Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pancreas
Cell type
Pancreatic ductal adenocarcinoma
NA
NA

Attributes by original data submitter

Sample

source_name
hT2-2D/emp cells
strain
PDA patient
cell type
Monolayer-cultured cells established from PDX-derived primary tumor organoid
peturbation
Transduced with MSCV/emp retrovirus
antibody
Ipt genomic DNA

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Lysates were prepared from ~1 millon single cell dissociated of organoid cultures, or ~5 million of monolayer cultures. Sonicated nuclei with Bioruptor were further proceeded to ChIP assay with apporiate antibodies. Libraries were prepared according to Illumina's instructions of TruSeq ChIP Sample Prep kit.

Sequencing Platform

instrument_model
NextSeq 500

hg38

Number of total reads
16439777
Reads aligned (%)
98.1
Duplicates removed (%)
7.0
Number of peaks
405 (qval < 1E-05)

hg19

Number of total reads
16439777
Reads aligned (%)
97.6
Duplicates removed (%)
8.0
Number of peaks
564 (qval < 1E-05)

Base call quality data from DBCLS SRA