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Title: Targets of the transcription factor Brachyury in differentiating mouse ES cells      
dateReleased:
05-28-2012
description:
Brachyury (or T) is expressed in the primitive streak, tailbud and notochord of the early mouse embryo (Herrmann et al., 1990; Wilkinson et al., 1990). It plays a key role in early development: mouse embryos lacking functional Brachyury protein fail to gastrulate properly, do not form a differentiated notochord, and lack structures posterior to somite seven (Chesley, 1935; Dobrovolskaïa-Zavadskaïa, 1927; Naiche et al., 2005; Wilson et al., 1995; Wilson et al., 1993; Yanagisawa et al., 1981) We apply a ChIP-on-chip approach to identify targets of Brachyury during mouse ES cell differentiation. ES cells provide an abundant source of differentiating cells and the identification of Brachyury targets in such cells will shed light on the mechanisms of ES cell differentiation and, by analyzing the targets in the developing embryo, will reveal to what extent they provide a bone fide model of early mouse development. The brachyury IP expts used 3 independent biological replicates hybridised to design 1 and 2 chips per replicate Design 1 raw file AE_251471610189 + Design 2 raw file AE_251471710182 = replicate 1 Design 1 raw file AE_251471610716 + Design 2 raw file AE_251471710724 = replicate 2 Design 1 raw file AE_251471610717 + Design 2 raw file AE_251471710725 = replicate 3 in all cases IP DNA label was Cy5 and whole chromatin Cy3 Design 1 files GSM417692 Design 2 files GSM417704 Isotype control experiment performed 1 x ie design 1 raw file AE_251471610714 design 2 raw file AE_251471710722 in GSM417714 and GSM417756 IP DNA label was Cy5 and whole chromatin Cy3 as for brachyury data
privacy:
not applicable
aggregation:
instance of dataset
ID:
E-GEOD-16646
refinement:
raw
alternateIdentifiers:
16646
keywords:
functional genomics
dateModified:
05-01-2014
availability:
available
types:
gene expression
name:
Mus musculus
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16646/E-GEOD-16646.raw.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ebi.ac.uk/arrayexpress/files/E-GEOD-16646/E-GEOD-16646.processed.1.zip
storedIn:
ArrayExpress
qualifier:
gzip compressed
format:
TXT
accessType:
download
authentication:
none
authorization:
none
accessURL: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE16646
storedIn:
Gene Expression Omnibus
qualifier:
not compressed
format:
HTML
accessType:
landing page
primary:
true
authentication:
none
authorization:
none
abbreviation:
EBI
homePage: http://www.ebi.ac.uk/
ID:
SCR:004727
name:
European Bioinformatics Institute
homePage: https://www.ebi.ac.uk/arrayexpress/
ID:
SCR:002964
name:
ArrayExpress
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