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TranscriptomicsTargets of the transcription factor Brachyury in differentiating mouse ES cells
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 differentiat...
ORGANISM(S): Mus musculus 
2012-05-28 | E-GEOD-16646 | biostudies-arrayexpress
TranscriptomicsIn vivo T-box Transcription Factor Profiling Reveals Joint Regulation of Embryonic Neuro-mesodermal Bipotency
Brachyury (Xbra/Xbra3) knock-down embryos of the frog Xenopus tropicalis were profiled to quantify neuro-mesodermal cell fate switches at a transcriptional level. Transcriptional profiling of Xbra/Xbra3 double morphants at early tadpole stage (RNA-Seq) in biological triplicates.
ORGANISM(S): Xenopus (Silurana) tropicalis 
2013-09-19 | E-GEOD-48663 | biostudies-arrayexpress
TranscriptomicsT (Brachyury) gene duplication confers major susceptibility to familial chordoma
Using high-resolution array-CGH, we identified unique duplications of a region on 6q27 in four multiplex (≥ with ≥ 3 cases) families of chordoma, a cancer of presumed notochordal origin. comparison of test samples from chordoma families to a reference DNA sample
ORGANISM(S): Homo sapiens 
2009-10-04 | E-GEOD-17668 | biostudies-arrayexpress
TranscriptomicsProbing Brachyury Function during ES cell differentiaiton
To probe how Brachyury regulates its target genes, we performed mRNA-seq to analyze gene expression changes after Brachyury depletion by the lentivirus-mediated shRNA WT and Brachytury Knockdown embryoid bodies were collected at EB day 4. Subsequently, mRNA-seq expriments were performed with whole e...
ORGANISM(S): Mus musculus 
2014-03-10 | E-GEOD-54984 | biostudies-arrayexpress
GenomicsHigh-resolution Brachyury DNA-binding Sites Mapping by ChIP-exo
Mapping ultra high resolution of Brachyury:DNA interaction would provide us with valuable new mechanistic insights into complex molecular transactions at Brachyury-bound enhancers. Embryonic stem cells were differentiated into Brachyury-positive mesoendoderm cells. And, ChIP-exo experiment was then ...
ORGANISM(S): Mus musculus 
2014-03-10 | E-GEOD-54963 | biostudies-arrayexpress
GenomicsMap Brachyury-bound enhancers by ChIP-seq
To gain new mechanistic insights into highly-regulated lineage specification and morphogenetic processes during early embryogenesis, we applied ChIP-seq to identify transcriptional programs mediated by a key developmental regulator - Brachyury. Embryonic stem cells were differentiated into Brachyury...
ORGANISM(S): Mus musculus 
2014-03-10 | E-GEOD-54978 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse ES cell derived brachyury+ (T) cell specific transcriptome
This experiment is part of the FunGenES project (FunGenES - Functional Genomics in Embryonic Stem Cells partially funded by the 6th Framework Programme of the European Union, http://www.fungenes.org). The experiment was conducted at University of Cologne, Cologne, Germany. Goal of the experiment was...
ORGANISM(S): Mus musculus 
2010-05-12 | E-TABM-716 | biostudies-arrayexpress
GenomicsBrachyury ChIP sequencing of human chordoma UCH-1 cell line
ChIP sequencing of chordoma UCH-1 cell line. A well characterised chordoma cell line which bears all the morphological and immunohistochemical features of a chordoma (large vacuolated slow-growing cells, brachyury and cytokeratin-positive) have been used in this study. Chromatin immunoprecipitation ...
ORGANISM(S): Homo sapiens 
2011-10-17 | E-ERAD-23 | biostudies-arrayexpress
TranscriptomicsChIP-seq of T/Brachyury in mouse embryonic stem cells in the process of disruption of naive pluripotency caused by T induction
ChIP-seq to clarify the molecular mechanism by which a mesodermal transcription factor, T/Brachyury, disrupts the defined naive pluripotency.
ORGANISM(S): Mus musculus 
2021-06-15 | E-MTAB-9490 | biostudies-arrayexpress
TranscriptomicsProbing In vivo Brachyury Function with Tc mouse model
To identify Brachyury target genes in vivo and elucidate how Brachyury-mediated regulation contributes to early mouse developmental homeostasis and coordination, we performed mRNA-seq to compare gene expression profiles of WT and Tc/Tc embryos at both E7.5 ~ 8.0 and E10.0 ~ 10.5 WT and Tc/Tc embryos...
ORGANISM(S): Mus musculus 
2014-03-10 | E-GEOD-54982 | biostudies-arrayexpress
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