Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
C3H/10T1/2
NA
NA

Attributes by original data submitter

Sample

source_name
C3H10T1/2 cells
strain
C3H
cell type
mesenchymal stem cell
cell line
C3H10T1/2
chip-antibody
NA
day of differentiation
day7

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked with 1% formaldehyde for 10 min at 37◦C; then, crude nuclei were purified. Chromatin was fragmented by sonication with a Bioruptor UCD-300 (Diagenode) to obtain fragments 200–800 bp in length. For each ChIP assay, 2–5 ug of antibodi_x0000__x001A__x001B__x0003__x0000__x0019__x001B__x0005__x0000__x001A__x0006__x0005_￸_x000B__x0000__x0000__x0000__x0000__x001B__x0003__x0000__x0017__x001B__x0005__x0000__x0013__x001B__x0005__x0000__x001A_'_x0003__x0000__x001A__x001B__x0003__x0000__x0019__x0000__x0000__x0000__x0000__x001B__x0005__x0000__x001A__x001B__x0005__x0000__x001A__x001B__x0003__x0000__x0017_'_x0005__x0000_ _x001B__x0003__x0000__x0019_%_x0005__x0000_ _x0000__x0000__x0000__x0000__x001B__x0000__x0000_&_x001B__x0003__x0000__x0019__x001B__x0005__x0000__x0013__x001B__x0003__x0000__x0019__x0000__x0000__x0000__x0000__x001B__x0005_￶_x001C__x001B__x0005__x0000__x001A__x001B__x0005__x0000__x0013_%_x0005__x0000_ '_x0002__x0000__x0015_%_x0005__x0000_ _x001B__x0003__x0000__x0019_'_x0003__x0000__x001A__x0006__x0005__x0000__x000B__x0000__x0000__x0000__x0000_%_x0003_ ChIP-seq libraries were generated following the procedue described in "TELP, a sensitive and versatile library construction method for next-generation sequencing" by Peng X, Wu J, Brunmeir R, Kim SY, Zhang Q, Ding C, Han W, Xie W, Xu F., published in Nucleic Acids Res. 2015 Mar 31;43(6):e35. doi: 10.1093/nar/gku818. Epub 2014 Sep 15.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
21960228
Reads aligned (%)
95.2
Duplicates removed (%)
31.9
Number of peaks
421 (qval < 1E-05)

mm9

Number of total reads
21960228
Reads aligned (%)
94.9
Duplicates removed (%)
31.9
Number of peaks
447 (qval < 1E-05)

Base call quality data from DBCLS SRA