Holmes J M JM - OmicsDI

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Unknown (357)
Metabolomics (5)
Proteomics (2)
Transcriptomics (1)

Organisms

Mus musculus (2)
Homo sapiens (1)

Repository

MetaboLights (5)
pride (2)
biostudies-arrayexpress (1)

Tissue

Embryonic stem cell (1)
Microglial cell (1)

Disease

Alzheimer's disease (1)

Technology Type

NMR spectroscopy (3)
Mass spectrometry (2)
Mass Spectrometry (2)
Bottom-up proteomics (1)
Data-dependent acquisition (1)
SRM/MRM (1)
Shotgun proteomics (1)

Instrument Platform

Bruker (3)
Liquid Chromatography MS - positive - reverse phase (2)
Liquid Chromatography MS - negative - reverse phase (1)

Publication Date

2025 (2)
2014 (1)
2022 (1)
2021 (1)
2018 (1)
2017 (1)
2020 (1)

CHEBI ID

CHEBI:27266 (3)
CHEBI:78320 (3)
CHEBI:15366 (2)
CHEBI:15428 (2)
CHEBI:16449 (2)
CHEBI:17234 (2)
CHEBI:18237 (2)
CHEBI:24898 (2)
CHEBI:25017 (2)
CHEBI:25094 (2)
CHEBI:28044 (2)
CHEBI:36313 (2)
CHEBI:109895 (1)
CHEBI:1148 (1)
CHEBI:116314 (1)
CHEBI:125610 (1)
CHEBI:131991 (1)
CHEBI:133094 (1)
CHEBI:134277 (1)
CHEBI:134931 (1)
CHEBI:138389 (1)
CHEBI:139123 (1)
CHEBI:139134 (1)
CHEBI:139135 (1)
CHEBI:143728 (1)
CHEBI:15354 (1)
CHEBI:15603 (1)
CHEBI:156271 (1)
CHEBI:156280 (1)
CHEBI:15728 (1)

Metabolite Name

Acetate (2)
Glucose (2)
Lactate (2)
Valine (2)
(3,5-dimethylphenyl)-[4-(3-ethyl-1,2,4-triazol-4-yl)piperidin-1-yl]methanone (1)
(R)-4-((8S,9S,10R,13R,14S,17R)-10,13-dimethyl-3-oxo-2,3,6,7,8,9,10,11,12,13,14,15,16,17-tetradecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanoic acid (1)
1-(2-methylbutan-2-yloxy)-3-(2-methylpropylamino)propan-2-ol (1)
1-[2-[3-(1-propan-2-ylsulfonylazetidin-3-yl)-1,2,4-oxadiazol-5-yl]pyrrolidin-1-yl]ethanone (1)
1-[5-amino-3-(2-methylphenyl)-1,2,4-triazol-1-yl]-2,2-dimethylpropan-1-one (1)
12-Ketolithocholic Acid (1)
13,14-dihydro-19-hydroxyPGE1 (1)
13E-Docosenamide (1)
14,15-DiHETE (1)
15,19-hydroxy Prostaglandin E1 (1)
2,3,4-Trihydroxbenzophenone (1)
2,3-dihydrobenzofuran (1)
2,8-Quinolinediol (1)
2-((4R)-4-((5R,7R,8R,9S,10S,12S,13R,17R)-7,12-dihydroxy-10,13-dimethyl-3-oxohexadecahydro-1H-cyclopenta[a]phenanthren-17-yl)pentanamido)ethane-1-sulfonic acid (1)
2-(1-acetylpiperidin-4-yl)-1-(3-ethyl-3-hydroxy-7-azaspiro[3.5]nonan-7-yl)ethanone (1)
2-(3-benzyl-2-oxoimidazolidin-1-yl)-N-propylacetamide (1)
2-Hydroxybutyrate (1)
3-(1-methyl-2-oxoimidazo[4,5-b]pyridin-3-yl)-N-propan-2-ylpyrrolidine-1-carboxamide (1)
3-Hydroxybutyrate (1)
3-Hydroxyisobutyrate (1)
3-Indolepropionic acid (1)
3-Ketocholanic Acid (1)
3-Nitrotyrosine (1)
3-ketosphinganine (1)
4',5,7-Trihydroxyflavanone (1)
4-Guanidinobutanoic acid (1)

Study type

Transcription profiling by array (1)

Release Date

2022 (39)
2021 (37)
2020 (33)
2023 (31)
2024 (28)
2025 (27)
2016 (22)
2014 (20)
2015 (19)
2018 (18)
2017 (16)
2012 (15)
2013 (14)
2019 (12)
2011 (6)
2009 (6)
2026 (4)
2010 (4)
2008 (4)
2007 (2)
2004 (1)

Lab affiliation

Department of Anatomy and Developmental Biology, Australian Regenerative Medicine Institute, Monash University, Australia (1)
University of California San Francisco (1)

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J-Resolved 1H NMR 1D-Projections for Large-Scale Metabolic Phenotyping Studies: Application to Blood Plasma Analysis

1H nuclear magnetic resonance (NMR) spectroscopy-based metabolic phenotyping is now widely used for large-scale epidemiological applications. To minimize signal overlap present in 1D 1H NMR spectra, we have investigated the use of 2D J-resolved (JRES) 1H NMR spectroscopy for large-scale phenotyping ...

2018-07-23 | MTBLS540 | MetaboLights

Gene expression profiles of mouse embryonic stem cells (mESCs) after genetic depletion of Id1 and knock-down of Zrf1

Id proteins are dominant negative regulators within the HLH family of proteins. In embryonic stem cells (ESCs), Id1 and Id3 maintain the pluripotent state by preventing neural differentiation. The Id1-interacting protein Zrf1 plays a crucial role as a chromatin-bound factor in specification of the n...

ORGANISM(S): Mus musculus

2014-11-05 | E-GEOD-58627 | biostudies-arrayexpress

iTF Microglia Cell-Surface Proteomics

To elucidate the impact of Aβ pathology on microglia in Alzheimer’s disease pathogenesis, we profiled the microglia surfaceome following treatment with Aβ fibrils. Our findings reveal that Aβ-associated human microglia upregulate Glypican 4 (GPC4), a GPI-anchored heparan sulfate proteoglycan (HSPG)....

ORGANISM(S): Homo sapiens (Human)

2025-09-15 | PXD060977 | Pride

Unveiling molecular changes in guabiju during Aspergillus brasiliensis cultivation: insights from untargeted metabolomics

Black aspergilli exhibit remarkable bioconversion potential by transforming plant matrices into bioactive compounds, although their metabolic processes remain underexplored. This study investigated the biotransformation of metabolites during the solid-state cultivation of guabiju (Myrcianthes...

2025-08-08 | MTBLS12436 | MetaboLights

Integrated Analytical and Statistical Two-Dimensional Spectroscopy Strategy for Metabolite Identification: Application to Dietary Biomarkers.

Not available

S-EPMC5379249 | biostudies-literature

Whole genome single nucleotide polymorphism based phylogeny of Francisella tularensis and its application to the development of a strain typing assay.

Not available

S-EPMC2767358 | biostudies-literature

Development of an Open-Source Dataset of Flat-Mounted Images for the Murine Oxygen-Induced Retinopathy Model of Ischemic Retinopathy.

Not available

S-EPMC11620014 | biostudies-literature

Characterization of Streptococcus pneumoniae TrmD, a tRNA methyltransferase essential for growth.

Not available