Antigen

Antigen Class

TFs and others

Antigen

Ctcf

Cell type

Cell type Class

Bone

Cell type

MC3T3-E1

NA

NA

Sample

source_name

matrix-depositing MC3T3-E1 subclone 4 cells at day 9

cell line

MC3T3-E1

time

day9

cell type

matrix-depositing osteoblast

passages

28-31

strain

C57BL/6

chip antibody

Ctcf antibody (Millipore, catalog#07-729, lot#DAM1772428)

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

For ChIP-Seq, nuclear lysates were sonicated and Ctcf-DNA complexes were isolated with Ctcf antibody (Millipore, 07-729). Libraries of purified DNA were generated using Illumina SR adapters (Illumina) following manufacturer’s manual, and were selected for the inserted fragments of 200 ± 50 bp, and sequenced 36 bases on an Illumina Genome Analyzer II.

Sequencing Platform

instrument_model

Illumina Genome Analyzer II

mm10

Number of total reads

51077975

Reads aligned (%)

95.1

Duplicates removed (%)

13.1

Number of peaks

40159 (qval < 1E-05)

mm9

Number of total reads

51077975

Reads aligned (%)

94.9

Duplicates removed (%)

13.1

Number of peaks

40241 (qval < 1E-05)