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Series GSE156294 Query DataSets for GSE156294
Status Public on Mar 27, 2024
Title in situ Hi-C profiles of DP thymocyltes from control and Suv39h1/Suv39h2 double knockout mice
Organism Mus musculus
Experiment type Other
Summary H3K9me3-dependent heterochromatin is critical for the silencing of repeat-rich pericentromeric regions and also has key roles in repressing lineage-inappropriate protein-coding genes for healthy cellular function. Here we investigate the disruption of genome organization in the absence of H3K9me3-dependent heterochromatin by performing in situ Hi-C in primary immune cells deficient in both Suv39h1 and Suv39h2 (Suv39DKO), the major mammalian histone methyltransferase enzymes which catalyse heterochromatic H3K9me3 deposition.
 
Overall design CD4+CD8+ double positive mouse thymocyte cells were extracted from two Suv39h1+/y Suv39h2+/- (control) mice and two Suv39h1-/y Suv39h2-/- double knock-out (Suv39DKO) mice and profiled by in situ Hi-C. All samples correspond to individual mice.
 
Contributor(s) Keenan CR, Coughlan HD, Smyth GK, Allan RS
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Submission date Aug 14, 2020
Last update date Mar 28, 2024
Contact name Gordon K Smyth
E-mail(s) smyth@wehi.edu.au
Phone (+61 3) 9345 2326
Fax (+61 3) 9347 0852
URL http://www.wehi.edu.au
Organization name Walter and Eliza Hall Institute of Medical Research
Department Bioinformatics
Lab Smyth
Street address 1G Royal Pde
City Parkville
State/province Vic
ZIP/Postal code 3052
Country Australia
 
Platforms (1)
GPL19057 Illumina NextSeq 500 (Mus musculus)
Samples (4)
GSM4728474 Control, replicate 1
GSM4728475 Control, replicate 2
GSM4728476 Suv39h1, Suv39h2 double knock-out, replicate 1
This SubSeries is part of SuperSeries:
GSE156297 RNA-seq, LaminB1 ChIP-seq and in situ Hi-C of double positive thymocytes from control and Suv39h1/Suv39h2 double knockout mice
Relations
BioProject PRJNA657285
SRA SRP277564

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
GSE156294_GenomicRegions.bed.gz 497.0 Kb (ftp)(http) BED
GSE156294_RAW.tar 677.2 Mb (http)(custom) TAR (of MTX)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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