Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Embryonic fibroblast
Cell type
MEF
Tissue
Embryonic Fibroblast
Lineage
primaryCells
Description
Mouse Embryonic Fibroblast

Attributes by original data submitter

Sample

source_name
mouse embryonic fibroblast
cell line
MEF
cell type
mouse embryonic fibroblast
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Genomic DNA from MCF10A cells or from growing MEFs was extracted by using Dneasy Blood&Tissue kit. Genomic DNA were sonicated and immunoprecipitated with antibodies anti 8-oxodG O/N. Eluted DNA was processed for library preparation. For ChIp_Seq anti gH2AX, lysates were clarified from sonicasted nuclei and histone-DNA complexes were isolated with specific antibody. Libraries were prepared according to Illumina's instructions

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
27004026
Reads aligned (%)
96.1
Duplicates removed (%)
22.3
Number of peaks
621 (qval < 1E-05)

mm9

Number of total reads
27004026
Reads aligned (%)
95.7
Duplicates removed (%)
22.2
Number of peaks
645 (qval < 1E-05)

Base call quality data from DBCLS SRA