Antigen

Antigen Class

TFs and others

Antigen

PAX5

Cell type

Cell type Class

Gonad

Cell type

Testis

MeSH Description

The male gonad containing two functional parts: the SEMINIFEROUS TUBULES for the production and transport of male germ cells (SPERMATOGENESIS) and the interstitial compartment containing LEYDIG CELLS that produce ANDROGENS.

Sample

source_name

Fetal testis

cell type

2nd trimester human fetal testis

antibody

anti-PAX5 (sc-1974, Santa Cruz Biotechnology);

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were lysed with 1% SDS Lysis Buffer (on ice, 5 min) and then centrifuged (2,000 rpm, 10 min). Remove supernatant as described above and resuspend samples in 0.1% SDS buffer with PIC (1ml 0.1%SDS buffer for every 100ul nuclear pellet). Samples were then sonicated with glass beads for 12 times (30 s pulses with 30 s break interval) using the Bioruptor water bath sonicator (Diagenode). Libraries were prepared according to Illumina's instructions by Stanford genomic core facility

Sequencing Platform

instrument_model

Illumina Genome Analyzer

hg38

Number of total reads

45191381

Reads aligned (%)

79.5

Duplicates removed (%)

57.9

Number of peaks

4280 (qval < 1E-05)

hg19

Number of total reads

45191381

Reads aligned (%)

78.6

Duplicates removed (%)

58.7

Number of peaks

4131 (qval < 1E-05)