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
T3/emp organoid
strain
C57BL/6
cell type
Mouse PDA primary tumor organoid (T3)
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

mm10

Number of total reads
22295962
Reads aligned (%)
88.9
Duplicates removed (%)
53.3
Number of peaks
333 (qval < 1E-05)

mm9

Number of total reads
22295962
Reads aligned (%)
88.7
Duplicates removed (%)
53.4
Number of peaks
327 (qval < 1E-05)

Base call quality data from DBCLS SRA