Genomics

Dataset Information

35

Reconstructing blood stem cell regulatory network models from single-cell molecular profiles


ABSTRACT: The aim of this study was to validate networks for haematopoietic stem and progenitor cell networks, using ChIP-Seq data to assess and confirm the genomic binding sites of important haematopoietic transcription factors in a haematopoietic cell line. Overall design: HoxB8-FL cells were fixed with either 1% or 0.4% formaldehyde for 10 mins. Chromatin was isolated, sonicated for 7 mins (30 sec on, 30 sec off), and specific antibodies were used to pull down the transcription factors of interest after a pre-clearing step. Chromatin was washed, de-crosslinked, amplified, size selected by gel purification and sequenced.

INSTRUMENT(S): Illumina HiSeq 2500 (Mus musculus)

ORGANISM(S): Mus Musculus

SUBMITTER: Rebecca Hannah  

PROVIDER: GSE84328 | GEO | 2017-07-12

SECONDARY ACCESSION(S): PRJNA328869

REPOSITORIES: GEO

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Publications

Reconstructing blood stem cell regulatory network models from single-cell molecular profiles.

Hamey Fiona K FK   Nestorowa Sonia S   Kinston Sarah J SJ   Kent David G DG   Wilson Nicola K NK   Göttgens Berthold B  

Proceedings of the National Academy of Sciences of the United States of America 20170601 23


Adult blood contains a mixture of mature cell types, each with specialized functions. Single hematopoietic stem cells (HSCs) have been functionally shown to generate all mature cell types for the lifetime of the organism. Differentiation of HSCs toward alternative lineages must be balanced at the population level by the fate decisions made by individual cells. Transcription factors play a key role in regulating these decisions and operate within organized regulatory programs that can be modeled  ...[more]

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