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TranscriptomicsFundamental differences in promoter CpG island DNA hypermethylation between human cancer and genetically engineered mouse models of cancer [Methylation profiling by array]
Genetic and epigenetic alterations are essential for the initiation and progression of human cancer. We previously reported that primary human medulloblastomas showed extensive cancer-specific CpG island DNA hypermethylation in critical developmental pathways. To determine whether genetically engine...
ORGANISM(S): Homo sapiens 
2013-10-10 | E-GEOD-45240 | biostudies-arrayexpress
GenomicsDifferential genomic targeting of the transcription factor TAL1 in alternate hematopoietic lineages
TAL1/SCL is a master regulator of hematopoiesis whose expression promotes opposite outcomes depending on the cell type - differentiation in the erythroid lineage or oncogenesis in the T-cell lineage. Here we used a combination of ChIP-sequencing and gene expression profiling to compare the function ...
ORGANISM(S): Homo sapiens 
2010-10-30 | E-GEOD-25000 | biostudies-arrayexpress
TranscriptomicsComparison of Genome-Wide Binding of MyoD in Normal Human Myogenic Cells and Rhabdomyosarcomas Identifies Regional and Local Suppression of Promyogenic Transcription Factors
This SuperSeries is composed of the SubSeries listed below. Refer to individual Series
ORGANISM(S): Homo sapiens 
2013-08-29 | E-GEOD-50415 | biostudies-arrayexpress
GenomicsDUX4 activates germline genes, retroelements and immune-mediators: Implications for facioscapulohumeral dystrophy
Facioscapulohumeral dystrophy (FSHD) is one of the most common inherited muscular dystrophies. The causative gene remains controversial and the mechanism of pathophysiology unknown. Here we identify genes associated with germline and early stem cell development as targets of the DUX4 transcription f...
ORGANISM(S): Homo sapiens 
2012-01-03 | E-GEOD-33838 | biostudies-arrayexpress
GenomicsGenetic and epigenetic determinants of neurogenesis and myogenesis [ChIP-seq]
The regulatory networks of differentiation programs have been partly characterized; however, the molecular mechanisms of lineage-specific gene regulation by highly similar transcription factors remain largely unknown. Here we compare the genome-wide binding and transcription profiles of NEUROD2-medi...
ORGANISM(S): Mus musculus 
2012-03-26 | E-GEOD-34906 | biostudies-arrayexpress
TranscriptomicsGenetic and epigenetic determinants of neurogenesis and myogenesis [expression profiling]
The regulatory networks of differentiation programs have been partly characterized; however, the molecular mechanisms of lineage-specific gene regulation by highly similar transcription factors remain largely unknown. Here we compare the genome-wide binding and transcription profiles of NEUROD2-medi...
ORGANISM(S): Mus musculus 
2012-03-26 | E-GEOD-34907 | biostudies-arrayexpress
TranscriptomicsDUX4-induced gene expression is the major molecular signature in FSHD skeletal muscle
Facioscapulohumeral dystrophy (FSHD) is caused by decreased epigenetic repression of the D4Z4 macrosatellite array and recent studies have shown that this results in the expression of low levels of the DUX4 mRNA in skeletal muscle. Several other mechanisms have been suggested for FSHD pathophysiolog...
ORGANISM(S): Homo sapiens 
2014-07-03 | E-GEOD-56787 | biostudies-arrayexpress
GenomicsAberrant DNA methylation in rhabdomyosarcoma
Many pediatric malignancies are embryonal in nature, and one hypothesis for the origin of embryonal tumors is that they arise from a defect in differentiation, either by an inability to terminally differentiate or a reversion to a pluripotent state. There is emerging evidence that epigenetic regulat...
ORGANISM(S): Homo sapiens 
2014-10-22 | E-GEOD-61150 | biostudies-arrayexpress
TranscriptomicsDUX4 activates germline genes, retroelements and immune-mediators: Implications for facioscapulohumeral dystrophy
Facioscapulohumeral dystrophy (FSHD) is one of the most common inherited muscular dystrophies. The causative gene remains controversial and the mechanism of pathophysiology unknown. Here we identify genes associated with germline and early stem cell development as targets of the DUX4 transcription f...
ORGANISM(S): Homo sapiens 
2012-01-03 | E-GEOD-33799 | biostudies-arrayexpress
GenomicsFundamental differences in promoter CpG island DNA hypermethylation between human cancer and genetically engineered mouse models of cancer [RRBS]
Genetic and epigenetic alterations are essential for the initiation and progression of human cancer. We previously reported that primary human medulloblastomas showed extensive cancer-specific CpG island DNA hypermethylation in critical developmental pathways. To determine whether genetically engine...
ORGANISM(S): Mus musculus 
2013-10-10 | E-GEOD-45341 | biostudies-arrayexpress
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