ChIP-Atlas: SRX5704228

Sample information curated by ChIP-Atlas

Antigen

Antigen Class: Unclassified
Antigen: Unclassified

Cell type

Cell type Class: Prostate
Cell type: 22Rv1
Primary Tissue: Prostate
Tissue Diagnosis: Carcinoma

Attributes by original data submitter

Sample

source_name: Human prostate cell line 22Rv1
tissue: human prostate cancer
treatment: HOXC6 expression
genotype: wild type
cell line: 22Rv1

Sequenced DNA Library

library_strategy: ChIP-Seq
library_source: GENOMIC
library_selection: ChIP
library_construction_protocol: RNA was extracted using the DirectZol RNA kit (Zymo, R2062). The RNA_seq libraries were made using Kapa mRNA HyperPrep Kit (KAPA, KKK8581) according to manufacturer's instructions. ChIP_seq libraries were prepared using the Kapa Hyper prep kit (Kapa, KK8503) according to the manufacturer's protocol.

Sequencing Platform

instrument_model: Illumina HiSeq 3000

Where can I get the processing logs?

Read processing pipeline log

hg38

Number of total reads: 20476700
Reads aligned (%): 98.8
Duplicates removed (%): 8.5
Number of peaks: 17750 (qval < 1E-05)

hg19

Number of total reads: 20476700
Reads aligned (%): 98.0
Duplicates removed (%): 8.9
Number of peaks: 17774 (qval < 1E-05)

Base call quality data from DBCLS SRA