Measurement of DNA copy number at microsatellite loci using quantitative PCR analysis.
This report describes the development and validation of quantitative microsatellite analysis (QuMA) for rapid measurement of relative DNA sequence copy number. In QuMA, the copy number of a test locus relative to a pooled reference is assessed using quantitative, real-time PCR amplification of loci carrying simple sequence repeats. Use of simple sequence repeats is advantageous because of the large numbers that are mapped precisely. In addition, all markers are informative because QuMA does not require that they be polymorphic. The utility of QuMA is demonstrated in assessment of the extent of deletions of chromosome 2 in leukemias arising in radiation-sensitive inbred SJL mice and in analysis of the association of increased copy number of the putative oncogene ZNF217 with reduced survival duration in ovarian cancer patients.
Ginzinger
D G
DG
Department of Laboratory Medicine, University of California San Francisco Comprehensive Cancer Center, University of California, 94143, USA.
Godfrey
T E
TE
Nigro
J
J
Moore
D H
DH
Suzuki
S
S
Pallavicini
M G
MG
Gray
J W
JW
Jensen
R H
RH
D000818:Animals; D004273:DNA, Neoplasm / Q000032:analysis / Q000235:genetics*; D005260:Female; D018628:Gene Dosage; D016147:Genes, Tumor Suppressor / Q000235:genetics; D006801:Humans; D007951:Leukemia, Myeloid / Q000209:etiology / Q000235:genetics; D007953:Leukemia, Radiation-Induced / Q000235:genetics; D008297:Male; D051379:Mice; D008815:Mice, Inbred Strains; D018345:Mice, Knockout; D018895:Microsatellite Repeats / Q000235:genetics*; D009363:Neoplasm Proteins / Q000235:genetics; D021141:Nucleic Acid Amplification Techniques; D010051:Ovarian Neoplasms / Q000235:genetics; D016133:Polymerase Chain Reaction / Q000379:methods*; D011379:Prognosis; D015203:Reproducibility of Results; D016019:Survival Analysis; D015534:Trans-Activators / Q000235:genetics
D004273:DNA, Neoplasm; D009363:Neoplasm Proteins; D015534:Trans-Activators; C113698:ZNF217 protein, human