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Sample GSM3731675 Query DataSets for GSM3731675
Status Public on Jun 07, 2019
Title B6_wt_DMC1 SSDS
Sample type SRA
Source name Testis
Organism Mus musculus
Characteristics strain: C57Bl/6J
age: Adult
genotype: wild-type
tissue: Testis
antibody: Anti-DMC1 Santa Cruz (C-20, sc 8973)
sequencing technique: ChIP-Single Stranded DNA Sequencing (SSDS)
Extracted molecule genomic DNA
Extraction protocol For DMC1 SSDS, testicular samples were obtained frozen and were directly thawed in 1% paraformaldehyde and gently dissociated. Genomic DNA for whole genome sequencing was extracted from the testicular samples before fixation with the DNeasy Blood and Tissue kit (Qiagen).
DMC1 ChIP was performed as described previously (Smagulova et al., 2011; Khil et al., 2012; Brick et al., 2012) with minor modifications. Sequencing libraries for anti-DMC1 were prepared following the method described in (Khil et al., 2012).
Single Stranded DNA Sequencing (SSDS)
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina HiSeq 2500
Description B6 wild-type DMC1 SSDS
Data processing For DMC1-SSDS samples, samples were aligned to the mm10 reference genome, peak calling was performed, and hotspot strength was calculated as described in (Brick et al. 2018).
Submission date Apr 19, 2019
Last update date Jun 07, 2019
Contact name Kevin Brick
Organization name NIDDK
Department GBB
Street address 5/205 Memorial Drive
City Bethesda
State/province MD
ZIP/Postal code 20892
Country USA
Platform ID GPL17021
Series (1)
GSE109874 Histone methyltransferase PRDM9 is not essential for meiosis in male mice
BioSample SAMN11467497
SRA SRX5713444

Supplementary data files not provided
SRA Run SelectorHelp
Raw data are available in SRA
Processed data not provided for this record

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