Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Runx2

Cell type

Cell type Class
Bone
Cell type
MC3T3-E1
NA
NA

Attributes by original data submitter

Sample

source_name
matrix-depositing MC3T3-E1 subclone 4 cells at day 9
cell type
matrix-depositing osteoblast
passages
28-31
strain
C57BL/6
chip antibody
Runx2 antibody (M70, Santa Cruz Biotechnologies, Inc.)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were obtained from sonicated nuclei and Runx2-DNA complexes were isolated with Runx2 antibody (M70). 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
33414085
Reads aligned (%)
95.2
Duplicates removed (%)
8.2
Number of peaks
44889 (qval < 1E-05)

mm9

Number of total reads
33414085
Reads aligned (%)
95.0
Duplicates removed (%)
8.2
Number of peaks
44920 (qval < 1E-05)

Base call quality data from DBCLS SRA