Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Input control
Antigen
Input control

Cell type

Cell type Class
Pancreas
Cell type
Pancreatic alpha cells
NA
NA

Attributes by original data submitter

Sample

source_name
pancreatic alpha cells aTC1-9 expressing 3xFlag-Glis3-mcherry
cell type
pancreatic alpha cells
cell line
aTC1-9
chip antibody
none (input)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
αTC1-9 cells in culture dishes were cross-linked with 1% formaldehyde for 10 minutes, processed for chromatin lysate preparation and chromatin immunoprecipitation (ChIP). Chromatin lysate was sonicated with a Bioruptor system (Diagenode) to yield a DNA smear averaging ~200-500 bp. Sonicated chromatin lysate from 5 million ES cells was used for each ChIP with ANTI-FLAG® M2 Affinity Gel. Input and ChIP DNA were size-selected (~200-500nt). Libraries were prepared from size-selected Input and ChIP DNA according to the standard Illimina library preparation protocol

Sequencing Platform

instrument_model
Illumina Genome Analyzer II

mm10

Number of total reads
29794000
Reads aligned (%)
97.0
Duplicates removed (%)
11.3
Number of peaks
1272 (qval < 1E-05)

mm9

Number of total reads
29794000
Reads aligned (%)
96.8
Duplicates removed (%)
11.3
Number of peaks
729 (qval < 1E-05)

Base call quality data from DBCLS SRA