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TranscriptomicsEscape from X chromosome inactivation occurs within topologically associated domains
The spatial proximity between regulatory elements and their target genes has a profound affect on gene expression. X Chromosome Inactivation (XCI) is an epigenetic process by which an entire chromosome is rendered, for the most part, transcriptionally silent. A few genes are known to escape XCI and ...
ORGANISM(S): Mus musculus 
2014-03-26 | E-GEOD-49111 | biostudies-arrayexpress
TranscriptomicsfourSig: A Method for Determining Chromosomal Interactions in 4C-Seq Data
The ability to correlate chromosome conformation and gene expression gives a great deal of information regarding the strategies used by a cell to properly regulate gene activity. 4C-seq is a relatively new and increasingly popular technology where the set of genomic interactions generated by a singl...
ORGANISM(S): Mus musculus 
2014-02-22 | E-GEOD-50907 | biostudies-arrayexpress
GenomicsGenetic Heterogeneity of Diffuse Large B Cell Lymphoma

We sequenced exomes of 94 DLBCL tumors and cell lines. 34 of the tumors had paired normal tissue. Our work elucidates commonly occurring gene-coding mutations in DLBCL.

phs000573.v1.p1 | EGA
TranscriptomicsCGH detection of chromosomal rearrangements in diploid yeast cells exposed to ionizing radiation
At the organismal level, genome rearrangements are usually deleterious and are often associated with disease. Yet, on an evolutionary scale, they can be beneficial as they provide for rapid genetic diversification. DNA lesions, particularly double-strand breaks (DSBs), are sources of genome instab...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-11 | E-GEOD-6984 | biostudies-arrayexpress
TranscriptomicsBand-array detection of chromosomal rearrangements in diploid yeast cells exposed to ionizing radiation
At the organismal level, genome rearrangements are usually deleterious and are often associated with disease. Yet, on an evolutionary scale, they can be beneficial as they provide for rapid genetic diversification. DNA lesions, particularly double-strand breaks (DSBs), are sources of genome instab...
ORGANISM(S): Saccharomyces cerevisiae 
2010-06-11 | E-GEOD-6991 | biostudies-arrayexpress
TranscriptomicsGenome-wide transcriptional analysis of PE-2 strain of Saccharomyces cerevisiae
In this study we investigate the molecular physiology of the main S. cerevisiae commercial strain (PE-2) used on Brazilian bioethanol process under two distinct conditions: typical (TF) and flocculated (co-aggregated - FL) fermentation. Transcriptional machinery of PE-2 was assessed by high throughp...
ORGANISM(S): Saccharomyces cerevisiae 
2015-02-02 | E-GEOD-41834 | biostudies-arrayexpress
TranscriptomicsChromosome fragility at the expanded GAA/TTC tracks depends on repeat orientation and requires mismatch repair system.
Expansion of triplex-forming GAA/TTC repeats in the first intron of FRDA gene is known to cause Friedreich’s ataxia. Besides FRDA, there are a number of other highly polymorphic GAA/TTC loci in the human genome where the size variations so far were considered to be a neutral event. Using yeast as ...
ORGANISM(S): Saccharomyces cerevisiae 
2008-05-14 | E-GEOD-11425 | biostudies-arrayexpress
TranscriptomicsMAP3K4/CBP Regulated H2B acetylation Controls Epithelial-Mesenchymal Transition in Trophoblast Stem Cells
Epithelial stem cells self-renew while maintaining multipotency, but the dependence of stem cell properties on maintenance of the epithelial phenotype is unclear. We previously showed that trophoblast stem (TS) cells lacking the protein kinase MAP3K4 maintain properties of both stemness and epitheli...
ORGANISM(S): Mus musculus 
2011-05-27 | E-GEOD-27883 | biostudies-arrayexpress
GenomicDeep Sequencing Studies for Cannabis and Stimulant Dependence

Cannabis and stimulants are among the most widely used illicit drug in the United States, and their use is associated with substantial physical and psychiatric sequelae. Twin studies have shown a substantial genetic component to the etiology of cannabis and stimulant use disorders, but, genome-wi...

phs001458 | dbGaP
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