Common John J - OmicsDI

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Unknown (1519)
Genomics (192)
Transcriptomics (176)
Proteomics (68)
Metabolomics (16)
Genomic (8)

Organisms

Homo sapiens (257)
Mus musculus (67)
Rattus norvegicus (11)
Daphnia pulex (10)
Salmo salar (9)
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Moraxella catarrhalis RH4 (1)
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Brassica rapa (1)
Populus tremula x Populus tremuloides (1)
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Trypanosoma brucei (1)
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Caenorhabditis elegans (1)

Organisms

Homo sapiens (2)

Repository

biostudies-arrayexpress (195)
EGA (173)
pride (42)
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MassIVE (15)
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Tissue

Cell culture (6)
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Disease

Breast cancer (2)
Lung small cell carcinoma (2)
With bone lytic lesion (1)
None (1)
Colorectal cancer recurrence-free (1)
Schizophrenia (1)
Invasive ductal carcinoma (1)
Normal (1)
Alveolar soft part sarcoma (1)
Malignant neoplasm of ovary (1)
Melanoma (1)
Non-small cell lung carcinoma (1)
Prostate cancer (1)
Retinoblastoma (1)
Zika virus congenital syndrome (1)

Technology Type

Mass Spectrometry (42)
Shotgun proteomics (20)
Mass spectrometry (14)
Bottom-up proteomics (12)
Illumina 15K (8)
Affinity purification coupled with mass spectrometry proteomics (8)
Data-dependent acquisition (6)
Illumina HiSeq 2000 (4)
Gel-based experiment (3)
Affymetrix 6.0 (2)
Illumina Genome Analyzer II (2)
SWATH MS (2)
AB SOLiD 4 System, Illumina HiSeq 2500, Illumina HiSeq 2000, AB SOLiD System 3.0 (1)
Affymetrix OncoScan FFPE Express (1)
COMPLETE_GENOMICS, Complete Genomics (1)
ILLUMINA, Illumina HiSeq 2000 (1)
Illumina 1.2M, Affymetrix 6.0 (1)
Illumina 1.2M, Illumina 610K Quad, Affymetrix 6.0 (1)
Illumina Genome Analyzer IIx, Illumina HiSeq 2000 (1)
Illumina HiSeq 2500, ILLUMINA (1)
Illumina HumanHap 550 (1)
Illumina OncoArray (1)
Illumina_660K/Illumina_670K (1)
Illumina_670k - Illuminus, Affymetrix 6.0, Illumina 1.2M (1)
Life Tech - Solid (1)
NextSeq 500, Illumina HiSeq 4000, ILLUMINA (1)
Mass spectrometry assay (1)
NMR spectroscopy (1)
Chemical cross-linking coupled with mass spectrometry proteomics (1)

Instrument Platform

Illumina HiSeq 2000 (8)
Illumina NovaSeq 6000 (6)
Liquid Chromatography MS - positive - reverse phase (5)
Illumina HiSeq 2500 (4)
Liquid Chromatography MS - negative - reverse phase (4)
Q Exactive (3)
NextSeq 500 (2)
LTQ Orbitrap (2)
LTQ Orbitrap Velos (2)
Orbitrap Fusion Lumos (2)
QExactive (2)
Liquid Chromatography MS - (2)
428 [Affymetrix] (1)
Illumina Genome Analyzer IIx (1)
GenePix 4000B [Axon Instruments] (1)
Illumina Genome Analyzer II (1)
NA (1)
NextSeq 550 (1)
Illumina HiSeq 4000 (1)
6560 Q-TOF LC/MS (1)
In-house built IMS-MS with Agilent 6538 QTOF MS (1)
LCQ Classic (1)
LTQ (1)
Q Exactive HF (1)
RapidFire 365 coupled with Agilent 6560 Ion Mobility QTOF (1)
SLIM TWIMS-MS coupled with Agilent 6224 TOF (1)
SepSolve GCxGC-BenchTOF (1)
6520 Q-TOF LC/MS (Agilent) (1)
Bruker (1)
Direct infusion MS - positive (1)

Publication Date

2010 (28)
2011 (26)
2013 (22)
2008 (21)
2023 (18)
2022 (18)
2016 (16)
2009 (16)
2021 (13)
2014 (13)
2025 (12)
2012 (12)
2015 (10)
2007 (9)
2006 (8)
2020 (5)
2005 (5)
2026 (5)
2019 (4)
2018 (4)
2003 (2)
2024 (2)
2017 (2)
2004 (1)

