Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Unclassified
Antigen
Unclassified

Cell type

Cell type Class
Embryo
Cell type
Embryonic sertoli cells
NA
NA

Attributes by original data submitter

Sample

source_name
H3_Sox9
strain background
C57BL/6 x CD1
genotype/variation
Sox9-CFP
embryonic stage
E13.5
Sex
male
cell type
FACS-sorted Sertoli cells
chip antibody
H3 Active Motif 39763
chip protocol
Van Galen et al, 2016

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Embryonic gonads were micro-dissected at according stage, removed from the mesonephros and incubated in 0.05% trypsin for 5 minutes at 37C. Gonads were then mechanically dissasociated in PBS/3% BSA and passed through a filter cap to obtain a single cell suspension. Fluorescently-labeled cells were collected by Fluorescence Activated Cell Sorting (FACS). For ChIP-seq, 30K-100K cells were collected per replicate. ChIP-seq libraries were prepared with no modifications according to Van Galen et al., 2016.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
26922965
Reads aligned (%)
93.8
Duplicates removed (%)
14.8
Number of peaks
190 (qval < 1E-05)

mm9

Number of total reads
26922965
Reads aligned (%)
93.7
Duplicates removed (%)
14.9
Number of peaks
184 (qval < 1E-05)

Base call quality data from DBCLS SRA