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Series GSE9023 Query DataSets for GSE9023
Status Public on Jan 25, 2008
Title Chordoma_32k_1Mb
Organism Homo sapiens
Experiment type Genome variation profiling by genome tiling array
Summary Frequent deletion of the CDKN2A locus in chordoma: analysis of chromosomal imbalances using array comparative genomic hybridization

DNA copy number analysis of 21 fresh frozen chordoma biopsies, and the respective relapse in four of them, using 32k and 1Mb array CGH. All cases showed copy number alterations and primarily deletions of chromosomal regions were found. Particularly, the CDKN2A and CDKN2B loci in 9p21 were homo- or heterozygously lost in 70% of the tumors.
Keywords: chordoma, array comparative genomic hybridization
 
Overall design Cases 1-11 were analyzed using 32k array CGH and male genomic DNA (Promega) was used as reference. Cases 17-26, and the respective relapse in four of these tumors, were analyzed with 1 Mb array CGH, using sex matched controls.
 
Contributor(s) Hallor KH, Staaf J, Jönsson G, Heidenblad M, Vult von Steyern F, Bauer HC, Ijszenga M, Hogendoorn PC, Mandahl N, Szuhai K, Mertens F
Citation(s) 18071362
Submission date Sep 12, 2007
Last update date Mar 17, 2012
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
 
Platforms (2)
GPL5840 klingenkhh_BAC_32K_Full
GPL5841 klingenkhh_BAC_3.7k_condensed_array
Samples (25)
GSM228940 Chordoma_case_1
GSM228941 Chordoma_case_2
GSM228942 Chordoma_case_3
Relations
BioProject PRJNA102519

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE9023_RAW.tar 43.7 Mb (http)(custom) TAR (of GPR)
Raw data provided as supplementary file
Processed data included within Sample table

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