Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pancreas
Cell type
Pancreatic islet tumor
NA
NA

Attributes by original data submitter

Sample

source_name
pancreatic islet tumor
antibody
none (input)
tissue
pancreatic islet tumor
genotype
Men1 islet-specific knockout
age
Harvested at age of 12 months
strain
mixed 129s6, FVB/N, and C57BL/6

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Crosslinked with 1% formaldehyde, washed with PBS, lysed in lysis buffer (1% SDS, 10mM EDTA, 50mM Tris-HCl, pH 8.0), sonicated with Covaris E210 to shear DNA to 200-1500bp. After immunoprecipitation or without immunoprecipitation for input, beads were washed, RNase A and Proteinase K treated and reverse crosslinked in elution buffer (1% SDS, 0.1M NaHCO3). DNAs were column purified standard Illumina library construction.

Sequencing Platform

instrument_model
Illumina HiSeq 2000

mm10

Number of total reads
10652928
Reads aligned (%)
98.5
Duplicates removed (%)
11.2
Number of peaks
286 (qval < 1E-05)

mm9

Number of total reads
10652928
Reads aligned (%)
98.2
Duplicates removed (%)
11.4
Number of peaks
299 (qval < 1E-05)

Base call quality data from DBCLS SRA