CHEBI ID

CHEBI:16750 (7)
CHEBI:17596 (7)
CHEBI:16113 (6)
CHEBI:16335 (6)
CHEBI:16704 (6)
CHEBI:17368 (6)
CHEBI:15318 (5)
CHEBI:15354 (5)
CHEBI:15978 (5)
CHEBI:16020 (5)
CHEBI:16449 (5)
CHEBI:16742 (5)
CHEBI:16919 (5)
CHEBI:17562 (5)
CHEBI:17568 (5)
CHEBI:17802 (5)
CHEBI:17822 (5)
CHEBI:18237 (5)
CHEBI:22653 (5)
CHEBI:25094 (5)
CHEBI:26271 (5)
CHEBI:27266 (5)
CHEBI:28300 (5)
CHEBI:29016 (5)
CHEBI:30769 (5)
CHEBI:30915 (5)
CHEBI:7916 (5)
CHEBI:15428 (4)
CHEBI:15611 (4)
CHEBI:15891 (4)

Metabolite Name

Cholesterol (4)
Citrate (4)
Glutamate (4)
Inosine (4)
Proline (4)
Taurine (4)
Uridine (4)
1-methyladenosine (3)
1-methylhistidine (3)
1-methylnicotinamide (3)
7-methylguanine (3)
7-methylguanosine (3)
Adenine (3)
Adenosine (3)
Alanine (3)
Allantoin (3)
Arginine (3)
Asparagine (3)
Aspartate (3)
Betaine (3)
Carnitine (3)
Choline (3)
Citrulline (3)
Creatine (3)
Cystathionine (3)
Dimethylglycine (3)
Fumarate (3)
N-acetylneuraminate (3)
N-acetylputrescine (3)
Uridine (3)

First Public Date

2024 (1)
2014 (1)

Study type

Transcription profiling by array (110)
RNA-seq of coding RNA (19)
ChIP-seq (13)
Unknown experiment type (10)
Comparative genomic hybridization by array (8)
Transcription profiling by tiling array (7)
RNA-seq of coding RNA from single cells (6)
Other (4)
RNA-seq of non coding RNA (3)
Transcription profiling by RT-PCR (2)
DNA-seq (2)
Methylation profiling by array (2)
Proteomic profiling by array (2)
Methylation profiling by high throughput sequencing (2)
ChIP-chip by tiling array (1)
Animal - High-throughput sequencing (1)
Cell line - High-throughput sequencing (1)
ChIP-chip by array (1)
Genotyping by high throughput sequencing (1)

Release Date

2025 (166)
2022 (159)
2023 (136)
2021 (129)
2020 (123)
2016 (111)
2019 (107)
2024 (100)
2018 (95)
2017 (90)
2015 (86)
2013 (67)
2011 (66)
2010 (55)
2012 (52)
2014 (49)
2009 (31)
2008 (31)
2007 (16)
2026 (14)
2006 (11)
2005 (7)
2003 (4)
2000 (3)
2004 (2)
2001 (2)
1999 (2)

Lab affiliation

Moffitt Cancer Center Tampa, FL, USA (4)
Department of Microbiology and Immunology, University of Melbourne at the Peter Doherty Institute for Infection and Immunity, Parkville, Victoria 3010, Australia. (3)
University of Victoria (2)
1BHF Centre of Research Excellence, Division of Cardiovascular Medicine, Radcliffe Department of Medicine, John Radcliffe Hospital, University of Oxford, UK (1)
Biochemistry and Metabolism Department John Innes Centre Norwich Research Park Norwich, UK (1)
Biochemistry and Metabolism Department John Innes Centre Norwich UK (1)
CRUK - Beatson Institute for Cancer Research - Switchback Rd, Bearsden, Glasgow G61 1BD - United Kingdom (1)
Canada's Michael Smith Genome Sciences Centre, BC Cancer Agency, Vancouver V5Z 1L3, Canada (1)
Chemistry Department, University of Zurich, Zurich, Switzerland (1)
Crop Genetics John Innes Centre Norfolk United Kingdom (1)
Department Molecular Microbiology John Innes Centre Norwich Research Park Norwich, UK (1)
Department of Biochemistry and Molecular Biology, Faculty of Medicine, Life Sciences Institute, University of British Columbia, Canada, V6T 1Z3. (1)
Department of Biochemistry and Molecular Biology, Faculty of Medicine, University of British Columbia (1)
Department of Biology, University of Ottawa, Ottawa, Canada, K1N 6N5 (1)
Department of Chemistry, Boston University, USA (1)
Department of Integrated Immunobiology Duke School of Medicine Durham, NC, USA (1)
Department of Microbiology and Immunology Fairchild Science Building D305 299 Campus Drive Stanford, CA 94305 (1)
Department of Molecular Medicine and Medical Biotechnology, Federico II University of Naples, Naples, Italy (1)
Department of Molecular Systems Biology, Helmholtz Centre for Environmental Research – UFZ, Permoserstraße 15, 04318 Leipzig, Germany (1)
Department:Intergrated biomedical sciences,Division:Chemical biology,Institute of infectious diseases and Molecular medicine(IDM),Faculty of health science, University of Cape Town, South Africa (1)
General and molecular microbiology, Institute for chemistry and biology of the marine environment (ICBM), Carl von Ossietzky University of Oldenburg, Oldenburg, Germany (1)
Group Leader Cell & Developmental Biology John Innes Centre (1)
Institute for Glycomics, Griffith University (1)
Institute of Biochemistry, Christian-Albrechts-University Kiel, Kiel, Germany (1)
Instituto de Biologia Molecular y Celular de Rosario (IBR-CONICET-UNR) Rosario-Santa Fe-Argentina (1)
John Innes Centre Norwich Research Park Norwich NR4 7UH, UK (1)
Leroy T. Canoles Jr. Cancer Research Center, Eastern Virginia Medical School, Norfolk, VA, USA. Department of Microbiology and Molecular Cell Biology, Eastern Virginia Medical School, Norfolk, VA, USA. (1)
Liverpool John Moores University (1)
Princess Margaret Cancer Centre, University Health Network, M5G 1L7, Toronto, Canada (1)
Reader | Centre for Genomics and Computational Biology Barts Cancer Institute Queen Mary, University of London John Vane Science Centre, Charterhouse Square, London EC1M 6BQ Tel: +44 (0)20 7882 8266 (1)

