Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Breast
Cell type
HMLE
NA
NA

Attributes by original data submitter

Sample

source_name
HMLE RAS pCW57bla Avitag TFIISDN
growth conditions
DMEM/F-12(50/50), +hEGF, +hydrocortisone, +insulin, +blasticidin
antibody
Input
molecule
Genomic DNA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cross-linked chromatin was sonicated with a Bioruptor 1-2 mg of cross-linked extract was immunoprecipitated, and prepared for illumina library construction by repair with Klenow, T4 DNA polymerase and T4 polynucleotide kinase, A-tailing with Klenow exo-, ligation to branched adaptors, SPRI bead purification of ~200bp fragments, and amplification (15-18 cycles) with Illumina Tru-seq primers using Phusion DNA polymerase.

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg38

Number of total reads
4070423
Reads aligned (%)
73.8
Duplicates removed (%)
7.2
Number of peaks
121 (qval < 1E-05)

hg19

Number of total reads
4070423
Reads aligned (%)
72.9
Duplicates removed (%)
7.3
Number of peaks
103 (qval < 1E-05)

Base call quality data from DBCLS SRA