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TranscriptomicsETV1 knockdown in GIST cell lines
ETV1 is highly expressed in GIST cells and required for their survival and growth. To identify genes and pathways regulated by ETV1 in GIST, we performed expression profiles of GIST cells after ETV1 knockdown. Two GIST cell lines (GIST48 and GIST882) were infected in duplicate with three shRNA virus...
ORGANISM(S): Homo sapiens 
2010-10-13 | E-GEOD-19396 | biostudies-arrayexpress
TranscriptomicsImatinib Treatment of GIST882
Gastrointestinal Stromal Tumor frequently harbor mutations in the KIT receptor tyrosine kinase and depend on its activity for growth. This underlies the efficacy of imatinib, a inhibitor of KIT activity, in GIST management. GIST882 is a patient derived GIST cell line that harbor a K640E exon 13 KIT ...
ORGANISM(S): Homo sapiens 
2010-10-13 | E-GEOD-22433 | biostudies-arrayexpress
GenomicsMapping of ETV1 genomic binding sites in gastrointestinal stromal tumor (GIST).
ETV1 is highly expressed in GIST and their presumed precursors--the interstitial cells of Cajal. ETV1 is required for survival for both GIST and ICC and regulates GIST signature genes. Here, using Illumina-Solexa based next-generation sequencing of ETV1 chromatin immunoprecipates (ChIP-Seq), we defi...
ORGANISM(S): Homo sapiens 
2010-10-14 | E-GEOD-22441 | biostudies-arrayexpress
TranscriptomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [RNA-Seq]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42154 | biostudies-arrayexpress
TranscriptomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [CATCH-IT]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42153 | biostudies-arrayexpress
GenomicsHira-dependent histone H3.3 deposition facilitates PRC2 recruitment at developmental loci in ES cells [ChIP-Seq]
Polycomb repressive complex 2 (PRC2) regulates gene expression during lineage specification through trimethylation of lysine 27 on histone H3 (H3K27me3). In Drosophila, polycomb binding sites are dynamic chromatin regions coupled to incorporation of the histone variant H3.3. Here we show in mouse em...
ORGANISM(S): Mus musculus 
2013-09-30 | E-GEOD-42152 | biostudies-arrayexpress
TranscriptomicsHistone variant H3.3 is an essential maternal factor for oocyte reprogramming
Mature oocyte cytoplasm can reprogram somatic cell nuclei to the pluripotent state through a series of sequential events including protein exchange between the donor nucleus and ooplasm, chromatin remodeling, and pluripotency gene reactivation. Maternal factors that are responsible for this reprogra...
ORGANISM(S): Mus musculus 
2014-06-02 | E-GEOD-56762 | biostudies-arrayexpress
GenomicsDistinct factors control histone variant H3.3 localization at specific genomic regions
The incorporation of histone H3 variants has been implicated in the epigenetic memory of cellular state. Using genome editing with zinc finger nucleases to tag endogenous H3.3, we report genome-wide profiles of H3 variants in mammalian embryonic stem (ES) cells and neuronal precursor cells. Genome-w...
ORGANISM(S): Mus musculus 
2010-03-04 | E-GEOD-16893 | biostudies-arrayexpress
GenomicsIntegrative Epigenomic Analysis Identifies Biomarkers and Therapeutic Targets in Adult B-Acute Lymphoblastic Leukemia [ChIP-seq]
Integrative epigenomic analysis identifies biomarkers and therapeutic targets in adult B-acute lymphoblastic leukemia. We performed DNA methylation (HELP array) and gene expression profiling in 215 samples of adult B-lineage acute lymphoblastic leukemia (ALL) and 12 normal preB samples. Adult B-lin...
ORGANISM(S): Homo sapiens 
2012-11-27 | E-GEOD-38403 | biostudies-arrayexpress
UnknownA distinct H2A.X isoform is enriched in Xenopus laevis eggs and early embryos and is phosphorylated in the absence of a checkpoint.
Not available
S-EPMC2630098 | biostudies-literature
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