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.

Sample

source_name

Rag2-/- thymocyte

strain

129

sample type

Primary cell

cell type/line

thymocyte

age

4 weeks

genotype/variation

Rag2-/- thymocyte

antibody

NA

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Nucleosomes were obtained by micrococcal nuclease digestion and antibody added. Pulldown was performed using protein A-agarose and bound DNA was purified by phenol-chloroform extraction Library preparation and high-throughput sequencing were performed by the Duke Center for Genomic and Computational Biology Core Facility

Sequencing Platform

instrument_model

Illumina HiSeq 4000

mm10

Number of total reads

116412865

Reads aligned (%)

93.8

Duplicates removed (%)

19.3

Number of peaks

724 (qval < 1E-05)

mm9

Number of total reads

116412865

Reads aligned (%)

93.6

Duplicates removed (%)

19.3

Number of peaks

726 (qval < 1E-05)