Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Biotin

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 Streptavidin ChIP-seq
strain background
C57BL/6
genotype/variation
PLZF tg/BirA tg mice
cell type
Thymocytes
chip beads/antibody
Streptavidin beads (Invitrogen; 14204)

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
134108844
Reads aligned (%)
92.7
Duplicates removed (%)
37.4
Number of peaks
1405 (qval < 1E-05)

mm9

Number of total reads
134108844
Reads aligned (%)
92.4
Duplicates removed (%)
37.3
Number of peaks
1479 (qval < 1E-05)

Base call quality data from DBCLS SRA