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Series GSE34907 Query DataSets for GSE34907
Status Public on Mar 26, 2012
Title Genetic and epigenetic determinants of neurogenesis and myogenesis [expression profiling]
Organism Mus musculus
Experiment type Expression profiling by array
Summary 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-mediated neurogenesis with MYOD-mediated myogenesis. We demonstrate that NEUROD2 and MYOD bind a shared CAGCTG E-box motif and E-box motifs specific for each factor: CAGGTG for MYOD and CAGATG for NEUROD2. Binding at factor-specific motifs is associated with gene transcription, whereas binding at shared sites is associated with regional epigenetic modifications but not as strongly associated with gene transcription. Binding is largely constrained to E-boxes pre-set in an accessible chromatin context that determines the set of target genes activated in each cell type. These findings demonstrate that the differentiation program is genetically determined by E-box sequence whereas cell lineage epigenetically determines the availability of E-boxes for each differentiation program.
Overall design Total RNA samples were collected in triplicate from undifferentiated and differentiated P19 cells and MEFs, and labeled cDNA was made per Affymetrix protocol
Contributor(s) Fong AP, Yao Z, Zhong JW, Cao Y, Ruzzo WL, Gentleman RC, Tapscott SJ
Citation(s) 22445365
Submission date Jan 06, 2012
Last update date Feb 11, 2019
Contact name Stephen Tapscott
Organization name Fred Hutch Cancer Research Center
Department Human Biology
Lab Tapscott
Street address 1100 Fairview N. Ave
City Seattle
State/province WASHINGTON
ZIP/Postal code 98103
Country USA
Platforms (1)
GPL1261 [Mouse430_2] Affymetrix Mouse Genome 430 2.0 Array
Samples (24)
GSM857397 P19_control_rep1_batch1
GSM857398 P19_control_rep2_batch1
GSM857399 P19_control_rep3_batch1
This SubSeries is part of SuperSeries:
GSE34908 Genetic and epigenetic determinants of neurogenesis and myogenesis
BioProject PRJNA156261

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE34907_RAW.tar 148.3 Mb (http)(custom) TAR (of CEL)
Processed data included within Sample table

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