Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

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

Attributes by original data submitter

Sample

source_name
OT-I CD8 T cells
strain background
OT-I transgenic
hdac3 genotype
KO
cell type
CD8 T cells
drug treatment
NIL
day post-activation
Day 0 (naïve)
chip antibody
H3K27ac

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were fixed using 1% formaldehyde and chromatin sheared to 300-500 bp in size using the Covaris E220 ultrasonicator. Resulting chromatin was incubated overnight with indicated antibodies. Purified immunoprecipitates were isolated and quantified by Qubit fluorometer. DNA sequencing libraries were prepared using the ThruPLEX-FD Prep kit (Rubicon Genomics). Libraries were sequenced using 75-bp reads on the Illumina platform at the Dana-Farber Cancer Institute.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
41893381
Reads aligned (%)
97.0
Duplicates removed (%)
15.5
Number of peaks
21154 (qval < 1E-05)

mm9

Number of total reads
41893381
Reads aligned (%)
96.8
Duplicates removed (%)
15.5
Number of peaks
21143 (qval < 1E-05)

Base call quality data from DBCLS SRA