Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
POU2F1

Cell type

Cell type Class
Digestive tract
Cell type
HCT 116
Primary Tissue
Colon
Tissue Diagnosis
Carcinoma

Attributes by original data submitter

Sample

source_name
HCT116 cells
tissue
colorectal carcinoma
chip antibody
Oct1 (Pou2f1)

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 (Oct1: Bethyl A310-610A, H3K4me3: Cell Signaling #9727). Qiagen Qiaquick PCR cleanup kit (Cat # 28104). Elution in nuclease-free water. NEBNext ChIP-Seq Library Prep Master Mix Set (Cat # E6240S) with Unique Dual Index Adapters

Sequencing Platform

instrument_model
Illumina NovaSeq 6000

hg19

Number of total reads
88792922
Reads aligned (%)
117.2
Duplicates removed (%)
39.4
Number of peaks
783 (qval < 1E-05)

hg38

Number of total reads
88792922
Reads aligned (%)
118.5
Duplicates removed (%)
39.0
Number of peaks
2524 (qval < 1E-05)

Base call quality data from DBCLS SRA