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Sample GSM312364 Query DataSets for GSM312364
Status Public on Apr 01, 2009
Title Chondrosarcoma_case_24
Sample type genomic
 
Channel 1
Source name Case 24
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 0.5201801
21614 -0.127038701
25469 0.284171655
28383 0.27445384
8727 0.632230014
6520 0.140011377
14569 0.647285819
10890 0.257948916
27130 -0.010457235
11653 0.543178192
1416 0.021181752
19111 0.621472951
19756 0.812940325
33609 0.114507024
25591
32861 -0.38815193
24132
32882
28512 -0.57310757
22670

Total number of rows: 31498

Table truncated, full table size 532 Kbytes.




Supplementary file Size Download File type/resource
GSM312364.gpr.gz 2.6 Mb (ftp)(http) GPR
Processed data included within Sample table

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