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TranscriptomicsE2F in vivo binding specificity: comparison of consensus vs. non-consensus binding sites
Recent genome-scale ChIP-chip studies of transcription factors have shown that a low percentage of experimentally determined binding sites contain the consensus motif for the immunoprecipitated factor. In most cases, differences between in vivo target sites that contain or lack a consensus motif ha...
ORGANISM(S): Mus musculus 
2008-10-01 | E-GEOD-12126 | biostudies-arrayexpress
TranscriptomicsIntegration of Hi-C and ChIP-seq data reveals distinct types of chromatin hubs
We have analyzed publicly available K562 Hi-C data, which enables genome-wide unbiased capturing of chromatin interactions, using a Mixture Poisson Regression Model to define a highly specific set of interacting genomic regions. We integrated multiple ENCODE Consortium resources with the Hi-C data, ...
ORGANISM(S): Homo sapiens 
2012-06-30 | E-GEOD-32213 | biostudies-arrayexpress
TranscriptomicsA ChIP-chip analysis of E2F family in normal and tumor cells reveals interchangeable roles of E2F family members
Using ChIP-chip assays, we examined the binding patterns of three members of E2F family in five different cell types. Keywords: ChIP-chip We used ENCODE arrays to determine the loaction of E2F family, then identify their binding motifs in vivo. We used promoter arrays to assess the relationship of E...
ORGANISM(S): Homo sapiens 
2007-08-22 | E-GEOD-8716 | biostudies-arrayexpress
ProteomicsCoordinate Enhancer Reprogramming by GATA3 and AP1 Promotes Phenotypic Plasticity to Achieve Breast Cancer Endocrine Resistance
Phenotypic plasticity has emerged as an important mechanism of therapy resistance in cancers, yet the underlying molecular mechanisms remain unclear. Using an established breast cancer cellular model for endocrine resistance, we show that hormone resistance is associated with enhanced phenotypic pla...
ORGANISM(S): Homo Sapiens (ncbitaxon:9606) 
2019-05-24 | MSV000083857 | MassIVE
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