Antigen

Antigen Class

TFs and others

Antigen

TP63

Cell type

Cell type Class

Others

Cell type

UM-SCC-104

NA

NA

Sample

source_name

UM-SCC-104

cell line

UM-SCC-104

antibody

p63 4A4 (Santa Cruz)

cell type

HPV+ Head and Neck Squamous Cell Carcinoma

shRNAs

N/A

Sequenced DNA Library

library_strategy

ChIP-Seq

library_source

GENOMIC

library_selection

ChIP

library_construction_protocol

RNA-seq - RNA was extracted from human cancer cell lines (SCC104 and SCC152) using the Direct-zol Mini-Prep kit, ChIP-seq - cells were fixed with formaldehyde for 10 mins and then chromatin was extracted RNA-seq - Illumina TruSeq RNA sample Prep Kit was used with 1 ug of total RNA for the construction of sequencing libraries, ChIP-seq - libraries were prepared using ThruPLEX DNA-seq kits from Reubicon Genomics

Sequencing Platform

instrument_model

Illumina HiSeq 2500

hg38

Number of total reads

34763530

Reads aligned (%)

92.6

Duplicates removed (%)

4.5

Number of peaks

16641 (qval < 1E-05)

hg19

Number of total reads

34763530

Reads aligned (%)

92.0

Duplicates removed (%)

5.9

Number of peaks

16617 (qval < 1E-05)