Validation of denaturing high performance liquid chromatography as a rapid detection method for the identification of human INK4A gene mutations Journal Article
| Authors: | Orlow, I.; Roy, P.; Barz, A.; Canchola, R.; Song, Y.; Berwick, M. |
| Article Title: | Validation of denaturing high performance liquid chromatography as a rapid detection method for the identification of human INK4A gene mutations |
| Abstract: | The incidence of melanoma is increasing rapidly in western countries. Genetic predisposition in familial and in some sporadic melanomas has been associated with the presence of INK4A gene mutations. To better define the risk for developing sporadic melanoma based on genetic and environmental interactions, large groups of cases need to be studied. Mutational analysis of genes lacking hot spots for sequence variations is time consuming and expensive. In this study we present the application of denaturing high performance liquid chromatography (DHPLC) for screening of mutations. Exons 1α, 2, and 3 were amplified from 129 samples and 13 known mutants, yielding 347 products that were examined at different temperatures. Forty-two of these amplicons showed a distinct non-wild-type profile on the chromatogram. Independent sequencing analysis confirmed 16 different nucleotide variations in Leu32Pro; Ile49Thr; 88 del G; Gln50Arg; Arg24Pro; Met53Ile; Met53Thr; Arg58stop; Pro81Leu; Asp84Ala; Arg80stop; Gly101Trp; Val106Val; Ala148Thr; and in positions (-2) in intron 1 (C → T); and in the 3′ UTR, nucleotide 500 (C → G). No false negatives or false positives were obtained by DHPLC in samples with mutations or polymorphisms. We conclude that the DHPLC is a fast, sensitive, cost-efficient, and reliable method for the scanning of INK4A somatic or germline mutations and polymorphisms of large number of samples. |
| Keywords: | controlled study; gene mutation; gene sequence; human cell; sequence analysis; somatic mutation; exon; mutation; exons; cancer risk; validation process; methodology; cancer incidence; laboratory diagnosis; sensitivity and specificity; genetic analysis; protein p16; melanoma; gene amplification; genetic variability; intron; time factors; cost effectiveness analysis; germ line; guanine; epithelial cells; temperature; nucleic acid denaturation; familial cancer; isoleucine; threonine; reliability; 3' untranslated region; high performance liquid chromatography; chromatography, high pressure liquid; cyclin-dependent kinase inhibitor p16; alanine; leucine; environmental factor; genetic predisposition; genetic screening; mouth mucosa; aspartic acid; glutamine; methionine; glycine; arginine; valine; mutant; tryptophan; sample; dna polymorphism; proline; nucleotide; sequence analysis, dna; cytidine; thymine; buffers; humans; human; article; denaturation |
| Journal Title: | Journal of Molecular Diagnostics |
| Volume: | 3 |
| Issue: | 4 |
| ISSN: | 1525-1578 |
| Publisher: | Elsevier Science, Inc. |
| Date Published: | 2001-11-01 |
| Start Page: | 158 |
| End Page: | 163 |
| Language: | English |
| PUBMED: | 11687599 |
| PROVIDER: | scopus |
| PMCID: | PMC1906963 |
| DOI: | 10.1016/S1525-1578(10)60667-8 |
| DOI/URL: | |
| Notes: | Export Date: 21 May 2015 -- Source: Scopus |
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