Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TCEA2

Cell type

Cell type Class
Breast
Cell type
HMLE
NA
NA

Attributes by original data submitter

Sample

source_name
HMLE RAS pCW57bla Avitag TFIISWT
growth conditions
DMEM/F-12(50/50), +hEGF, +hydrocortisone, +insulin, +blasticidin
antibody
Rabbit anti-avi-tag (GenScript A00674)
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

hg19

Number of total reads
27149187
Reads aligned (%)
44.3
Duplicates removed (%)
28.8
Number of peaks
801 (qval < 1E-05)

hg38

Number of total reads
27149187
Reads aligned (%)
45.6
Duplicates removed (%)
27.3
Number of peaks
1174 (qval < 1E-05)

Base call quality data from DBCLS SRA