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Sample GSM312354 Query DataSets for GSM312354
Status Public on Apr 01, 2009
Title Chondrosarcoma_case_14
Sample type genomic
 
Channel 1
Source name Case 14
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 0.460663404
21614 0.026314487
25469 0.166541892
28383 0.255529328
8727 0.338636199
6520 -0.136268116
14569 -0.004788857
10890 0.313472456
27130 -0.114830069
11653 0.149823605
1416 0.185841289
19111 -0.307879429
19756 -0.716566657
33609 -0.236029487
25591 -0.315178476
32861 0.045910399
24132 -0.035638952
32882 -0.114388095
28512 -0.583496077
22670 -0.523604194

Total number of rows: 31498

Table truncated, full table size 540 Kbytes.




Supplementary file Size Download File type/resource
GSM312354.gpr.gz 2.7 Mb (ftp)(http) GPR
Processed data included within Sample table

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