Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pancreas
Cell type
Islets of Langerhans
MeSH Description
Irregular microscopic structures consisting of cords of endocrine cells that are scattered throughout the PANCREAS among the exocrine acini. Each islet is surrounded by connective tissue fibers and penetrated by a network of capillaries. There are four major cell types. The most abundant beta cells (50-80%) secrete INSULIN. Alpha cells (5-20%) secrete GLUCAGON. PP cells (10-35%) secrete PANCREATIC POLYPEPTIDE. Delta cells (~5%) secrete SOMATOSTATIN.

Attributes by original data submitter

Sample

source_name
pancreatic islets
antibody
none (input)
tissue
pancreatic islets
genotype
RIP-Cre
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
8886257
Reads aligned (%)
98.5
Duplicates removed (%)
11.7
Number of peaks
308 (qval < 1E-05)

mm9

Number of total reads
8886257
Reads aligned (%)
98.3
Duplicates removed (%)
11.9
Number of peaks
294 (qval < 1E-05)

Base call quality data from DBCLS SRA