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TranscriptomicsCircadian patterns of gene expression in the human brain and disruption in major depressive disorder
A cardinal symptom of Major Depressive Disorder (MDD) is the disruption of circadian patterns. Yet, to date, there is no direct evidence of circadian clock dysregulation in the brains of MDD patients. Circadian rhythmicity of gene expression has been observed in animals and peripheral human tissues,...
ORGANISM(S): Homo sapiens 
2013-04-20 | E-GEOD-45642 | biostudies-arrayexpress
TranscriptomicsA regulatory hierarchy controls the dynamic transcriptional response to extreme oxidative stress in archaea.
Previous work identified the winged helix-turn-helix DNA binding transcription factor (TF) RosR (encoded by VNG0258H gene), which dynamically regulates expression of more than 300 genes in response to oxidative stress in Halobacterium salinarum (Sharma 2012). RosR is required for survival of oxidant...
ORGANISM(S): Halobacterium sp. NRC-1 
2015-02-18 | E-GEOD-58696 | biostudies-arrayexpress
TranscriptomicsGene expression timecourse in zebrafish whole eye in response to optic nerve crush
It is well-established that neurons in the adult mammalian central nervous system are terminally differentiated and, if injured, will be unable to regenerate their connections. In contrast to mammals, zebrafish and other teleosts display a robust neuroregenerative response. Following optic nerve cru...
ORGANISM(S): Danio rerio 
2010-02-21 | E-GEOD-19298 | biostudies-arrayexpress
TranscriptomicsHMGA1: A master regulator of tumor progression in triple-negative breast cancer cells
Emerging evidence suggests that tumor cells metastasize by co-opting stem cell transcriptional networks, although the molecular underpinnings of this process are poorly understood. Here, we show for the first time that the high mobility group A1 (HMGA1) gene drives metastatic progression in triple ...
ORGANISM(S): Homo sapiens 
2015-02-18 | E-GEOD-45483 | biostudies-arrayexpress
GenomicsRNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles
We used RNA sequencing to analyze transcript profiles of ten autopsy brain regions from ten subjects. RNA sequencing techniques were designed to detect both coding and non-coding RNA, splice isoform composition, and allelic expression. Brain regions were selected from five subjects with a documented...
ORGANISM(S): Homo sapiens 
2015-09-01 | E-GEOD-68559 | biostudies-arrayexpress
TranscriptomicsH. salinarum TrmB dynamics
Previous work characterized TrmB as a global glucose responsive metabolic transcription factor in archaeal extremophiles. However, it remains unclear how TrmB dynamically regulates its ~100 metabolic enzyme-coding genes. Using a dynamic perturbation approach, we elucidate the topology of the metabol...
ORGANISM(S): Halobacterium sp. NRC-1 
2013-08-07 | E-GEOD-47201 | biostudies-arrayexpress
TranscriptomicsGenome analysis of C. jejuni and C. coli isolated from different regions of the same pig
C. coli is the predominant Campylobacter strain that is found in pigs while C. jejuni if present will be 10- 100 folds less. Natural transformation can occur if there is a coexistence of both the strains in the intestine of pigs. Genome analyses were performed on a C. jejuni strain U101 isolated fro...
ORGANISM(S): Campylobacter jejuni 
2015-09-15 | E-GEOD-17701 | biostudies-arrayexpress
TranscriptomicsReal-time quantitative PCR analysis of hormone-receptor-negative primary breast tumors
Total RNA was extracted from FFPE samples of 139 chemotherapy-naïve hormone-receptor-negative breast cancers pooled from three sample sources and assayed for the expression of 21 genes within two previously reported microarray-derived prognostic signatures in 6 RT-PCR multiplexes. RT-PCR gene expre...
ORGANISM(S): Homo sapiens 
2013-10-25 | E-GEOD-51630 | biostudies-arrayexpress
TranscriptomicsGenome analysis of C. jejuni and C. coli isolated from different regions of the same chicken
The gut of chicken is mostly colonised with Campylobacter jejuni and with 100 fold less C. coli. The competitive ability of C. coli OR12 over C. jejuni OR1 has been examined in experimental broiler chickens following the observation that C. coli replaced an established C. jejuni intestinal colonisat...
ORGANISM(S): Campylobacter jejuni 
2015-09-15 | E-GEOD-17805 | biostudies-arrayexpress
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