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Sample GSM390977 Query DataSets for GSM390977
Status Public on Jul 03, 2009
Title 468GFP-LN biorep1
Sample type genomic
Source name Parental Cell line 468GFP-LN, first biological replicate
Organism Homo sapiens
Characteristics cell line: 468GFP-LN
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-LN, 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 8.24651
AFFX-SNP_10009702 6.12857
AFFX-SNP_10015773 9.29617
AFFX-SNP_10021569 6.85961
AFFX-SNP_10026879 8.15617
AFFX-SNP_10029725 7.03296
AFFX-SNP_10034687 6.9414
AFFX-SNP_10036267 6.97311
AFFX-SNP_10037362 10.0633
AFFX-SNP_10037636 7.36703
AFFX-SNP_10039349 7.77341
AFFX-SNP_10039442 6.40674
AFFX-SNP_10039933 8.52468
AFFX-SNP_10046830 8.48388
AFFX-SNP_10047363 6.35386
AFFX-SNP_10047841 7.9812
AFFX-SNP_10049334 7.7017
AFFX-SNP_10052664 6.13335
AFFX-SNP_10057887 5.86442
AFFX-SNP_10064911 6.69548

Total number of rows: 1855448

Table truncated, full table size 36313 Kbytes.

Supplementary file Size Download File type/resource
GSM390977.CEL.gz 28.7 Mb (ftp)(http) CEL
Processed data included within Sample table

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