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TranscriptomicsVitamin D receptor expression and associated gene signature in tumor stromal fibroblasts predict clinical outcome in colorectal cancer
Colorectal cancer (CRC) is a major cause of cancer mortality and a serious health concern worldwide. Vitamin D deficiency is associated with high CRC incidence and mortality, suggesting a protective effect of vitamin D against this neoplasia. Although the antiproliferative and prodifferentiation act...
ORGANISM(S): Homo sapiens 
2016-04-07 | E-GEOD-70468 | biostudies-arrayexpress
GenomicsGenome-wide maps of RAP1 binding sites.
By performing chromatin immunoprecipitation coupled with ultra-high-throughput sequencing (ChIP-seq), we find that RAP1 binds to telomeres as well as to extra-telomeric sites through the (TTAGGG)2 consensus motif. Extra-telomeric RAP1 binding sites are particularly abundant at subtelomeric regions, ...
ORGANISM(S): Mus musculus 
2010-07-10 | E-GEOD-20867 | biostudies-arrayexpress
GenomicsA unique role of Cohesin-SA1 in gene regulation and development [ChIP-Seq]
Vertebrates have two cohesin complexes that consist of Smc1, Smc3, Rad21/Scc1 and either SA1 or SA2, but their functional specificity is unclear. Mouse embryos lacking SA1 show developmental delay and die before birth. Comparison of the genome wide distribution of cohesin in wild-type and SA1-null c...
ORGANISM(S): Mus musculus 
2012-03-15 | E-GEOD-32319 | biostudies-arrayexpress
TranscriptomicsUNG shapes the specifity of AID-induced somatic hypermutation in non B cells
Secondary diversification of antibodies through somatic hypermutation (SHM) and class switch recombination (CSR) is a critical component of the immune response. Activation-induced deaminase (AID) initiates both processes by deaminating cytosine residues in immunoglobulin genes. The resulting U:G mis...
ORGANISM(S): Mus musculus 
2012-07-04 | E-GEOD-39108 | biostudies-arrayexpress
TranscriptomicsA unique role of Cohesin-SA1 in gene regulation and development [Expression]
Vertebrates have two cohesin complexes that consist of Smc1, Smc3, Rad21/Scc1 and either SA1 or SA2, but their functional specificity is unclear. Mouse embryos lacking SA1 show developmental delay and die before birth. Comparison of the genome wide distribution of cohesin in wild-type and SA1-null c...
ORGANISM(S): Mus musculus 
2012-03-15 | E-GEOD-32234 | biostudies-arrayexpress
TranscriptomicsThe contribution of cohesin-SA1 to chromatin architecture and gene expression in two murine tissues [RNA-seq]
Cohesin, which consists of SMC1, SMC3, Rad21 and either SA1 or SA2, topologically embraces the chromatin fibers to hold sister chromatids together and to stabilize chromatin loops. Increasing evidence indicates that these loops are the organizing principle of higher-order chromatin architecture, whi...
ORGANISM(S): Mus musculus 
2015-04-07 | E-GEOD-59119 | biostudies-arrayexpress
TranscriptomicsA unique role of Cohesin-SA1 in gene regulation and development
This SuperSeries is composed of the following subset Series: GSE32234: A unique role of Cohesin-SA1 in gene regulation and development [Expression] GSE32319: A unique role of Cohesin-SA1 in gene regulation and development [Chip-Seq] Refer to individual Series
ORGANISM(S): Mus musculus 
2012-03-15 | E-GEOD-32320 | biostudies-arrayexpress
TranscriptomicsRoles of mammalian Rap1 in TERT recruitment to chromatin, subtelomeric gene silencing and transcriptional regulation
Repressor-activator protein 1 (scRap1) is the major binding activity at Saccharomyces cerevisiae telomeres, with roles in telomere length regulation and establishment of subtelomeric silencing by recruiting the Sir proteins. scRap1 also acts as a transcription factor controlling the expression of ri...
ORGANISM(S): Mus musculus 
2010-07-10 | E-GEOD-19011 | biostudies-arrayexpress
TranscriptomicsPrimary murine embryonic fibroblasts (MEFs): Cdk7 wild type versus Cdk7 KO
Transcriptional profiling of primary Cdk7lox/lox MEFs comparing Adeno-Cre vs Adeno-GFP infected controls. Samples were obtained 7 days after the Adeno-Cre mediated elimination of Cdk7. Goal was to determine the effects of Cdk7 elimination on RNA polII-mediated transcription. Two-condition experiment...
ORGANISM(S): Mus musculus 
2012-04-17 | E-GEOD-36050 | biostudies-arrayexpress
TranscriptomicsExpression and functional validation of new p38α transcriptional targets in tumorigenesis
p38α MAP kinase plays an important tumor suppressor role, which is mediated by both its negative effect on cell proliferation and its pro-apoptotic activity. Surprisingly, most tumor suppressor mechanisms coordinated by p38α have been reported to occur at the post- translational level. This contrast...
ORGANISM(S): Mus musculus 
2011-11-23 | E-GEOD-26762 | biostudies-arrayexpress
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