Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Blood
Cell type
Thymocytes
MeSH Description
HEMATOPOIETIC PROGENITOR CELLS that have migrated to the THYMUS where they differentiate into T-LYMPHOCYTES. Thymocytes are classified into maturational stages based on the expression of CELL SURFACE ANTIGENS.

Attributes by original data submitter

Sample

source_name
Tg thy Input
strain background
C57BL/6
genotype/variation
PLZF tg/BirA 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
154619294
Reads aligned (%)
93.3
Duplicates removed (%)
42.5
Number of peaks
763 (qval < 1E-05)

mm9

Number of total reads
154619294
Reads aligned (%)
92.6
Duplicates removed (%)
42.2
Number of peaks
861 (qval < 1E-05)

Base call quality data from DBCLS SRA