Software for machine-independent quantitative interpretation of SSCP in capillary array electrophoresis (QUISCA)

Koichiro Higasa, Yoji Kukita, Shingo Baba, Kenshi Hayashi

研究成果: ジャーナルへの寄稿記事

17 引用 (Scopus)

抄録

PCR single-stranded conformational polymorphism (SSCP) analysis is a simple and rapid electrophoretic technique for the sensitive detection of sequence variants of PCR products. Here we describe a cross-platform program package, quantitative interpretation of SSCP in capillary array (QUISCA), which allows semi-automated quantitative detection of sequence variants separated by multicolor fluorescence-based SSCP electrophoresis using various capillary array apparatus. The program, together with the QUISCAview as a graphical user interface, takes trace data in ASCII format and processes them with three modules: signal denoising/baseline subtraction, color-matrix construction/application, and calibration of peak positions between multiple capillary runs using internal standard peaks. QUISCA is compatible with data from various widely used capillary array sequencers and is suitable not only for finding or typing SNPs in individual DNAs but also for the accurate estimation of the allele frequencies of many SNPs using a pooled DNA strategy. QUISCA can also serve as a versatile core program for various fragment analyses.

元の言語英語
ページ(範囲)1342-1348
ページ数7
ジャーナルBioTechniques
33
発行部数6
出版物ステータス出版済み - 12 1 2002

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Single-Stranded Conformational Polymorphism
Capillary Electrophoresis
Electrophoresis
Polymorphism
Software
Signal denoising
DNA
Single Nucleotide Polymorphism
Graphical user interfaces
Polymerase Chain Reaction
Fluorescence
Calibration
Color
Gene Frequency

All Science Journal Classification (ASJC) codes

  • Biotechnology
  • Biochemistry, Genetics and Molecular Biology(all)

これを引用

Software for machine-independent quantitative interpretation of SSCP in capillary array electrophoresis (QUISCA). / Higasa, Koichiro; Kukita, Yoji; Baba, Shingo; Hayashi, Kenshi.

:: BioTechniques, 巻 33, 番号 6, 01.12.2002, p. 1342-1348.

研究成果: ジャーナルへの寄稿記事

Higasa, Koichiro ; Kukita, Yoji ; Baba, Shingo ; Hayashi, Kenshi. / Software for machine-independent quantitative interpretation of SSCP in capillary array electrophoresis (QUISCA). :: BioTechniques. 2002 ; 巻 33, 番号 6. pp. 1342-1348.
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