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Sample GSM842552 Query DataSets for GSM842552
Status Public on Dec 06, 2011
Title lung_tumor_resection_1300T
Sample type genomic
 
Source name lung tumor
Organism Homo sapiens
Characteristics smoking packyears: 112
Stage: 1
histology: 0
Treatment protocol None
Growth protocol None
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted from tumor tissue from non-small cell lung cancer patients at surgery using the Promega Qiagen DNA Extraction Kit. DNA quality and quantity was assessed using OD measure and agarose gel electrophoresis.
Label biotin
Label protocol As per manufacturer (Affymetrix)
 
Hybridization protocol DNA was restriction digested, PCR amplified, fragmented, labeled and hybridized to each array according to the manufacturer's instructions.
Scan protocol The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
Description lung_tumor_resection_rep1
Data processing CEL files and TXT files (generated by Affymetrix GTYPE using the DM algorithm) were processed by dChip and model-based expression performed using the PM/MM model. The data table contains the normalized expression values produced by that algorithm.
 
Submission date Dec 05, 2011
Last update date Dec 06, 2011
Contact name Yen-Tsung Huang
Organization name Harvard School of Public Health
Street address 665 Huntington Avenue
City Boston
ZIP/Postal code 02115
Country USA
 
Platform ID GPL3718
Series (1)
GSE34140 Impact on Disease Development, Genomic Location and Biological Function of Copy Number Alterations in Non-Small Cell Lung Cancer

Data table header descriptions
ID_REF
VALUE Continuous copy number: 2: neutral copy number; >2: copy number amplification; <2: copy number deletion

Data table
ID_REF VALUE
SNP_A-1886933 1.81
SNP_A-1902458 1.93
SNP_A-2131660 1.93
SNP_A-4221087 1.93
SNP_A-1884606 1.93
SNP_A-2235839 1.95
SNP_A-2218153 1.95
SNP_A-1919019 1.95
SNP_A-1815933 2
SNP_A-2115098 2
SNP_A-2264565 2
SNP_A-1788728 2.01
SNP_A-4218776 2.03
SNP_A-2082194 2.07
SNP_A-2135694 2.16
SNP_A-4220764 2.17
SNP_A-1796345 2.17
SNP_A-1789472 2.2
SNP_A-1934233 2.21
SNP_A-4207031 2.2

Total number of rows: 262264

Table truncated, full table size 4833 Kbytes.




Supplementary file Size Download File type/resource
GSM842552_1300T.CEL.gz 30.2 Mb (ftp)(http) CEL
Processed data included within Sample table

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