Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
ZEB1

Cell type

Cell type Class
Lung
Cell type
NCI-H1975
Primary Tissue
Lung
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
non-small cell lung cancer, parental cells
cell line
H1975
cell type
lung adenocarcinoma cell line
gender
female
chip antibody
anti-ZEB1

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
In brief, 2x10e7 H1975 and H1975 R2 were fixed in 1% formaldehyde. Sonication was calibrated such that DNA was sheared to between 400 and 1,000 bp. ZEB1 was immunoprecipitated with Cell Signaling TCF8/ZEB1 (D80D3) Rabbit mAb #3396. ChIP DNA was used to generate sequencing libraries by end repair (End-It DNA repair kit, Epicentre), 3' A base overhang addition via Klenow fragment (NEB), and ligation of barcoded sequencing adapters. Barcoded fragments were amplified via PCR. Libraries were sequenced as 40 bp paired end reads on an Illumina NextSeq500 instrument.

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
32363645
Reads aligned (%)
151.3
Duplicates removed (%)
14.6
Number of peaks
506 (qval < 1E-05)

hg38

Number of total reads
32363645
Reads aligned (%)
154.7
Duplicates removed (%)
14.0
Number of peaks
818 (qval < 1E-05)

Base call quality data from DBCLS SRA