NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM385534 Query DataSets for GSM385534
Status Public on Mar 25, 2009
Title NCI-H727_STY
Sample type genomic
 
Source name Lung cell line NCI-H727
Organism Homo sapiens
Characteristics tissue: Lung
cell line: NCI-H727
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted Qiagen Blood Amp (P/N 51161).
Label Biotin
Label protocol Labeling and hybridization was performed as described by the 500k assay manual (P/N 701930 Rev. 2)
 
Hybridization protocol Labeling and hybridization was performed as described by the 500k assay manual (P/N 701930 Rev. 2)
Scan protocol The Arrays were scanned using the Gene Chip Scanner 3000.
Description Hybridized to 250K_Sty
Data processing CEL files and TXT files (generated by Affymetrix GTYPE using the Dynamic Model Mapping algorithm) were processed by Bioconductor/PLASQ. PLASQ copy number and segmented copy number are included in Sample table. SNP genotype calls are provided as supplementary text files. Call data in the TXT files corresponding to the raw CEL files were generated using GTYPE ver. 4.0 with the Dynamic Model Mapping Algorithm. The threshold for Allele A, Allele B and Allele AB was 0.33.
 
Submission date Mar 23, 2009
Last update date Mar 24, 2009
Contact name Patricia Greninger
E-mail(s) pgreninger@partners.org
Organization name Massachusetts General Hospital Cancer Center
Department Center for Molecular Therapeutics
Lab Settleman Lab
Street address 149 13th St
City Charlestown
State/province MA
ZIP/Postal code 02129
Country USA
 
Platform ID GPL3720
Series (1)
GSE15126 A gene expression signature associated with K-Ras addiction reveals regulators of EMT and tumor cell survival

Data table header descriptions
ID_REF
VALUE PLASQ copy number
SEGM Segmented copy number

Data table
ID_REF VALUE SEGM
SNP_A-1780358 1.826820 1.668792
SNP_A-1780551 1.251971 1.804856
SNP_A-1780357 1.656653 1.621341
SNP_A-1780550 3.290273 3.51075
SNP_A-1780352 1.841363 1.601274
SNP_A-1780351 1.572755 1.615598
SNP_A-1780350 1.979616 2.710104
SNP_A-1780748 2.0279 1.661114
SNP_A-1780747 2.541635 2.327190
SNP_A-1780746 1.032142 2.436292
SNP_A-1780745 1.684612 1.605975
SNP_A-1780743 2.929072 1.604805
SNP_A-1780549 1.084914 1.643929
SNP_A-1780547 1.988398 2.180994
SNP_A-1780541 0.636422 1.621341
SNP_A-1780346 2.806804 2.178762
SNP_A-1780345 1.56191 1.661114
SNP_A-1780342 2.800497 2.713673
SNP_A-1780341 2.329193 2.905051
SNP_A-1780340 0.9057805 1.588533

Total number of rows: 238228

Table truncated, full table size 7445 Kbytes.




Supplementary file Size Download File type/resource
GSM385534.CEL.gz 26.9 Mb (ftp)(http) CEL
GSM385534.txt.gz 939.9 Kb (ftp)(http) TXT
Raw data provided as supplementary file
Processed data included within Sample table
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap