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E-GEOD-81179 - Genome-wide Runx1 binding sites in early hematopoietic progenitors (FDCP1)

Status
Released on 1 July 2016, last updated on 11 July 2016
Organism
Mus musculus
Samples (4)
Protocols (4)
Description
We report the application of single-molecule-based sequencing technology for high-throughput profiling of histone modifications in mammalian cells. By obtaining over four billion bases of sequence from chromatin immunoprecipitated DNA, we generated genome-wide chromatin-state maps of mouse embryonic stem cells, neural progenitor cells and embryonic fibroblasts. We find that lysine 4 and lysine 27 trimethylation effectively discriminates genes that are expressed, poised for expression, or stably repressed, and therefore reflect cell state and lineage potential. Lysine 36 trimethylation marks primary coding and non-coding transcripts, facilitating gene annotation. Trimethylation of lysine 9 and lysine 20 is detected at satellite, telomeric and active long-terminal repeats, and can spread into proximal unique sequences. Lysine 4 and lysine 9 trimethylation marks imprinting control regions. Finally, we show that chromatin state can be read in an allele-specific manner by using single nucleotide polymorphisms. This study provides a framework for the application of comprehensive chromatin profiling towards characterization of diverse mammalian cell populations. ChIP analysis of Runx1 binding sites in early hematopoietic progenitors (FDCP1 and FDCP1_RUNX1-ERt2)
Experiment type
ChIP-seq 
Contacts
Carol Stocking, Kira Behrens, Malik Alawi
MINSEQE
Exp. designProtocolsVariablesProcessedSeq. reads
Files
Investigation descriptionE-GEOD-81179.idf.txt
Sample and data relationshipE-GEOD-81179.sdrf.txt
Additional data (1)E-GEOD-81179.additional.1.zip
Links