Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
CD8+ T cells
NA
NA

Attributes by original data submitter

Sample

source_name
CD8 T cells
genotype
wild type
tissue
effector CD8 T cells
cell phenotype
CD8+ CD45.2+
chip antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
CD8+ effector T cells were sort-purified on day 4 post-infection, the cells were then fixed and sonicated to generate chromatin fragments, followed by immunoprecipitation with antibodies against H3K4Me1, H3K4me3, H3K27me3, or H3K27Ac, which were then properly washed and immunoprecipitated DNA extracted. For ChIP-Seq of CBF, naive CD8 T cells and CD8+ effector T cells (sorted on day 8 post-infection) were isolated and immunoprecipated with an anti-CBF antiserum. The DNA segments from ChIP were end-repaired and ligated to indexed Illumina adaptors, followed by amplification by PCR with a low number of cells (18-21 cycles). The resulting libraries were seqeunced with Illumina Hiseq-2000 platform.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
12918922
Reads aligned (%)
98.9
Duplicates removed (%)
11.5
Number of peaks
429 (qval < 1E-05)

mm9

Number of total reads
12918922
Reads aligned (%)
98.7
Duplicates removed (%)
11.7
Number of peaks
437 (qval < 1E-05)

Base call quality data from DBCLS SRA