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Series GSE67380 Query DataSets for GSE67380
Status Public on Jun 17, 2015
Title Chromatin signature identifies monoallelic gene expression across mammalian cell types (ChIP-seq)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Monoallelic expression of autosomal genes (MAE) is a widespread epigenetic phenomenon which is poorly understood, due in part to current limitations of genome-wide approaches for assessing it. Recently, we reported that a specific histone modification signature is strongly associated with MAE, and demonstrated that it can serve as a proxy of MAE in human lymphoblastoid cells (Nag et al. Elife. 2013 Dec 31;2:e01256). Here, we use murine cells to establish that this chromatin signature is conserved between mouse and human, and is associated with MAE in every tested cell type. Our analyses reveal extensive conservation in the identity of MAE genes between the two species. By applying MAE chromatin signature analysis to a large number of cell and tissue types, we show that the MAE state remains consistent during terminal cell differentiation and is predominant among cell-type specific genes, suggesting a link between MAE and specification of cell identity.
 
Overall design Chromatin immunoprecipitation with antibodies specific for histone modifications H3K27me3 and H3K36me3 and subsequent high-throughput sequencing were performed on fixed chromatin from a B-lymphoid clonal cell line, derived from 129S1/SvImJ x CAST/EiJ F1 mice and immortalized with Abelson murine leukemia virus.
 
Contributor(s) Anwesha N, S├ębastien V, Virginia S, Lillian ZM, Alexander GA
Citation(s) 26092837
Submission date Mar 27, 2015
Last update date May 15, 2019
Contact name Sebastien Vigneau
E-mail(s) sebastien_vigneau@dfci.harvard.edu
Phone +1-857-540-5439
Organization name Dana-Farber Cancer Institute
Department Cancer Biology
Lab Alexander Gimelbrant
Street address 450 Brookline Avenue
City Boston
State/province MA
ZIP/Postal code 02115
Country USA
 
Platforms (1)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (3)
GSM1645695 Abl1_WCE
GSM1645696 Abl1_H3K27me3_ChIPSeq
GSM1645697 Abl1_K3K36me3_ChIPSeq
This SubSeries is part of SuperSeries:
GSE67384 Chromatin signature identifies monoallelic gene expression across mammalian cell types
Relations
BioProject PRJNA279684
SRA SRP056639

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE67380_RAW.tar 83.4 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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