Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
RB1

Cell type

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

Attributes by original data submitter

Sample

source_name
Prostate Cancer Cells
cell line
LNCaP
cell type
Prostate cancer
passage
10 to 15
antibody
Rb antibody (Cell Signaling Technology (Mouse mAb 4H1, #9309S, Lot:9))

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells were crosslinked with formaldehyde and then sonicated. DNA were immunoprecipitatted with Rb antibody and protein A/G beads. After reverse crosslinking, DNA were purifed with Qiagen PCR purification kit. ChIP DNA Library were prepared with NEBNext ChIP-Seq Library Prep Reagent set for Illumina and NEBNext Multiplex Oligos for Illumina (Dual Index Primers Set 1)

Sequencing Platform

instrument_model
Illumina MiSeq

hg19

Number of total reads
11780035
Reads aligned (%)
76.1
Duplicates removed (%)
60.1
Number of peaks
8337 (qval < 1E-05)

hg38

Number of total reads
11780035
Reads aligned (%)
76.4
Duplicates removed (%)
60.0
Number of peaks
8384 (qval < 1E-05)

Base call quality data from DBCLS SRA