Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Unclassified
Cell type
Unclassified
NA
NA

Attributes by original data submitter

Sample

source_name
Tumor6
strain
C57BL/6
genotype
ThymoDp(A)/p(A)
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Primary tumor cells were harvested and immediately spun down, and resuspended in PBS. Cells were fixed with 1% formaldehyde. Formaldehyde was quenched with 0.2 M glycine for 10 min. Fixed cells were stored at -80 degrees until use. Libraries were prepared with NEBNext primer set. Fragment size was selected with AMPure beads (Beckman Coulter).

Sequencing Platform

instrument_model
Illumina HiSeq 4000

mm10

Number of total reads
19062617
Reads aligned (%)
98.5
Duplicates removed (%)
13.3
Number of peaks
406 (qval < 1E-05)

mm9

Number of total reads
19062617
Reads aligned (%)
98.2
Duplicates removed (%)
13.4
Number of peaks
437 (qval < 1E-05)

Base call quality data from DBCLS SRA