Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
TP63

Cell type

Cell type Class
Digestive tract
Cell type
T.T
Primary Tissue
Esophagus
Tissue Diagnosis
Carcinoma Squamous Cell

Attributes by original data submitter

Sample

source_name
TT_p63_4A4
cell lines
TT
antibody
p63
antibody vendor
Santa-Cruz (sc-8431)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked with 1% formaldehyde, washed with PBS, lysed in lysis buffer (1% SDS, 10mM EDTA, 50mM Tris-HCl, pH 8.0), sonicated with Covaris E210 to shear DNA to 200-1500bp. After immunoprecipitation or without immunoprecipitation for input, beads were washed, RNase A and Proteinase K treated and reverse crosslinked in elution buffer (1% SDS, 0.1M NaHCO3). DNAs were column purified and subjected to standard Illumina library construction.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

hg19

Number of total reads
25500900
Reads aligned (%)
91.6
Duplicates removed (%)
6.1
Number of peaks
4238 (qval < 1E-05)

hg38

Number of total reads
25500900
Reads aligned (%)
93.9
Duplicates removed (%)
4.6
Number of peaks
4162 (qval < 1E-05)

Base call quality data from DBCLS SRA