Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
CPSF3

Cell type

Cell type Class
Uterus
Cell type
HeLa
Primary Tissue
Cervix
Tissue Diagnosis
Adenocarcinoma

Attributes by original data submitter

Sample

source_name
HeLa cells
cell line
HeLa cells
molecule subtype
CPSF73 bound DNA
genotype/treatment
PCF11 knock-down (5 nM)
antibody
Rabbit polyclonal anti-CPSF73 Bethyl Cat# A301-091A
calibration
Drosophila spike-in

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
ChIP was performed as described in accompanying paper. Antibodies used are indicated for each sample. Sample 1-12: genomic libraries were prepared using NEBNext ChIP-Seq master-mix kit. Sample 13-25: Diagenode MicroPlex library preparation kit v2 (C05010012) was used to prepare libraries for sequencing, following manufacturer's instructions.

Sequencing Platform

instrument_model
NextSeq 550

hg19

Number of total reads
59205291
Reads aligned (%)
31.7
Duplicates removed (%)
75.8
Number of peaks
590 (qval < 1E-05)

hg38

Number of total reads
59205291
Reads aligned (%)
32.9
Duplicates removed (%)
75.1
Number of peaks
684 (qval < 1E-05)

Base call quality data from DBCLS SRA