Antigen

Antigen Class

TFs and others

Antigen

Setdb1

Cell type

Cell type Class

Embryonic fibroblast

Cell type

MEF

Tissue

Embryonic Fibroblast

Lineage

primaryCells

Description

Mouse Embryonic Fibroblast

Sample

source_name

mouse embryonic fibroblasts

strain

129/C57 dams x CAST sires

tissue

E13.5 mouse embryo derived fibroblasts

genotype

Setdb1+/gt Xist-deltaA/+

shRNA

shSetdb1

sequencing protocol

single-end

chip antibody

Setdb1 (Santa Cruz Biotechnology, sc-66884, lot L1812)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP-seq, nuclei were isolated from formaldehyde crosslinked NSCs and chromatin was fragmented by sonication. Chromatin immunoprecipitation was performed with corresponding antibodies. DNA was extracted from the immunoprecipitated fraction following reverse-crosslinking. Sequencing libraries was generated with Illumina's TruSeq DNA Sample Preparation Kit according to manufacturer's instruction.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

20352346

Reads aligned (%)

49.5

Duplicates removed (%)

19.1

Number of peaks

255 (qval < 1E-05)

mm9

Number of total reads

20352346

Reads aligned (%)

49.4

Duplicates removed (%)

19.2

Number of peaks

197 (qval < 1E-05)