Tags

xref:PubMed:38422122 (1)
xref:PubMed:17711579 (1)

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Rare and common genetic determinants of metabolic individuality and their effects on human health (EPIC-Norfolk study assays)

Garrod’s concept of “chemical individuality” has contributed to comprehension of the molecular origins of human diseases. Untargeted high-throughput metabolomic technologies provide an in-depth snapshot of human metabolism at scale. We studied the genetic architecture of the human plasma metabolo...

2022-09-09 | MTBLS833 | MetaboLights

Rare and common genetic determinants of metabolic individuality and their effects on human health (INTERVAL study assays)

2022-09-09 | MTBLS834 | MetaboLights

Dietary folate depletion and repletion in A/J and C57BL/6J mice

Defects in homocysteine and folate metabolism are associated with increased risks for neural tube and congenital heart defects, cardiovascular disease and stroke, cancers, and neurodegeneration. In many but not all cases, dietary supplementation with folate significantly reduces the severity and in...

ORGANISM(S): Mus musculus

2008-08-27 | E-GEOD-9242 | biostudies-arrayexpress

The Ecoresponsive Genome of Daphnia pulex: Empirical annotation of the Daphnia pulex genome

This SuperSeries is composed of the following subset Series: GSE25841: Evolutionary Diversification of Duplicated Genes; Experiment A GSE25843: Evolutionary Diversification of Duplicated Genes; Experiments B-I, M-P GSE25845: Evolutionary Diversification of Duplicated Genes; Experiments B-I GSE25850:...

ORGANISM(S): Daphnia pulex

2011-02-01 | E-GEOD-25823 | biostudies-arrayexpress

Evolutionary Diversification of Duplicated Genes; Experiment J

This study measured the rates at which duplicated genes in the Daphnia pulex genome diverge in function, based on significant differences in their gene expression when paralogs of various ages were tested across 8 to 12 contrasting conditions. The conditions were designated A to L. The number and d...

ORGANISM(S): Daphnia pulex

2011-02-01 | E-GEOD-25850 | biostudies-arrayexpress

Transcription profiling of human immunoglobulin mutation genotype in B Cell chronic lymphocytic leukaemia

The Journal of Experimental Medicine, Volume 194, Number 11, December 3, 2001 1639-1648 Relation of Gene Expression Phenotype to Immunoglobulin Mutation Genotype in B Cell Chronic Lymphocytic Leukemia Andreas Rosenwald1, Ash A. Alizadeh2, George Widhopf5, Richard Simon6, R. Eric Davis1, Xin Yu1, ...

ORGANISM(S): Homo sapiens

2005-06-29 | E-SMDB-1002 | biostudies-arrayexpress

No Sex Differences in the Frequencies of Common Single Nucleotide Polymorphisms Associated with Age-Related Macular Degeneration.

Not available

S-EPMC8324397 | biostudies-literature

Common infections and neuroimaging markers of dementia in three UK cohort studies.

Not available

S-EPMC10984486 | biostudies-literature

Bacterial-induced calcium oscillations are common to nitrogen-fixing associations of nodulating legumes and nonlegumes.

Not available

S-EPMC4736677 | biostudies-literature

Common Irf-regulated genomic responses drive pathological inflammation during experimental cerebral malaria as well as protective response against M. tuberculosis

Analysis of transcriptional response to Plasmodium berghei ANKA infection in cerebral malaria susceptible C57BL/6 mouse brains as well as cerebral malaria resistant BXH2 mice which carry a severe hypomorphic Irf8-R294C allele. Interferon Regulatory Factor 8 (IRF8) is required for development, matura...

ORGANISM(S): Mus musculus

2015-01-16 | E-GEOD-65036 | biostudies-arrayexpress

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