Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Rad21

Cell type

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

Attributes by original data submitter

Sample

source_name
ESC
cell line
ESC-46c
chip antibody
Rad21, abcam ab992

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, cells were fixed with 2mM disuccinimidyl glutarate (DSG) for 45 mins and 1% formaldehyde for 10mins, and followed by glycine for 5 mins. Chromatin DNA was sheared to 200–500 bp average in size by sonication and chromatin was immunoprecipitated with antibodies. Protein G dynabeads (Invitrogen) were added and incubated overnight at 4°C. After washing and elution, the protein–DNA complex was reverse-crosslinked by heating at 65°C, and immunoprecipitated DNA was purified by using QIAquick Spin column. the libraries were constructed following Illumina's Chip-Seq Sample prep kit.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
13725966
Reads aligned (%)
91.4
Duplicates removed (%)
11.7
Number of peaks
41845 (qval < 1E-05)

mm9

Number of total reads
13725966
Reads aligned (%)
91.2
Duplicates removed (%)
11.9
Number of peaks
41902 (qval < 1E-05)

Base call quality data from DBCLS SRA