Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
NANOG

Cell type

Cell type Class
Prostate
Cell type
LNCAP
Primary Tissue
Prostate
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
cultured LNCaP prostate cancer cells
cell line
LNCaP
cell type
prostate cancer cells
genotype/variation
NANOG1 overexpression
cultured with
doxycycline for 4 days
chip antibody
NANOG IgG

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
After formaldehyde fixation, lysed cell DNA was sheared by sonication and immunoprecipitated with an anti-NANOG antibody (Santa Cruz, H-155) vs IgG control and protein-A beads overnight. ChIP libraries were prepared for sequencing using standard Illumina protocols

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

hg38

Number of total reads
22928073
Reads aligned (%)
91.1
Duplicates removed (%)
7.6
Number of peaks
7739 (qval < 1E-05)

hg19

Number of total reads
22928073
Reads aligned (%)
90.3
Duplicates removed (%)
8.2
Number of peaks
7887 (qval < 1E-05)

Base call quality data from DBCLS SRA