Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
Pitx1

Cell type

Cell type Class
Epidermis
Cell type
Squamous cell carcinoma
NA
NA

Attributes by original data submitter

Sample

source_name
squamous cell carcinoma
strain
C57BL/6
tissue
skin
antibody
anti-Pitx1 (Santa Cruz, 18922), 4ug
condition
5,000 cells were injected intradermally to form tumor allografts
condition
In the end point of the experiment, 1x10^6 cells were sorted gatting in integrin α6 and integrin b1

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

mm10

Number of total reads
48618066
Reads aligned (%)
94.6
Duplicates removed (%)
60.2
Number of peaks
926 (qval < 1E-05)

mm9

Number of total reads
48618066
Reads aligned (%)
94.4
Duplicates removed (%)
60.4
Number of peaks
903 (qval < 1E-05)

Base call quality data from DBCLS SRA