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Sample GSM312403 Query DataSets for GSM312403
Status Public on Apr 01, 2009
Title Chondrosarcoma_case_65
Sample type genomic
 
Channel 1
Source name Case 65
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 BioPrime array CGH labeling module (Invitrogen, Carlsbad, CA, USA)
 
Channel 2
Source name Promega reference male DNA (Promega, Madison, WI, USA)
Organism Homo sapiens
Characteristics Pooled lymphoblastoid genomic DNA from ten male individuals
Biomaterial provider Promega, Madison, WI, USA
Extracted molecule genomic DNA
Extraction protocol none
Label Cy5
Label protocol BioPrime array CGH labeling module (Invitrogen, Carlsbad, CA, USA)
 
 
Hybridization protocol Arrays were hybridized and washed as described in Heidenblad et al. (Oncogene 2006;25:7106-16)
Scan protocol Arrays were scanned in Agilent Microarray scanner
Description 32k BAC array CGH data on chondrosarcoma
Data processing Primary data were collected using the GenePix Pro 4.0 software, 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 13, 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 GPL4723
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
16114 0.128254134
21614 -0.425067835
25469 0.234139282
28383 0.516201411
8727 0.033367333
6520 0.585760978
14569 0.312719477
10890 -0.022198981
27130 0.064164707
11653 -0.065634307
1416 0.235382672
19111 -0.632677147
19756 -0.9937982
33609
25591
32861
24132
32882
28512 -0.193308898
22670

Total number of rows: 31498

Table truncated, full table size 519 Kbytes.




Supplementary file Size Download File type/resource
GSM312403.gpr.gz 2.5 Mb (ftp)(http) GPR
Processed data included within Sample table

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