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Sample GSM1506719 Query DataSets for GSM1506719
Status Public on Feb 27, 2015
Title Pancreatic carcinoma ICGC_0289
Sample type genomic
 
Source name Primary Tumour
Organism Homo sapiens
Characteristics cell type: Primary Tumour
disease: Pancreatic Adenocarcinoma
Extracted molecule genomic DNA
Extraction protocol Nucleic acids were then extracted using the Qiagen Allprep® Kit in accordance with the manufacturers instructions with purification of DNA and RNA from the same sample. DNA was quantified using Qubit HS DNA Assay (Invitrogen). Throughout the process, all samples were tracked using unique identifiers.
Label cy3/cy5
Label protocol DNA was assayed using Illumina SNP BeadChips as per manufacturer’s instructions (Illumina, San Diego CA) (HumanOmni1-Quad or HumanOmni2.5-8 BeadChips).
 
Hybridization protocol As per manufacturer’s instructions (Illumina, San Diego CA)
Scan protocol Arrays were scanned on iScan
Description Raw data for arrays used for copy number analysis using GAP (Popova, et al 2009)
Data processing Data was extracted using Genotyping module (v1.8.4) in Genomestudio v2010.3 (Illumina, San Diego CA) to calculate B-allele frequencies (BAF) and logR values.
 
Submission date Sep 17, 2014
Last update date Feb 27, 2015
Contact name Katia Nones
E-mail(s) katia.nones@qimrberghofer.edu.au
Phone +61 7 3845 3983
Organization name QIMR Berghofer MEdical Research Institute
Street address 300 Herston Road
City Brisbane
State/province QLD
ZIP/Postal code 4029
Country Australia
 
Platform ID GPL16104
Series (1)
GSE61502 Whole Genome Sequencing Informs Therapeutic Selection for Pancreatic Cancer

Supplementary file Size Download File type/resource
GSM1506719_8833007163_R08C01.txt.gz 104.3 Mb (ftp)(http) TXT
GSM1506719_8833007163_R08C01_Grn.idat.gz 16.6 Mb (ftp)(http) IDAT
GSM1506719_8833007163_R08C01_Red.idat.gz 16.7 Mb (ftp)(http) IDAT
Processed data provided as supplementary file

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