Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
HIF1A

Cell type

Cell type Class
Prostate
Cell type
PC-3
Primary Tissue
Prostate
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
PC3 cells
protocol
Hypoxia_siSMAD3
cell line
PC3 cells
tumor type
prostate cancer
antibody
HIF1A

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were clarified from sonicated nuclei and protein-DNA complexes were isolated with antibody. ChIP-enriched DNA was used for library creation with the Rubicon ThruPLEX-FD kit and sequenced (75 bp single-end reads).

Sequencing Platform

instrument_model
NextSeq 500

hg19

Number of total reads
62476733
Reads aligned (%)
26.9
Duplicates removed (%)
71.9
Number of peaks
3350 (qval < 1E-05)

hg38

Number of total reads
62476733
Reads aligned (%)
28.1
Duplicates removed (%)
70.8
Number of peaks
3371 (qval < 1E-05)

Base call quality data from DBCLS SRA