Antigen

Antigen Class

Input control

Antigen

Input control

Cell type

Cell type Class

Gonad

Cell type

Spermatogonia

MeSH Description

Euploid male germ cells of an early stage of SPERMATOGENESIS, derived from prespermatogonia. With the onset of puberty, spermatogonia at the basement membrane of the seminiferous tubule proliferate by mitotic then meiotic divisions and give rise to the haploid SPERMATOCYTES.

Sample

source_name

Cultured undifferentiated spermatogonia

chip antibody

none

tissue

Testis

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Samples were quantified by Qubit and 20ng of DNA was used as starting amounts for all libraries. Samples were sheared by Covaris to ~200-300bp prior to library generation. Libraries were constructed using Ovation Ultralow System V2 using Nugen protocol M01379v1, 2014. Libraries were initially quantified by Qubit and size profile determined using Bioanalyzer followed by quantification by qPCR and pooled in equimolar ratio. Upon qPCR, 200pM of a library pool was used for cluster generation with c-bot (Ilumina Protocol 15006165 v02 Jan 2016). Two lanes of Illumina HiSeq3000 (Ilumina Protocol 15066493 Rev A, February 2015) were used for 50bp single end reads.

Sequencing Platform

instrument_model

Illumina HiSeq 3000

mm10

Number of total reads

87420185

Reads aligned (%)

97.6

Duplicates removed (%)

39.4

Number of peaks

553 (qval < 1E-05)

mm9

Number of total reads

87420185

Reads aligned (%)

97.4

Duplicates removed (%)

39.3

Number of peaks

608 (qval < 1E-05)