Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Gonad
Cell type
Sperm
NA
NA

Attributes by original data submitter

Sample

source_name
Motile human sperm
cell type
Sperm cells
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Nucleosomal fraction of the chromatin was digested with 30 U micrococcal nuclease (MNase) for 5 min, cleaned and used as input. Libraries were prepared using IP-Star® Compact Automated System (Diagenode Cat# B03000002) from input and ChIP'd DNA (starting amount 1ng) using MicroPlex Library Preparation Kit v2 (12 indices) (Diagenode Cat# C05010013). Library amplification is assessed using High Sensitivity NGS Fragment Analysis Kit (DNF-474) on a Fragment Analyzer™ (Advanced Analytical Technologies, Inc.). Libraries were then double size-selected and purified using Agencourt® AMPure® XP (Beckman Coulter) and quantified using Qubit™ dsDNA HS Assay Kit (Thermo Fisher Scientific, Q32854). Finally their fragment size was analyzed by High Sensitivity DNA Analysis Kit on a 2100 Bioanalyzer system (Agilent).

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
72707259
Reads aligned (%)
80.4
Duplicates removed (%)
25.4
Number of peaks
4511 (qval < 1E-05)

hg19

Number of total reads
72707259
Reads aligned (%)
80.0
Duplicates removed (%)
26.6
Number of peaks
4565 (qval < 1E-05)

Base call quality data from DBCLS SRA