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Sample GSM927341 Query DataSets for GSM927341
Status Public on May 10, 2013
Title Non-smoker female, NSCLC, MeDIP-Seq [P3T]
Sample type SRA
 
Source name Non-smoker female, NSCLC
Organism Homo sapiens
Characteristics disease: Adenocarcinoma, NSCLC
patient: 3
tissue type: tumor
Stage: IIB
gender: female
age: 53 years
smoker: non-smoker
Treatment protocol Standard protocol by phenol extraction
Extracted molecule genomic DNA
Extraction protocol Methylated CpG island-associated DNA was prepared using methylation specific antibody. This ChIPed DNA was processed for high throughput sequencing using Illumina ChIP-Seq Sample Prep Kit. For sequencing, 200bp insert sized library was selected from agarose gel. Sequencing was performed at Illumina Genome Analyzer IIx, single read sequencing.
 
Library strategy MeDIP-Seq
Library source genomic
Library selection 5-methylcytidine antibody
Instrument model Illumina Genome Analyzer IIx
 
Description 53 years; female; a non-smoker
Data processing Basecalls performed using Illumina Genome AnalyzerIIx
DNA methylation density is calculated by counting reads after binning with bin size 200bp
Genome_build: hg19
Supplementary_files_format_and_content: text
 
Submission date May 04, 2012
Last update date May 15, 2019
Contact name Sanghyuk Lee
E-mail(s) sanghyuk@ewha.ac.kr
Phone +82-42-879-8511
Fax +82-42-879-8519
URL http://www.kobic.re.kr
Organization name KRIBB
Department KOBIC
Street address 125 Gwahak-ro
City Daejeon
ZIP/Postal code 305-806
Country South Korea
 
Platform ID GPL10999
Series (2)
GSE37764 A high dimensional deep sequencing study of non-small cell lung adenocarcinoma in never-smoker Korean females [Seq]
GSE37765 A high dimensional deep sequencing study of non-small cell lung adenocarcinoma in never-smoker Korean females
Relations
SRA SRX145903
BioSample SAMN00990856

Supplementary file Size Download File type/resource
GSM927341_P3T_200binning.txt.gz 16.1 Mb (ftp)(http) TXT
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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