Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Natural Killer T-Cells
MeSH Description
A specific natural killer T-cell subtype that expresses an invariant T-cell receptor alpha-chain.

Attributes by original data submitter

Sample

source_name
NKT Input
strain background
C57BL/6
genotype/variation
PLZF tg/BirA tg/Valpha14 tg mice
cell type
Thymocytes
chip beads/antibody
None

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and PLZF-DNA complexes were isolated with magnetic Streptavidin beads. Libraries were prepared according to Illumina TruSeq DNA Sample Preparation Guide (Part# 15026486).

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
118852795
Reads aligned (%)
97.6
Duplicates removed (%)
30.3
Number of peaks
689 (qval < 1E-05)

mm9

Number of total reads
118852795
Reads aligned (%)
97.0
Duplicates removed (%)
30.1
Number of peaks
817 (qval < 1E-05)

Base call quality data from DBCLS SRA