Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
GTF2B

Cell type

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

Attributes by original data submitter

Sample

source_name
Hela
cell line
HeLa
cell stage
Mitotic
drug treatment
Nocodazole
chip antibody
TFIIB(Santa Cruz, sc-225)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
For ChIP-seq, HeLa cells were crosslinked with 1% paraformaldehyde for 10 minutes and were quenched by glycine for 5 minutes at room temperature. Fixed chromatin was sonicated with a Misionix sonicator 3000 and immunoprecipitated with a specific antibody. ChIP-sequencing libraries were prepared with Illumina’s Tru-seq DNA sample prep kit using standard protocols. Nascent RNA-seq libraries were prepared with Illumina’s Ribo-Zero Gold and TruSeq RNA sample Prep Kit using standard protocols.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
17471220
Reads aligned (%)
56.4
Duplicates removed (%)
4.8
Number of peaks
1864 (qval < 1E-05)

hg38

Number of total reads
17471220
Reads aligned (%)
57.2
Duplicates removed (%)
4.0
Number of peaks
1885 (qval < 1E-05)

Base call quality data from DBCLS SRA