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Series GSE22984 Query DataSets for GSE22984
Status Public on Aug 26, 2011
Title Affymetrix SNP6.0 on Ollier disease-related tumors
Organism Homo sapiens
Experiment type Genome variation profiling by SNP array
Summary Mutations in the PTH1R gene were reported but these mutations are limited to a small subgroup of patients. The etiology of Ollier disease is unknown. We therefore undertook genome-wide copy number and loss of heterozygosity (LOH) analysis using Affymetrix SNP 6.0 arrays on 37 tumors of 28 Ollier patients in combination with expression array using Illumina Beadarray v3.0 for 7 tumors of 6 patients. We used Affymetrix SNP 6.0 to find out LOH and copy number alterations in Ollier tumors.
Overall design To understand the genetic mechanism behind the development of enchondroma, we mainly focus on enchondromas and found alterations were validated. We used 14 enchondromas and 23 chondrosarcomas of 28 Ollier patients. We also used 30 controls (blood, saliva or frozen tissue). As controls, normal DNA derived from fresh frozen muscle tissue (n=3), peripheral blood lymphocytes (n=4) or saliva (n=4) was available for 11 Ollier patients and 3 patients with unrelated bone diseases. We used blood lymphocyte DNA from 12 healthy controls and 1 HapMap sample. We also isolated DNA from saliva for 3 of these controls to validate the use of saliva DNA in this study.
Contributor(s) Pansuriya TC
Citation(s) 21235737
Submission date Jul 17, 2010
Last update date Nov 27, 2018
Contact name Twinkal Chandubhai Pansuriya
Phone 0031715266528
Organization name LUMC
Department Pathology
Street address Albinusdreef 2
City Leiden
State/province Zuid-Holland
ZIP/Postal code 2333ZA
Country Netherlands
Platforms (1)
GPL6801 [GenomeWideSNP_6] Affymetrix Genome-Wide Human SNP 6.0 Array
Samples (67)
GSM566679 B5
GSM566716 L149N
GSM566717 L1686
This SubSeries is part of SuperSeries:
GSE22965 Genome-wide analysis of Ollier disease: Is it all in the genes?
BioProject PRJNA129151

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
GSE22984_RAW.tar 5.1 Gb (http)(custom) TAR (of CEL, CHP, CNCHP, GQC)
Processed data included within Sample table
Processed data provided as supplementary file

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