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TranscriptomicsMycobacterium tuberculosis efpA CRISPRi knock-down transcriptional profile - induced efpA knock-down strain vs non-induced condition
In Mycobacterium tuberculosis, the efflux pump, EfpA, plays an essential but uncharacterised role in its physiology and antibiotic tolerance. In this study, an ATc-inducible CRISPR interference (CRISPRi) system was introduced into M. tuberculosis to knock-down the expression of efpA and determine an...
ORGANISM(S): Mycobacterium tuberculosis 
2024-06-19 | E-MTAB-13755 | biostudies-arrayexpress
ProteomicsRole of ATR in mitochondrial functions and metabolism
The PIKK superfamily member ATR is a key factor in DNA damage response (DDR) and is vital for the maintenance of genomic stability. DNA single strand breaks (SSBs) and replication stress activate ATR to phosphorylate a wide range of downstream substrates, which activates cell cycle checkpoint, senes...
ORGANISM(S): Mus musculus (Mouse) 
2021-05-05 | PXD013414 | Pride
Metabolism Atr Mitochondrial function 
ProteomicsRole of ATR in mitochondrial functions and metabolism
The PIKK superfamily member ATR is a key factor in DNA damage response (DDR) and is vital for the maintenance of genomic stability. DNA single strand breaks (SSBs) and replication stress activate ATR to phosphorylate a wide range of downstream substrates, which activates cell cycle checkpoint, senes...
ORGANISM(S): Mus musculus (Mouse) 
2025-05-06 | PXD013469 | Pride
Metabolism Atr Mitochondrial function 
GenomicsRole of Prdm14 in mouse embryonic stem cells: ChIP-seq and RNA-seq analyses
Prdm14 is a PR-domain and zinc-finger protein whose expression is restricted to the pluripotent cells of an early embryo, embryonic stem cells (ESCs), and germ cells. Here we show that Prdm14 safeguards mouse ESC maintenance by preventing induction of extraembryonic endoderm (ExEn) fates. Conversely...
ORGANISM(S): Mus musculus 
2010-12-23 | E-GEOD-25409 | biostudies-arrayexpress
TranscriptomicsPhosphatidylinositol 3-Kinase (PI3K) Signaling via Glycogen Synthase Kinase-3 (Gsk-3) Regulates DNA Methylation of Imprinted Loci.
The two vertebrate Gsk-3 isoforms, Gsk-3a and Gsk-3b, are encoded by distinct genetic loci and exhibit mostly redundant function in murine embryonic stem cells (ESCs). Here we report that deletion of both Gsk-3a and Gsk-3b in mouse ESCs results in misregulated expression of imprinted genes and hypom...
ORGANISM(S): Mus musculus 
2010-11-15 | E-GEOD-20015 | biostudies-arrayexpress
TranscriptomicsRegulatory Mutations Affecting Sulfur Metabolism Induce Environmental Stress Response in Aspergillus nidulas
Mutations in the cysB, sconB and sconC genes affect sulfur metabolism in Aspergillus nidulans in different ways. Mutation of cysB blocks synthesis of cysteine by the main pathway leaving only the less effective alternative route. Mutations of sconB or sconC affect subunits of the SCF ubiquitin ligas...
ORGANISM(S): Aspergillus nidulans 
2014-02-14 | E-GEOD-54130 | biostudies-arrayexpress
GenomicsA unique chromatin signature uncovers early developmental enhancers in humans
Cell fate transitions involve integration of genomic information encoded by regulatory elements, such as enhancers, with the cellular environment. However, identification of the genomic sequences that control the earliest steps of human embryonic development represents a formidable challenge. Here w...
ORGANISM(S): Homo sapiens 
2010-12-15 | E-GEOD-24447 | biostudies-arrayexpress
TranscriptomicsDifferential gene expression in Roseburia inulinivorans grown on inulin and starch
Roseburia inulinivorans is a recently identified motile representative of the Firmicutes that contributes to butyrate formation from a variety of dietary polysaccharide substrates in the human large intestine. Microarray analysis was used here to investigate substrate-driven gene expression changes ...
ORGANISM(S): Roseburia inulinivorans DSM 16841 
2010-07-24 | E-GEOD-22245 | biostudies-arrayexpress
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