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Sample GSM2047087 Query DataSets for GSM2047087
Status Public on Feb 17, 2017
Title P8 [methylation]
Sample type genomic
 
Source name PVTT from patient #8
Organism Homo sapiens
Characteristics subject status: hepatocellular carcinoma (HCC) patient
patient id: patient #8
gender: Male
age: 61
tumor size (cm): 8
hbv infection: No
cirrhosis: No
tissue: Portal vein tumor thrombosis (PVTT)
Treatment protocol None
Growth protocol Fresh-frozen clinical tissue samples
Extracted molecule genomic DNA
Extraction protocol Sample DNA was extracted using DNeasy Blood &Tissue Kit (Cat#69506, QIAGEN, GmBH, Germany), following the manufacturer’s instructions. We used Nano Drop (Cat#ND-1000, Thermo Fisher, Waltham, MA, US) and ran a 1% agarose gel electrophoresis to check the quantity and quality of purified DNA.
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
 
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450 Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using BeadArray Reader using standard recommended Illumina scanner setting
Data processing GenomeStudio Methylation Module v1.8, Methylated signal intensity/( Mehtylated signal intensity + Unmethylated signal intensity + 100 )
normalized data matrix (*.txt) contains Average Beta values
 
Submission date Jan 27, 2016
Last update date Feb 17, 2017
Contact name Jin Gu
E-mail(s) [email protected]
Organization name Tsinghua University
Department Automation
Street address FIT Building 1-112C
City Beijing
ZIP/Postal code 100084
Country China
 
Platform ID GPL13534
Series (2)
GSE77269 DNA methylation analysis of hepatocellular carcinoma with portal vein tumor thrombosis
GSE77276 The molecular landscape of hepatocellular carcinoma with portal vein tumor thrombosis

Supplementary file Size Download File type/resource
GSM2047087_P8.txt.gz 3.6 Mb (ftp)(http) TXT
GSM2047087_P8_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM2047087_P8_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data provided as supplementary file

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