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MetabolomicsTwo Poplar-Associated Bacterial Isolates Induce Additive Favorable Responses in a Constructed Plant-Microbiome System
The biological function of the plant-microbiome system is the result of contributions from the host plant and microbiome members. The Populus root microbiome is a diverse community that has high abundance of β- and γ-Proteobacteria, both classes which include multiple plant-growth promoting represen...
2017-07-25 | MTBLS332 | MetaboLights
MetabolomicsNQO1 protects obese mice through improvements in glucose and lipid metabolism.
Chronic nutrient excess leads to metabolic disorders and insulin resistance. Activation of stress-responsive pathways via Nrf2 activation contributes to energy metabolism regulation. Here, inducible activation of Nrf2 in mice and transgenesis of the Nrf2 target, NQO1, conferred protection from diet-...
2024-05-23 | MTBLS2085 | MetaboLights
TranscriptomicsTranscription profiling of human skeletal muscle from males with type 2 diabetes to identify genes involved in oxidative phosphorylation
DNA microarrays can be used to discover gene expression changes characteristic of human disease. This is challenging, however, when relevant differences are subtle at the level of individual genes. We introduce an analytical strategy, Gene Set Enrichment Analysis, designed to detect modest but coord...
ORGANISM(S): Homo sapiens 
2007-07-17 | E-CBIL-30 | biostudies-arrayexpress
TranscriptomicsTumor gene expression analysis - PI3K Inhibition by Copanlisib in Relapsed or Refractory Indolent Lymphoma
Of the 142 patients enrolled in Study CHRONOS-1, an open-label, single-arm, Phase II study evaluating the efficacy and safety of single-agent copanlisib in patients with relapsed or refractory, indolent B-cell lymphoma (NCT01660451; Part B), 96 archival formalin-fixed paraffin-embedded tumor tissues...
ORGANISM(S): Homo sapiens 
2017-12-01 | E-MTAB-6088 | biostudies-arrayexpress
TranscriptomicsOligoarray comparative genomic hybridisation-mediated mapping of suppressors of an essential receptor tyrosine kinase generated in a deletion-biased mutagenesis screen
We have used oligoarray comparative genomic hybridization (aCGH) to identify novel suppressors generated in a UV-TMP based suppressor screen. This approach is suitable for detecting single gene mutations as well as copy number variations. Keywords: C.elegans Suppressor screen array CGH [1] 2 test s...
ORGANISM(S): Caenorhabditis elegans 
2012-07-12 | E-GEOD-15224 | biostudies-arrayexpress
TranscriptomicsDNA methylation analyses of urothelial carcinoma reveal distinct epigenetic subtypes and an association between gene copy number and methylation status
We assessed DNA methylation and copy number status of 27,000 CpGs in 149 urothelial carcinomas and integrated the findings with gene expression and mutation data. Methylation was associated with gene expression for 1,332 CpGs, of which 26% showed positive correlation with expression, i.e., high meth...
ORGANISM(S): Homo sapiens 
2012-08-31 | E-GEOD-33510 | biostudies-arrayexpress
TranscriptomicsGenome-wide activity-dependent MeCP2 phosphorylation regulates nervous system development and function [cultured cortical neurons]
To examine potential differences in activity-dependent gene expression, we analyzed mRNA expression in cultured neurons isolated from Wild-type vs MeCP2 S421A mice at 0 (unstimulated), 1 or 6 hours after membrane depolarization by exposure to high extracellular KCl (55mM) All mice were male litterma...
ORGANISM(S): Mus musculus 
2011-09-07 | E-GEOD-31849 | biostudies-arrayexpress
MetabolomicsMetabolic phenotyping of urine from a dementia research cohort
To better understand the molecular mechanisms underpinning physiological variation in human populations, metabolic phenotyping approaches are increasingly being applied to studies involving hundreds and thousands of biofluid samples. Hyphenated ultra-performance liquid chromatography-mass spectromet...
2022-03-01 | MTBLS719 | MetaboLights
TranscriptomicsTranscription profiling of fission yeast treated with hydrogen peroxide in fission yeast wild type and csx1 mutant cells
Time course experiments of hydrogen peroxide treated cells for both S. pombe wild type and csx1 mutant cells.
ORGANISM(S): Schizosaccharomyces pombe 
2004-10-01 | E-MEXP-176 | biostudies-arrayexpress
GenomicsGenome wide localization of Activation induced cytidine deaminase (AID), Spt5, and RNA Polymerase II (PolII) in mouse
Activation induced cytidine deaminase (AID) initiates antibody gene diversification by creating U:G mismatches. However, AID is not specific for antibody genes. Off-target lesions can activate oncogenes or cause chromosome translocations. Despite its importance in these key transactions little is kn...
ORGANISM(S): Mus musculus 
2010-10-05 | E-GEOD-24178 | biostudies-arrayexpress
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