Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
Mammary epithelial cells
NA
NA

Attributes by original data submitter

Sample

source_name
Basal Input
strain
FBV/N
tissue
Mammary epithelium
cell type
Basal epithelial cell
chip antibody
none

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
The ChIP assay was carried out as per the manufacturer's protocol (Millipore #17-371). The ChIP DNA samples were prepared and indexed for Ilumina sequencing using the TruSeq DNA sample Prep Kit (Ilumina) as per manufacturer's instructions. The indexed libraries were then prepared for single-end 75-85 bp sequencing on an Illumina NextSeq 500 using the 150 cycle kit v2 chemistry (Ilumina) as per the manufacturer's instructions.

Sequencing Platform

instrument_model
NextSeq 500

mm10

Number of total reads
96522381
Reads aligned (%)
94.4
Duplicates removed (%)
14.0
Number of peaks
803 (qval < 1E-05)

mm9

Number of total reads
96522381
Reads aligned (%)
94.2
Duplicates removed (%)
13.9
Number of peaks
924 (qval < 1E-05)

Base call quality data from DBCLS SRA