Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
PITX1

Cell type

Cell type Class
Others
Cell type
Head and neck squamous cell carcinoma
NA
NA

Attributes by original data submitter

Sample

source_name
Head and neck squamous cell carcinoma
tissue
tongue
antibody
anti-Pitx1 (Santa Cruz, 18922), 4ug.
condition
Cells were grown DMEM-F12 media 10% FBS

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Chromatin was prepared from 2x10^7 SCC cells or 1x10^6 sorted cells using the ChIP-IT High Sensitivity kit (53040, Active Motif) according to manufacturers instructions. Library prep was performed with ThruPLEX DNA-seq kit (Rubicon Genomics, R400427) using 200pg of ChIP DNA or KAPA Hyper Prep kit (KAPA, KK8505) using 1ng of ChIP DNA

Sequencing Platform

instrument_model
Illumina HiSeq 2500

hg19

Number of total reads
35866128
Reads aligned (%)
38.2
Duplicates removed (%)
58.9
Number of peaks
1569 (qval < 1E-05)

hg38

Number of total reads
35866128
Reads aligned (%)
39.0
Duplicates removed (%)
58.2
Number of peaks
1479 (qval < 1E-05)

Base call quality data from DBCLS SRA