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Sample GSM825013 Query DataSets for GSM825013
Status Public on Dec 31, 2012
Title lung103T_cancer tissue_Affymetrix SNP6
Sample type genomic
 
Source name lung103T_cancer tissue
Organism Homo sapiens
Characteristics gender: female
tissue: cancer lung tissue
Treatment protocol lung tissue specimens
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was isolated by proteinase K- phenol - chloroform extraction following standard protocols with 0.5% SDS and 200μg/ml proteinase K.
Label Biotin
Label protocol Affymetrix standard protocol
 
Hybridization protocol Affymetrix standard protocol
Scan protocol Affymetrix standard protocol GeneChip Scanner 3000.
Description Hybridized to SNP6.0
Data processing CEL files and TXT files generated by Affymetrix GTYPE using the DM algorithm. The raw CEL files were imported into Partek software using its default settings. Control probes in Affymetrix SNP6.0 were excluded, and two pre-background adjustments were performed, adjust for fragment length and adjust for probe sequence. 'Signal' = Summarized signal [Lung_adeno_61_pairs_intensity.txt].
 
Submission date Oct 31, 2011
Last update date Dec 31, 2012
Contact name Tzu-Pin Lu
E-mail(s) tplu@ntu.edu.tw
Organization name National Taiwan University, Taiwan
Department Department of Public Health, Institute of Epidemiology and Preventive Medicine
Street address No. 1, Sec. 4, Roosevelt Road
City Taipei
ZIP/Postal code 10617
Country Taiwan
 
Platform ID GPL6801
Series (2)
GSE33355 Affymetrix SNP array data for Non-Smoking Female Lung Cancer in Taiwan
GSE33356 Genome-wide screening of genomic alterations and transcriptional modulation in non-smoking female lung cancer in Taiwan

Data table header descriptions
ID_REF
VALUE Genotype Call (SNP call): AA, AB, BB, NC, and NoCall

Data table
ID_REF VALUE
SNP_A-8575125 AA
SNP_A-8709646 AA
SNP_A-8497791 AA
SNP_A-1909444 AB
SNP_A-8358063 NC
SNP_A-8329892 AA
SNP_A-8408912 AB
SNP_A-1886933 AB
SNP_A-2236359 BB
SNP_A-8515688 BB
SNP_A-2205441 AA
SNP_A-8524447 AB
SNP_A-8573955 AB
SNP_A-8530278 BB
SNP_A-8573668 BB
SNP_A-8573414 AB
SNP_A-8531044 AB
SNP_A-8530320 BB
SNP_A-8572481 BB
SNP_A-2116190 AB

Total number of rows: 909622

Table truncated, full table size 15110 Kbytes.




Supplementary file Size Download File type/resource
GSM825013_Lung103T.CEL.gz 32.8 Mb (ftp)(http) CEL
GSM825013_Lung103T.birdseed.chp.gz 13.2 Mb (ftp)(http) CHP
Processed data included within Sample table
Processed data are available on Series record
Processed data provided as supplementary file

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