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TranscriptomicsMLL Fusion Proteins Preferentially Regulate a Small Set of Wild Type MLL Target Genes in the Leukemic Genome
MLL encodes a histone methyltransferase that is critical in maintaining gene expression during embryonic development and hematopoiesis. 11q23 translocations encode chimeric MLL fusions that act as potent drivers of acute leukemia. However, it remains unclear what portion of the leukemic genome is un...
ORGANISM(S): Mus musculus 
2011-04-28 | E-GEOD-24794 | biostudies-arrayexpress
TranscriptomicsDynamic developmental signaling logic underlying lineage bifurcations during human endoderm induction and patterning from pluripotent stem cells [Endoderm RNA-seq and ChIP-seq data sets]
Unraveling complex signaling programs animating developmental lineage-decisions is pivotal to differentiate human pluripotent stem cells (hPSC) into pure populations of desired lineages for regenerative medicine. Developmental signals are strikingly temporally dynamic: BMP and Wnt initially specify ...
ORGANISM(S): Homo sapiens 
2013-11-22 | E-GEOD-52657 | biostudies-arrayexpress
GenomicsHistone acetylation H2BK20ac marks cell-state specific active regulatory elements
Characterisation of different histone modifications is crucial to understand gene regulation. In order to study the most predictive histone modification for active enhancers we created unbiased set of enhancers and used machine learning approach. Our approach revealed an unconventional histone modif...
ORGANISM(S): Homo sapiens 
2016-02-25 | E-GEOD-72886 | biostudies-arrayexpress
TranscriptomicsTranscription profiling of mouse S49 cells to study the global impact of cAMP and protein kinase A on gene expression
Although a substantial number of hormones and drugs increase cellular cAMP levels, the global impact of cAMP and its major effector mechanism, protein kinase A (PKA), on gene expression is not known. Here we show that treatment of wild-type S49 lymphoma cells for 24 h with 8-(4-chlorophenylthio)-cAM...
ORGANISM(S): Mus musculus 
2007-08-31 | E-GEOD-2413 | biostudies-arrayexpress
TranscriptomicsDynamic developmental signaling logic underlying lineage bifurcations during human endoderm induction and patterning from pluripotent stem cells [Expression data set]
The definitive endoderm germ layer is the provenance of multiple internal organs, including the lungs, liver, pancreas and intestines. Molecular events driving initial endoderm germ layer specification and subsequent anterior-posterior patterning of endoderm into distinct organ primordia remain larg...
ORGANISM(S): Homo sapiens 
2013-11-07 | E-GEOD-52158 | biostudies-arrayexpress
GenomicsSensitive mapping of chromatin-altering polymorphisms reveals molecular drivers of autoimmune disease
Although most disease associations detected by GWAS are nongenic, very few have been mapped to causal regulatory variants. Here, we present a method for detecting regulatory QTLs that does not require genotyping or whole-genome sequencing. The method combines deep, long-read ChIP-seq with a new stat...
ORGANISM(S): Homo sapiens 
2015-03-01 | E-GEOD-58852 | biostudies-arrayexpress
TranscriptomicsThe transcription factor SOX6 contributes to the developmental origins of obesity by promoting adipogenesis through inhibition of Wnt signaling
The developmental transcription factor SOX6 was found to regulate serum, as well as liver triglycerides in BL6 mice treated with SOX6 antisense gapmers compared to control gapmers. SOX6 was initially discovered as a gene over-expressed in mesenchymal stem cells derived from small for gestational age...
ORGANISM(S): Mus musculus 
2015-06-26 | E-GEOD-70300 | biostudies-arrayexpress
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