Antigen

Antigen Class

Unclassified

Antigen

Unclassified

Cell type

Cell type Class

Blood

Cell type

Thymus

NA

NA

Sample

source_name

Total child thymus

tissue

thymus

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

DNA was purified by phenol/chloroform extraction. ChIP DNA were purified and end-repaired using a combination of T4 DNA polymerase, E. coli DNA Pol I large fragment (Klenow polymerase) and T4 polynucleotide kinase. The blunt, phosphorylated ends were treated with Klenow fragment (3' to 5' exo minus) and dATP to yield a protruding 3’ 'A' base for ligation of Illumina's adapters which have a single 3' overhanging 'T' base. After adapter ligation DNA was PCR amplified with Illumina primers for 25 cycles, and the product was selected for 200~300 bp (insert plus adaptor and PCR primer sequences) by gel electrophoresis and extraction (QIAex II, Qiagen). The purified DNA was subjected for a second round of PCR amplification for 10 cycles. Libraries were sequenced on the Genome Analyzer II following the manufacturer's protocols.

Sequencing Platform

instrument_model

Illumina Genome Analyzer II

hg38

Number of total reads

63281367

Reads aligned (%)

95.1

Duplicates removed (%)

13.8

Number of peaks

2046 (qval < 1E-05)

hg19

Number of total reads

63281367

Reads aligned (%)

94.0

Duplicates removed (%)

15.3

Number of peaks

1641 (qval < 1E-05)