103211 (1)
CHEBI:10329 (1)
CHEBI:1033 (1)
CHEBI:10343 (1)
CHEBI:10358 (1)
CHEBI:10375 (1)
CHEBI:10380 (1)
CHEBI:10399 (1)
CHEBI:103990 (1)
CHEBI:104012 (1)
CHEBI:104121 (1)
CHEBI:10428 (1)

Metabolite Name

Isoleucine (5)
Leucine (5)
Alanine (4)
Arginine (4)
Choline (4)
Citrulline (4)
Histidine (4)
Lysine (4)
Methionine (4)
Ornithine (4)
Phenylalanine (4)
Proline (4)
Taurine (4)
Tyrosine (4)
Valine (4)
3-phosphoglycerate (3)
Alpha-ketoglutarate (3)
Asparagine (3)
Aspartate (3)
Carnitine (3)
Cholesterol (3)
Creatinine (3)
Cystine (3)
Fumarate (3)
Glutamine (3)
Glycine (3)
Hexanoylglycine (3)
Isovalerylglycine (3)
Kynurenine (3)
Malate (3)

First Public Date

2026 (27)
2019 (25)
2018 (25)
2025 (17)
2024 (17)
2014 (15)
2021 (10)
2023 (9)
2020 (9)
2022 (5)
2015 (3)
2017 (2)
2013 (2)
2016 (1)

Modelling Approach

Constraint-based model (2)
Computational model (1)
Ordinary differential equation model (1)

Lab affiliation

University of Edinburgh (5)
University of Ottawa (4)
BMI, Faculty of Medicine, University of Ottawa (3)
Department of Cellular and Molecular Medicine, University of Ottawa, 451 Smyth Road, Ottawa, Ontario, Canada K1H 8M5 (3)
Institute of Plant Sciences Faculty of Agriculture The Hebrew University of Jerusalem Rehovot 76100 ISRAEL (3)
Cancer Research UK Edinburgh Centre, Institute of Genetics and Molecular Medicine, University of Edinburgh, Edinburgh, United Kingdom (2)
Department of Gene Expression Institute of Molecular Biology and Biotechnology Faculty of Biology Adam Mickiewicz University Uniwersytetu Poznanskiego 6 61-614 Poznan (2)
National Institute of Standards and Technology (2)
Nutrient Metabolism & Signalling Laboratory, Metabolism, Diabetes and Obesity Program, Biomedicine Discovery Institute, Monash University, Victoria 3800, Australia (2)
University Medical Center Groningen and University of Groningen (2)
1 Department of Biochemistry and Molecular Biology, Metabolism, Diabetes and Obesity Program, Biomedicine Discovery Institute, Monash University, Clayton 3800, Australia. (1)
1. University of Edinburgh, Wellcome Trust Centre for Cell Biology, Edinburgh, United Kingdom. 2. Technische Universität Berlin, Institute of Biotechnology, Department of Bioanalytics, Berlin, Germany. (1)
1. Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom. 2. Chair of Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany. (1)
1. Wellcome Trust Centre for Cell Biology, University of Edinburgh, Edinburgh EH9 3BF, United Kingdom. 2. Department of Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany. (1)
1Department of Medicine, University of Minnesota, 420 Delaware Street, SE, Minneapolis, Minnesota 55455, USA (1)
1Nutrient Metabolism & Signalling Laboratory, Metabolism, Diabetes and Obesity Program, Biomedicine Discovery Institute, Monash University, Victoria 3800, Australia. 2Department of Biochemistry and Molecular Biology, School of Biomedical Sciences, Faculty of Medicine, Nursing & Health Sciences, Monash University, Victoria 3800, Australia. (1)
Adam Mickiewicz Uiversity, Faculty of Biology, Plant Physiology Dpt, Poznań Poland (1)
Appel Alzheimer's Disease Research Institute Feil Family Brain and Mind Research Institute Weill Cornell Medicine New York, NY 10021 (1)
Associate Professor Department of Physiology Medical College of Wisconsin (1)
Biochemistry & Proteomics Group, Department of Chemistry and Biomolecular Science, Clarkson University, Potsdam, NY, USA (1)
Biological Chemistry and Drug Discovery University of Dundee (1)
Biotech Research & Innovation Center (BRIC), University of Copenhagen, Denmark (1)
Biotechnology Department, Faculty of Biology, Adam Mickiewicz University, Umultowska Street 89, 61-614 Poznań, Poland (1)
CEA Grenoble, Commissariat à l'Energie Atomique et aux Energies Alternatives (1)
CRUK & MRC Oxford Institute for Radiation Oncology, University of Oxford, Department of Oncology, Old Road Campus Research Building, Oxford, OX37DQ, UK (1)
Cellzome - a GSK company Meyerhofstrasse 1, 69117 HEIDELBERG (1)
Center for Molecular Medicine University Medical Center Utrecht Utrecht 3584CG The Netherlands (1)
Center for Molecular Medicine, University Medical Center Utrecht and Utrecht University, Utrecht, The Netherlands (1)
Centre for Advanced Technology/ Adam Mickiewicz University, Poznań, Poland (1)
City University of New York Advanced Science Research Center - Nanoscience Department, USA City University of New York Hunter College -Chemistry & Biochemistry Department, USA (1)

