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Sample GSM2694844 Query DataSets for GSM2694844
Status Public on May 16, 2018
Title 3days_2M_Input
Sample type SRA
 
Source name C-OSKM Pancreas 3days M Input
Organism Mus musculus
Characteristics tissue: pancreas
Sex: male
strain: mixed (129X1/Sv / C57BL/6)
chip antibody: none (input)
Extracted molecule genomic DNA
Extraction protocol Purified ChIP DNA (5 ng per sample) was used for generation of sequencing libraries with TruSeq ChIP Sample Prep Kit (Illumina).
The resultant DNA libraries were assessed on an Agilent Bioanalyzer and quantified with KAPA Library Quantification Kits (KAPA BIOSYSTEMS). The libraries were sequenced to generate single-end 86 bp reads using NextSeq 500 (illumina).
 
Library strategy ChIP-Seq
Library source genomic
Library selection ChIP
Instrument model Illumina NextSeq 500
 
Data processing The low-quality bases at the 3' read ends and the adaptors were trimmed using cutadapt-1.9.1. Untrimmed and trimmed reads of 20 bp or longer were mapped to mouse genome (mm10) with BWA 0.7.12 with default setting.
Duplicate reads and low mapping quality reads (MAPQ < 20) were removed using Picard and SAMtools.
Genome_build: mm10
Supplementary_files_format_and_content: Supplementary_files_format_and_content: bw (bigwig) *The data were normalized as RPM (reads per million)
 
Submission date Jul 05, 2017
Last update date May 16, 2018
Contact name Yasuhiro Yamada
E-mail(s) yyamada@m.u-tokyo.ac.jp
Organization name University of Tokyo
Department Department of Molecular Pathology
Street address 7-3-1 Hongo, Bunkyo-ku
City Tokyo
ZIP/Postal code 113-0033
Country Japan
 
Platform ID GPL19057
Series (2)
GSE100841 In vivo reprogramming drives Kras-induced cancer development [ChIP-seq]
GSE100842 In vivo reprogramming drives Kras-induced cancer development
Relations
BioSample SAMN07326220
SRA SRX2986354

Supplementary file Size Download File type/resource
GSM2694844_3days_2M_Input.narrow.excBL.bw 3.1 Gb (ftp)(http) BW
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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