GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Sample GSM390978 Query DataSets for GSM390978
Status Public on Jul 03, 2009
Title 468GFP biorep1
Sample type genomic
Source name Parental Cell line 468GFP, first biological replicate
Organism Homo sapiens
Characteristics cell line: 468GFP
Treatment protocol No treatment
Growth protocol Cells were grown out to three passages in alpha-MEM containing 10% FBS in 5% CO2 to 70 % confluency
Extracted molecule genomic DNA
Extraction protocol Genomic DNA was extracted using Sigma GeneElute kit using the Manufacturer's protocol,
Label Biotin/SAPE
Label protocol Genomic DNA was labeled was labeled as per Affymetrix standard protocol for Human SNP6.0 arrays
Hybridization protocol Genomic DNA was hybridized as per standard affymetrix protocols for Human SNP6.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
Scan protocol GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
Description Human SNP 6.0 array data (affymetrix) from Parental Cell line 468GFP, first biological replicate
Data processing The data were analyzed with GCOS using Affymetrix default analysis settings and global scaling as normalization method. .CEL files thus produced were imported into Partek Genomics Suite software and background subtracted using the RMA algorithm.
Submission date Apr 09, 2009
Last update date Jul 02, 2009
Contact name Ann Chambers
Phone (519) 685-8430
Organization name London Regional Cancer program
Department Victoria research labs
Street address 790 Commissioner's Road E
City London
State/province Ontario
ZIP/Postal code N6A 4L6
Country Canada
Platform ID GPL6801
Series (2)
GSE14867 SNP/CNV analysis in a breast cancer metastasis model
GSE15619 Epigenetic signature of breast cancer and its association with gene expression and copy number

Data table header descriptions
VALUE RMA normalized, processed data (log base 2)

Data table
AFFX-SNP_10000979 8.10598
AFFX-SNP_10009702 5.78839
AFFX-SNP_10015773 8.51953
AFFX-SNP_10021569 5.95632
AFFX-SNP_10026879 8.70013
AFFX-SNP_10029725 6.71346
AFFX-SNP_10034687 7.18515
AFFX-SNP_10036267 7.27989
AFFX-SNP_10037362 10.5195
AFFX-SNP_10037636 5.76721
AFFX-SNP_10039349 7.44368
AFFX-SNP_10039442 6.92316
AFFX-SNP_10039933 8.75619
AFFX-SNP_10046830 7.98067
AFFX-SNP_10047363 6.0562
AFFX-SNP_10047841 7.2467
AFFX-SNP_10049334 8.94216
AFFX-SNP_10052664 7.4476
AFFX-SNP_10057887 6.00341
AFFX-SNP_10064911 7.07016

Total number of rows: 1855448

Table truncated, full table size 36311 Kbytes.

Supplementary file Size Download File type/resource
GSM390978.CEL.gz 28.3 Mb (ftp)(http) CEL
Processed data included within Sample table

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