Sample information curated by ChIP-Atlas

Antigen

Antigen Class
Histone
Antigen
H3K27ac

Cell type

Cell type Class
Lung
Cell type
Lung tumors
NA
NA

Attributes by original data submitter

Sample

source_name
SCLC lung tumor cells
tissue
Lung
genotype
Rb1fl/fl;p53fl/fl;MycT58ALSL/LSL
antibody
anti-H3K27Ac (Active-Motif, 39133)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Individual lung tumors from mice were micro-dissected, flash frozen and stored at -80°C until ChIP. Tumors were prepared for ChIP by pulverizing frozen tumors into a fine powder. Samples were resuspended in PBS and DNA was crosslinked in 1% formaldehyde. Fixation was terminated by adding glycine. Chromatin was sheared using a Diagenode Bioruptor and mouse tumor chromatin was immunoprecipitated with anti-MYC or anti-H3K27Ac (Active-Motif, 39133), followed by either anti-rabbit Dyna beads or Protein G Dyna beads. The immunoprecipitated chromatin was purified with the Zymo ChIP DNA Clean and Concentrator kit. Libraries were prerpared using a NEBBext ChIP-Seq Library kit and sequenced on an Illumina HiSeq 2500 (single-end 50 bp reads with a min of 35 million reads per sample).

Sequencing Platform

instrument_model
Illumina HiSeq 2500

mm10

Number of total reads
71365036
Reads aligned (%)
97.9
Duplicates removed (%)
10.2
Number of peaks
47613 (qval < 1E-05)

mm9

Number of total reads
71365036
Reads aligned (%)
97.8
Duplicates removed (%)
10.2
Number of peaks
48427 (qval < 1E-05)

Base call quality data from DBCLS SRA