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Series GSE28407 Query DataSets for GSE28407
Status Public on Nov 18, 2011
Title Diverse routes to oral cancer differing in genome instability and risk for cervical node metastasis
Organism Homo sapiens
Experiment type Genome variation profiling by genome tiling array
Summary Clinically evident oral lesions, oral epithelial dysplasia, precede development of oral squamous cell carcinomas (SCC) and are considered to transform to cancer by acquisition of genetic or epigenetic alterations. Here, we show that, +3q24-qter, -8pter-p23.1, +8q12-q24.2 and +20 are early events identifying two pathways to oral cancers that differ in clinical behavior. One or more of these copy number aberrations is present in the major subgroup (3q8pq20 subtype, 75-80% of lesions) that develops with chromosomal instability and risk for metastasis, while they are absent from the smaller and chromosomally stable non-3q8pq20 subgroup (20-25% of lesions) associated with low risk for metastasis. Thus, +3q, -8p, +8q and +20 is a biomarker for oral SCC metastasis. On the other hand, while increased numbers of genomic alterations can be harbingers of progression to cancer, dysplastic lesions lacking copy number changes cannot be considered benign as they are potential precursors to non-3q8pq20 oral SCC.
 
Overall design 63 oral SCCs and adjacent regions of normal tissue, 44 oral dysplasias
 
Citation(s) 22068658
Submission date Apr 05, 2011
Last update date Mar 23, 2012
Contact name Taku Tokuyasu
E-mail(s) tokuyasu@cc.ucsf.edu
Organization name UCSF
Department Helen Diller Family Comprehensive Cancer Center
Street address 1450 3rd Street, HD555
City San Francisco
State/province CA
ZIP/Postal code 94158-9001
Country USA
 
Platforms (3)
GPL4421 UCSF HumArray 3.1
GPL4999 UCSF Cancer Center HumArray2.0
GPL6359 UCSF Cancer Center HumArray3.2
Samples (168)
GSM702141 X0149
GSM702142 X5653
GSM702143 X5681
Relations
BioProject PRJNA139187

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
GSE28407_RAW.tar 118.5 Mb (http)(custom) TAR (of TXT)
Processed data included within Sample table

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