GEO series

Transcription factor ChIP-seq in expanded human hematopoietic stem and progenitor cells

GSE26014 Homo sapiens Genome binding/occupancy profiling by high throughput sequencing 10 samples Submitted 2011/01/26 Platform GPL9115

Summary

While many individual transcription factors are known to regulate hematopoietic differentiation, major aspects of the global architecture of hematopoiesis remain unknown. Here, we profiled gene expression in 38 distinct purified populations of human hematopoietic cells and used probabilistic models of gene expression and analysis of cis-elements in gene promoters to decipher the general organization of their regulatory circuitry. We identified modules of highly co-expressed genes, some of which are restricted to a single lineage, but most are expressed at variable levels across multiple lineages. We found densely interconnected cis-regulatory circuits and a large number of transcription factors that are differentially expressed across hematopoietic states, suggesting a more complex regulatory system than previously assumed. We functionally validated a subset of candidate factors using RNA interference and ChIP-Seq. Our dataset, analytic tools, and findings, available on a web-based portal, provide a unique resource to study the regulatory architecture of hematopoiesis.

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Direct links to NCBI, no account and no request form: the whole study as GSE26014_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 10 samples. Raw sequencing reads are also available from ENA.

Whole study · RAW.tar ↓ Series matrix ↓ All supplementary files ↗ Raw reads on ENA ↗

Also filed as BioProject PRJNA135475 and SRA study SRP005406. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 21241896) ↗

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