NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Sample GSM315236 Query DataSets for GSM315236
Status Public on Apr 01, 2009
Title Chondrosarcoma_case_4
Sample type genomic
 
Channel 1
Source name Case 4
Organism Homo sapiens
Characteristics Genomic DNA from fresh frozen chondrosarcoma biopsy
Biomaterial provider Dept of Clinical Genetics, Lund University Hospital, Sweden
Extracted molecule genomic DNA
Extraction protocol DNeasy Tissue Kit (Qiagen, Valencia, CA, USA)
Label Cy3
Label protocol Genomic DNA Labeling Kit (Agilent Technologies, CA, USA)
 
Channel 2
Source name Gender-matched reference DNA
Organism Homo sapiens
Characteristics Pooled lymphoblastoid genomic DNA from four male/female individuals
Biomaterial provider Blood Service, Red Cross Finland
Extracted molecule genomic DNA
Extraction protocol none
Label Cy5
Label protocol Genomic DNA Labeling Kit (Agilent Technologies, CA, USA)
 
 
Hybridization protocol Arrays were hybridized and washed as described in Savola et al. (Cytogenet Genome Res 2007;119:21-26)
Scan protocol Arrays were scanned in Agilent Microarray scanner
Description 244k oligo array CGH data on chondrosarcoma
Data processing Primary data were collected using the Feature Extraction 9.1 software (Agilent), and the quantified data matrix was deposited into the web-based database BioArray Software Environment (BASE), where filtering and lowess normalization were performed.
 
Submission date Aug 22, 2008
Last update date Feb 25, 2009
Contact name Karolin H Nord
Organization name Lund University
Department Dept of Clinical Genetics
Street address BMC C13
City Lund
ZIP/Postal code SE-22184
Country Sweden
 
Platform ID GPL7203
Series (2)
GSE12439 Genomic profiling of chondrosarcoma: chromosomal patterns in central and peripheral tumors (BAC/CGH)
GSE12532 Genomic profiling of chondrosarcoma: chromosomal patterns in central and peripheral tumors

Data table header descriptions
ID_REF
VALUE log(2) ratio Cy3/Cy5

Data table
ID_REF VALUE
HsCGHBrightCorner -0.32700284237038
A_16_P20527812 -0.17853888526066
A_16_P01708709 -0.50288193071218
A_16_P36062310 -0.66771294201385
A_16_P21111448 -0.097938162606989
A_16_P03325298 -0.46381218632878
A_14_P106403 -0.25611775426038
A_14_P129311 -0.070578098036528
A_16_P16560117 -0.4775991195852
A_16_P18390323 0.14115013277278
A_16_P16752813 -0.34543231975451
A_14_P122429 0.029675354642753
A_16_P01164612 -0.3782815246373
A_16_P00541510 -0.43701274268404
A_16_P03187952 -0.44352832218905
A_16_P17174549 -0.62686487552165
A_16_P16167777 -0.094129231655034
A_16_P35757795 -0.16220474530162
A_16_P36536464 -0.24740127370277
A_14_P102818 -0.34223805028728

Total number of rows: 235968

Table truncated, full table size 7439 Kbytes.




Supplementary file Size Download File type/resource
GSM315236.txt.gz 65.9 Mb (ftp)(http) TXT
Processed data included within Sample table

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