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Series GSE11431 Query DataSets for GSE11431
Status Public on Jun 12, 2008
Title Mapping of transcription factor binding sites in mouse embryonic stem cells
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Transcription factors and their specific interactions with targets are crucial in specifying gene expression programs. To gain insights into the transcriptional regulatory networks in embryonic stem cells, we use chromatin immunoprecipitation coupled to ultra-high-throughput DNA sequencing (ChIP-seq) to map the locations of thirteen sequence specific transcription factors (Nanog, Oct4, STAT3, Smad1, Sox2, Zfx, c-Myc, n-Myc, Klf4, Esrrb, Tcfcp2l1, E2f1 and CTCF) and two transcription regulators (p300 and Suz12). These factors are known to play different roles in ES cell biology as components of the LIF and BMP signaling pathways, self-renewal regulators and key reprogramming factors. Our study provides insights into the integration of the signaling pathways to the ES cell-specific transcription circuitries. Intriguingly, we find specific genomic regions extensively targeted by different transcription factors. Collectively, the comprehensive mapping of transcription factor binding sites identifies important features of the transcriptional regulatory networks that define ES cell identity.
Keywords: Transcription factor binding sites in undifferentiated mouse embryonic stem cells
Overall design ChIP-enriched DNA from pooled ChIP samples were analyzed by Solexa sequencing.
Contributor(s) Wei C
Citation(s) 18555785, 24475069
Submission date May 13, 2008
Last update date Aug 22, 2019
Contact name Chia-Lin Wei
Phone 65 64788074
Fax 65 64789059
Organization name Genome Institute of Singapore
Department Genome Technology & Biology
Street address 60 Biopolis Street #02-01
City Singapore
ZIP/Postal code 138672
Country Singapore
Platforms (1)
GPL9185 Illumina Genome Analyzer (Mus musculus)
Samples (16)
GSM288345 ES_Nanog
GSM288346 ES_Oct4
GSM288347 ES_Sox2
SRA SRP000217
BioProject PRJNA106455

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Supplementary file Size Download File type/resource
GSE11431_RAW.tar 559.1 Mb (http)(custom) TAR (of BED, TXT)
GSE11431_readme.txt 951 b (ftp)(http) TXT
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Processed data provided as supplementary file
Raw data are available in SRA

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