Antigen

Antigen Class

Input control

Antigen

Input control

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

IgG IP testis samples as control

tissue

testis

age

3-month old

genotype/variation

wild type

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

ChIP, ChIP libraries preparation, and deep sequencing (ChIP-seq): Homogenize WT and Taf7l KO testis tissue from 10 3-month-old mice followed by fixation with 1% formaldehyde for 10 min at room temperature then use 0.125 M glycine to stop the crosslinking for an additional 5 min and collect tissue by spinning down. The chromatin obtained from WT and Taf7l KO testis tissue was fragmented to sizes ranging from 175 to 225 bp using a Covaris-S2 sonicator (Covaris, Inc., Woburn, MA) for a total processing time of 20 min (30 s on, 30 s off). 1mg of the sonicated chromatin was used in each immunoprecipitation reaction with 4ug of Pol II and TAF7L antibodies, 8ug equally mixed mouse and rabbit IgG were used as negative control.Preparation of the sequencing libraries on the DNA samples of the immunoprecipitation from antibodies and IgGs precisely followed the instructions from Illumina (Illumina Inc., San Diego, CA).

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

258253071

Reads aligned (%)

69.8

Duplicates removed (%)

70.3

Number of peaks

3229 (qval < 1E-05)

mm9

Number of total reads

258253071

Reads aligned (%)

69.7

Duplicates removed (%)

70.4

Number of peaks

3235 (qval < 1E-05)