Transcriptomics

Dataset Information

4

Chromatin immunoprecipitation of REST/NRSF


ABSTRACT: ENCODE ChIP-chip study using 8 diverse human cell lines; 4 of neural origin (NB69, KELLY, SHSY-5Y, U373) and 4 of non-neural origin (HeLa, HepG2, HEK293 and K562) and anti-REST/NRSF antibody (Santa Cruz Biotech; sc-25398 aka H290) to asses REST-genome interactions across 1% of the human genome used in the pilot phase of the ENCODE project. Additionally the REST binding profile in K562 cells that had been transfected with REST specific siRNA oligos (72h and 96h) were determined revealing genomic in vivo binding affinity hierarchies for REST. Additionally the REST binding profile in K562 cells that had been transfected with REST specific siRNA oligos (72h and 96h) were determined

ORGANISM(S): Homo sapiens  

SUBMITTER: David Vetrie   Alex Bruce  

PROVIDER: E-TABM-660 | ArrayExpress | 2009-03-31

REPOSITORIES: ArrayExpress

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Publications

Functional diversity for REST (NRSF) is defined by in vivo binding affinity hierarchies at the DNA sequence level.

Bruce Alexander W AW   López-Contreras Andrés J AJ   Flicek Paul P   Down Thomas A TA   Dhami Pawandeep P   Dillon Shane C SC   Koch Christoph M CM   Langford Cordelia F CF   Dunham Ian I   Andrews Robert M RM   Vetrie David D  

Genome research 20090428 6


The molecular events that contribute to, and result from, the in vivo binding of transcription factors to their cognate DNA sequence motifs in mammalian genomes are poorly understood. We demonstrate that variations within the DNA sequence motifs that bind the transcriptional repressor REST (NRSF) encode in vivo DNA binding affinity hierarchies that contribute to regulatory function during lineage-specific and developmental programs in fundamental ways. First, canonical sequence motifs for REST f  ...[more]

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