IsPrivate

False (9)

Model Flag

Non Kinetic (5)

Submitter Keywords

FROG (2)
FAIR-AIML (1)
Machine Learning Model (1)

Classification

helminths (1)

Modification

Not available (1)

Study type

Transcription profiling by array (1039)
RNA-seq of coding RNA (140)
Comparative genomic hybridization by array (69)
ChIP-seq (34)
Methylation profiling by array (25)
ChIP-chip by tiling array (20)
RNA-seq of coding RNA from single cells (18)
ChIP-chip by array (16)
RNA-seq of non coding RNA (16)
Transcription profiling by tiling array (15)
Other (11)
DNA-seq (9)
Unknown experiment type (7)
MicroRNA profiling by array (5)
Animal - High-throughput sequencing (4)
Cell line - High-throughput sequencing (4)
Methylation profiling by high throughput sequencing (4)
Human - High-throughput sequencing (3)
Genotyping by array (3)
Transcription profiling by RT-PCR (3)
Spatial transcriptomics by high-throughput sequencing (3)
Ribo-seq (3)
RNA-seq of total RNA (3)
One-color microarray (2)
High-throughput sequencing (2)
ATAC-seq (2)
RIP-seq (2)
Single nucleus RNA sequencing (2)
Proteomic profiling by array (2)
GRO-seq (1)

Release Date

2022 (388)
2023 (387)
2021 (349)
2012 (307)
2025 (298)
2024 (297)
2020 (285)
2013 (253)
2014 (240)
2011 (239)
2010 (212)
2019 (212)
2015 (205)
2018 (180)
2016 (175)
2017 (147)
2008 (75)
2026 (69)
2009 (63)
2007 (29)
2005 (25)
2006 (24)
2004 (6)
2003 (4)
2001 (4)
2002 (3)
2000 (3)
1999 (2)
1997 (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

Human hepatocellular carcinomas validation set

A disease state experiment design type is where the state of some disease such as infection, pathology, syndrome, etc is studied. Keywords: disease_state_design Computed

ORGANISM(S): Homo sapiens

2007-08-09 | E-GEOD-8652 | biostudies-arrayexpress

Metabolomic and Metataxonomic Fingerprinting of Human Milk Suggests Compositional Stability over a Natural Term of Breastfeeding to 24 Months

Sparse data exist regarding the normal range of composition of maternal milk beyond the first postnatal weeks. This single timepoint, observational study in collaboration with the 'Parenting Science Gang' citizen science group evaluated the metabolite and bacterial composition of human milk from 62 ...

2022-02-11 | MTBLS1370 | MetaboLights

Human shSIRT6 TNF-alpha timecourse

We established HeLa cell lines stably expressing a short hairpin RNA against SIRT6 (S6 sh2), and then completed genome-wide microarray analysis in shSIRT6 knock-down and control pSR HeLa cells. Prior to RNA extraction, HeLa cells were treated with TNF-alpha (5 ng/ml) for the indicated times. Total R...

ORGANISM(S): Homo sapiens

2010-06-24 | E-GEOD-13206 | biostudies-arrayexpress

Salt-Mediated Nanopore Detection of ADAM-17.

Not available

S-EPMC7288862 | biostudies-literature

Sirt6 study

This SuperSeries is composed of the following subset Series: GSE13206: Human shSIRT6 TNF-alpha timecourse GSE13207: Mouse Sirt6-/- TNF-alpha timecourse GSE13208: Mouse Sirt6-/- tissues GSE13209: Mouse Sirt6-/- RelA+/- tissues Refer to individual Series

ORGANISM(S): Mus musculus

2010-06-24 | E-GEOD-13272 | biostudies-arrayexpress

Molecular characterization of firefly nuptial gifts: a multi-omics approach sheds light on postcopulatory sexual selection

Postcopulatory sexual selection is recognized as a key driver of reproductive trait evolution, including the machinery required to produce endogenous nuptial gifts. Despite the importance of such gifts, the molecular composition of the non-gametic components of male ejaculates and their interactions...

2016-12-22 | MTBLS362 | MetaboLights

Protease profiling of liver fibrosis reveals the ADAM metallopeptidase with thrombospondin type 1 motif, 1 as a central activator of transforming growth factor beta

During chronic liver disease, tissue remodeling leads to dramatic changes and accumulation of matrix components. Matrix metalloproteases and their inhibitors have been involved in the regulation of matrix degradation. However, the role of other proteases remains incompletely defined. We undertook a ...

ORGANISM(S): Homo sapiens

2012-01-05 | E-GEOD-24667 | biostudies-arrayexpress

Mouse Sirt6-/- RelA+/- tissues

We harvested spleen tissue from Sirt6-/- or Sirt6-/- RelA+/- animals and then completed genome-wide microarray analysis. Total RNA was extracted with TRIzol (Invitrogen) and amplified with Amino Allyl MessageAmp II Amplification kit. Amplified age-matched wild-type tissues were used as reference RNA...

ORGANISM(S): Mus musculus

2010-06-24 | E-GEOD-13209 | biostudies-arrayexpress

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