Antigen

Antigen Class

TFs and others

Antigen

CHD1

Cell type

Cell type Class

Others

Cell type

Mesenchymal stem cells

NA

NA

Sample

source_name

Bone marrow derived mesenchymal stem cells

antibody

CHD1 (Bethyl ,A301-218A)

differentiation-induction

Osteoblast differentiation

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

Cells were crosslinked for 10 minutes with 1% Formaldehyde in PBS or 1.42% formaldehyde for CHD1 ChIP. Chromatin extraction and subsequent steps were performed as described in Najafova et al. 2016. Briefly, nuclear extracts were incubated with 1 – 2 µg of antibody over night before precipitation with protein A or G sepharose beads. After washing the immunoprecipitated complexes the DNA was isolated via phenol-chloroform extraction. ChIP DNA library preparation was performed with the MicroPlex Library Preparation Kit (Diagenode) according to the manufacturer's instructions.

Sequencing Platform

instrument_model

Illumina HiSeq 2000

hg38

Number of total reads

34972158

Reads aligned (%)

78.9

Duplicates removed (%)

13.1

Number of peaks

11940 (qval < 1E-05)

hg19

Number of total reads

34972158

Reads aligned (%)

78.3

Duplicates removed (%)

14.9

Number of peaks

11881 (qval < 1E-05)