Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
CD4 CD8 double positive cells
NA
NA

Attributes by original data submitter

Sample

source_name
CD4+CD8+ double positive thymocytes
age
6 weeks old
cell type
CD4+ CD8+ double positive (DP) thymocyte
genotype/variation
Wild type
chip antibody target
Control
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
DP thymocytes from control and Rad21-/- mice were FACS-sorted, fixed and subsequently lysed and sonicated to extract soluble chromatin. H3K27Ac was immunoprecipitated using polyclonal antibodies. Smc1a was immunoprecipitated from WT samples only. Library was constructed using NEBNext ChIP-Seq Library Prep Kit (NEB, catalog number E6200S), according to the manufacturer's instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
29612146
Reads aligned (%)
98.2
Duplicates removed (%)
13.5
Number of peaks
619 (qval < 1E-05)

mm9

Number of total reads
29612146
Reads aligned (%)
97.9
Duplicates removed (%)
13.5
Number of peaks
658 (qval < 1E-05)

Base call quality data from DBCLS SRA