Antigen

Antigen Class

RNA polymerase

Antigen

RNA polymerase II

Cell type

Cell type Class

Embryonic fibroblast

Cell type

MEF

Tissue

Embryonic Fibroblast

Lineage

primaryCells

Description

Mouse Embryonic Fibroblast

Sample

source_name

wildtype-Chd1 MEFs N20 ChIP_seq

cell type

embryonic fibroblasts

transgene

wildtype-Chd1

antibody

N20 (Santa Cruz catalog #sc-899)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Mouse embryonic fibroblasts (MEFs) expressing wildtype transgenic Chd1 were crosslinked using formaldehyde for 10 minutes at room temperature. Chromatin was fragmented using MNase and then sonicated to ensure complete extraction of chromatin and associated proteins. Chromatin was immunoprecipitated using an antibody (N20) against the N-terminus of the largest subunit of RNA Polymerase II. DNA was extracted from the solubilized chromatin and subjected to Illumina (Solexa) sequencing.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

mm10

Number of total reads

86160602

Reads aligned (%)

83.6

Duplicates removed (%)

47.6

Number of peaks

18075 (qval < 1E-05)

mm9

Number of total reads

86160602

Reads aligned (%)

83.5

Duplicates removed (%)

48.8

Number of peaks

19074 (qval < 1E-05)