Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Gonad
Cell type
Spermatogenic cells
NA
NA

Attributes by original data submitter

Sample

source_name
H3K27ac.Ctrl.Z
strain
C57BL/6J (B6)
genotype/variation
wild type
cell type
homogenous synchronous spermatogenic cells
stage during meiotic process
Ctrl.Z
chip antibody
H3K27ac (Active Motif 39133, lot 20017009)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP assay was carried out as previously described. The sorted homogenous synchronous spermatogenic cells were crosslinked with 1% formaldehyde for 10 mins and then stopped by adding 125 mM Glycine. Chromatin samples were lysed with lysis buffer (20 mM Tris-HCl pH8.0, 500 mM NaCl, 1 mM EDTA, 1% TritonX-100 and 0.1% SDS) and sonicated with Qsonica. Histone modification specific antibody was incubated with chromatin samples overnight at 4 ℃.0.5 ug spike-in antibody (Active motif #61686) and 25 ng spike-in chromatin (Active motif #53083) were used in this ChIP assay according to the manufacture's guidelines. DNA samples were analyzed using real time PCR and prepared for deep sequencing according to the manufacture's guidelines (KAPA Biosystems KK8503 and VAHTS Universal DNA Library Prep Kit for Illumina V3 ND607). Finally, libraries were pooled and sequenced on the Illumina HiSeq 2500 sequencer for 150-bp paired-end sequencing.

Sequencing Platform

instrument_model
Illumina HiSeq X Ten

mm10

Number of total reads
22080409
Reads aligned (%)
86.8
Duplicates removed (%)
17.8
Number of peaks
11246 (qval < 1E-05)

mm9

Number of total reads
22080409
Reads aligned (%)
86.7
Duplicates removed (%)
17.9
Number of peaks
11208 (qval < 1E-05)

Base call quality data from DBCLS SRA