Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pluripotent stem cell
Cell type
ES cells
NA
NA

Attributes by original data submitter

Sample

source_name
Embryonic stem cells
cell type
Embryonic stem cells
passages
6~9
strain
C57BL/6
chip antibody
no antibody (input DNA sequencing)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and histone-DNA complexes were isolated with antibody of HA. ChIP material was blunt-ended and phosphorylated with the End-it-Repair kit (EPICENTRE). Illumina genome sequencing adaptors were ligated with T4 DNA ligase (New England Biolabs) after addition of adenosine nucleotides, using exo- Klenow. Samples were PCR amplified with multiplexed Illumina genomic DNA sequencing primers. PCR products (250 to 450 bp in size) were gel purified and submitted for Illumina deep sequencing.

Sequencing Platform

instrument_model
Illumina Genome Analyzer

mm10

Number of total reads
44582853
Reads aligned (%)
95.7
Duplicates removed (%)
8.9
Number of peaks
884 (qval < 1E-05)

mm9

Number of total reads
44582853
Reads aligned (%)
95.5
Duplicates removed (%)
8.9
Number of peaks
918 (qval < 1E-05)

Base call quality data from DBCLS SRA