SRX8746242
GSM4674819: LNCaP95 rep2; Homo sapiens; ATAC-seq

Sample information curated by ChIP-Atlas

Antigen

Antigen Class
ATAC-Seq
Antigen
ATAC-Seq

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
cell line
LNCaP95
subtype
Castration-resistant adenocarcinoma

Sequenced DNA Library

library_strategy
ATAC-seq
library_source
GENOMIC
library_selection
other
library_construction_protocol
DNA was extracted from 50,000 cells per cell line after washing, permeabilization, and transposition using the Qiagen MinElute Kit Libraries were constructed based on a published Omni-ATAC protocol (Corces MR, et al. Nature Protocols, 2017)

Sequencing Platform

instrument_model
Illumina HiSeq 2500

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads
30722252
Reads aligned (%)
93.7
Duplicates removed (%)
19.3
Number of peaks
81213 (qval < 1E-05)

hg19

Number of total reads
30722252
Reads aligned (%)
93.5
Duplicates removed (%)
19.5
Number of peaks
85308 (qval < 1E-05)

Base call quality data from DBCLS SRA