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Sample GSM1199923 Query DataSets for GSM1199923
Status Public on May 19, 2014
Title CD138low RPMI-8226 rep 1
Sample type genomic
 
Source name RPMI-8226 cell line
Organism Homo sapiens
Characteristics cell line: RPMI-8226
subpopulation: CD138low
disease: multiple myeloma
Treatment protocol not applicable
Growth protocol cells were cultured in RPMI-1640 medium supplemented with 2 mM L-glutamine, 100 U/mL penicillin, 100 mg/mL streptomycin and 10% fetal bovine serum at 37°C and 5% CO2/95% air
Extracted molecule genomic DNA
Extraction protocol DNA was isolated from CD138++ (n=3) and CD138low (n=3) RPMI-8226 cells using a GenElute Mammalian Genomic DNA Miniprep Kit (Sigma-Aldrich) following the manufacturer’s protocol
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 (Affymetrix)
Scan protocol The arrays were processed using the Fluidics Station 450, GeneChip Scanner 3000 7 G and AGCC (AffymetrixGeneChip Command Console Software)
Data processing .CEL files were generated from the scanned array image files by the Affymetrix GeneChip Command Console Software and were imported into the Affymetrix Chromosome Analysis Suite v1.2.2 Software. Copy number data files (.CYCHP files) were generated using the ChAS Analysis Files for the CytoScan HD Array version NA32.1 as a reference
 
Submission date Aug 01, 2013
Last update date May 19, 2014
Contact name Teresa Paíno
E-mail(s) tpaino@usal.es
Phone +34 923294812
Organization name Centro de investigación del cáncer
Street address Campus Miguel de Unamuno
City Salamanca
ZIP/Postal code 37007
Country Spain
 
Platform ID GPL16131
Series (1)
GSE49483 Phenotypic, genomic and functional characterization reveals no differences between CD138++ and CD138low subpopulations in multiple myeloma cell lines (Copy Number)

Data table header descriptions
ID_REF
VALUE Log2ratio of probes

Data table
ID_REF VALUE
C-7SARK 0.5223107
C-4WYLN 0.11642859
C-3BFNY -0.03372416
C-7ONNE -0.12973814
C-6HYCN 0.103286274
C-7SCGC 0.028983485
C-7RZQQ -0.17585471
C-7RZWZ -0.09763365
C-7SEBI 0.56355065
C-7RZIL 0.23097833
C-4NQTX 0.26279497
C-7SDKW 0.028168738
C-7RXVK -0.037830684
C-4LHKS -0.16227101
C-7RWHE -0.06961494
C-7SBEJ -0.006873691
C-7RYJO -0.59313744
C-7SEGS 0.34988678
C-4LLXK 0.28658882
C-5YZUW -0.009130612

Total number of rows: 2696550

Table truncated, full table size 51064 Kbytes.




Supplementary file Size Download File type/resource
GSM1199923_4_linea138low+_CytoScanHD_Array_.CEL.gz 31.1 Mb (ftp)(http) CEL
Processed data included within Sample table

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