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Series GSE48960 Query DataSets for GSE48960
Status Public on Jul 18, 2013
Title Targeting H3K4 methylation as a therapeutic strategy for Huntington's disease (ChIP-seq)
Organism Mus musculus
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Transcriptional dysregulation is an early feature of Huntington's disease (HD). We observed gene-specific changes in H3K4me3 at transcriptionally repressed promoters in R6/2 mouse and human HD brain. Genome-wide analysis showed a novel chromatin signature for this mark. Reducing the levels of the H3K4 demethylase SMCX/Jarid1c in primary neurons reversed down-regulation of key neuronal genes caused by mutant Huntingtin (Htt) expression. Finally, reduction of SMCX/Jarid1c in primary neurons from BACHD mice or the single Jarid1 in a Drosophila HD model was protective. Therefore, targeting this epigenetic signature may be an effective strategy to ameliorate the consequences of HD.
Overall design ChIP-seq for H3K4me3 in wild type and R6/2 cortex and striatum at 8 and 12 weeks.
Contributor(s) Ng CW, Yildirim F, Vashishtha M, Gipson T, Thompson LM, Housman D, Fraenkel E
Citation(s) 23872847
Submission date Jul 17, 2013
Last update date May 15, 2019
Contact name Christopher Ng
Organization name Massachusetts Institute of Technology
Street address 77 Massachusetts Ave.
City Cambridge
State/province Massachusetts
ZIP/Postal code 02139
Country USA
Platforms (2)
GPL11002 Illumina Genome Analyzer IIx (Mus musculus)
GPL13112 Illumina HiSeq 2000 (Mus musculus)
Samples (8)
GSM1187623 ChIP_WT_H3K4me3_8wks_ctx_rep1_rep2
GSM1187624 ChIP_R6-2_H3K4me3_8wks_ctx_rep1_rep2
GSM1187625 ChIP_WT_H3K4me3_12wks_ctx_rep1_rep2_rep3
This SubSeries is part of SuperSeries:
GSE48963 Targeting H3K4 methylation as a therapeutic strategy for Huntington's disease
BioProject PRJNA212433
SRA SRP027534

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
GSE48960_RAW.tar 2.5 Gb (http)(custom) TAR (of BW)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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