PMID- 16525700
OWN - NLM
STAT- MEDLINE
DCOM- 20060418
LR  - 20210622
IS  - 1021-335X (Print)
IS  - 1021-335X (Linking)
VI  - 15
IP  - 4
DP  - 2006
TI  - Tumor classification based on DNA copy number aberrations determined using SNP 
      arrays.
PG  - 1057-1059
LID - 10.3892/or.15.4.1057 [doi]
AB  - High-density single nucleotide polymorphism (SNP) array is a recently introduced 
      technology that genotypes more than 10,000 human SNPs on a single array. It has 
      been shown that SNP arrays can be used to determine not only SNP genotype calls, 
      but also DNA copy number (DCN) aberrations, which are common in solid tumors. In 
      the past, effective cancer classification has been demonstrated using microarray 
      gene expression data, or DCN data derived from comparative genomic hybridization 
      (CGH) arrays. However, the feasibility of cancer classification based on DCN 
      aberrations determined by SNP arrays has not been previously investigated. In 
      this study, we address this issue by applying state-of-the-art classification 
      algorithms and feature selection algorithms to the DCN aberration data derived 
      from a public SNP array dataset. Performance was measured via leave-one-out 
      cross-validation (LOOCV) classification accuracy. Experimental results showed 
      that the maximum accuracy was 73.33%, which is comparable to the maximum accuracy 
      of 76.5% based on CGH-derived DCN data reported previously in the literature. 
      These results suggest that DCN aberration data derived from SNP arrays is useful 
      for etiology-based tumor classification.
FAU - Wang, Yuhang
AU  - Wang Y
AD  - Computer Science and Engineering Department, Southern Methodist University, PO 
      Box 750122, Dallas, TX 75275, USA. wyh@cs.dartmouth.edu
FAU - Makedon, Fillia
AU  - Makedon F
FAU - Pearlman, Justin
AU  - Pearlman J
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
PT  - Research Support, U.S. Gov't, Non-P.H.S.
PT  - Validation Study
PL  - Greece
TA  - Oncol Rep
JT  - Oncology reports
JID - 9422756
RN  - 0 (DNA, Neoplasm)
SB  - IM
MH  - *Algorithms
MH  - *Chromosome Aberrations
MH  - DNA, Neoplasm/analysis
MH  - *Gene Dosage
MH  - Genotype
MH  - Humans
MH  - Neoplasms/genetics
MH  - Oligonucleotide Array Sequence Analysis
MH  - *Polymorphism, Single Nucleotide
EDAT- 2006/03/10 09:00
MHDA- 2006/04/19 09:00
CRDT- 2006/03/10 09:00
PHST- 2006/03/10 09:00 [pubmed]
PHST- 2006/04/19 09:00 [medline]
PHST- 2006/03/10 09:00 [entrez]
AID - 10.3892/or.15.4.1057 [doi]
PST - ppublish
SO  - Oncol Rep. 2006;15(4):1057-1059. doi: 10.3892/or.15.4.1057.