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Sample GSM312396 Query DataSets for GSM312396
Status Public on Apr 01, 2009
Title Chondrosarcoma_case_58
Sample type genomic
 
Channel 1
Source name Case 58
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 0.183425153
21614 0.253253812
25469 0.101067512
28383 0.637519898
8727 0.174799452
6520 0.761569948
14569 0.369357982
10890 -0.250141268
27130 -0.103180546
11653 0.162853303
1416 -0.46892877
19111 -0.773604993
19756 -0.740071422
33609 -0.034961204
25591 -0.569661148
32861 0.191751827
24132 -0.126225975
32882 0.079081842
28512 -0.761937067
22670

Total number of rows: 31498

Table truncated, full table size 552 Kbytes.




Supplementary file Size Download File type/resource
GSM312396.gpr.gz 2.6 Mb (ftp)(http) GPR
Processed data included within Sample table

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