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An Introduction to Mitochondrial Informatics

  • Hsueh-Wei Chang
  • Li-Yeh Chuang
  • Yu-Huei Cheng
  • De-Leung Gu
  • Hurng-Wern Huang
  • Cheng-Hong Yang
Protocol
Part of the Methods in Molecular Biology book series (MIMB, volume 628)

Abstract

In this chapter, we review the public resources available for human mitochondrial DNA and protein related bioinformatics, with a special focus on mitochondrial single nucleotide polymorphisms (mtSNPs). We also review our own freeware tool V-MitoSNP, giving an overview of its implementation and program workflow. Apart from these, we review several protocols for the graphic input of genes, keywords, gene searching by sequence, mtSNP searching by sequence, restriction enzyme mining, primer design, and virtual electrophoresis for PCR-RFLP genotyping. Some databases with similar function are integrated and compared.

Key words

Mitochondrial genome Variation Polymorphism SNP Database BLAST RFLP Genotyping Primer design 

Notes

Acknowledgments

This work was partly supported by the National Science Council in Taiwan under grant NSC97-2311-B-037-003-MY3, NSC96-2221-E-214-050-MY3, NSC96-2622-E214-004-CC3, and the grant KMU-EM-98-1.4.

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Copyright information

© Springer Science+Business Media, LLC 2010

Authors and Affiliations

  • Hsueh-Wei Chang
    • 1
  • Li-Yeh Chuang
    • 2
  • Yu-Huei Cheng
    • 2
  • De-Leung Gu
    • 2
  • Hurng-Wern Huang
    • 2
  • Cheng-Hong Yang
    • 2
  1. 1.Department of Biomedical Science and Environmental Biology, Center of Excellence for Environmental Medicine, Graduate Institute of Natural ProductsKaohsiung Medical UniversityKaohsiungTaiwan
  2. 2.Department of Biomedical Science and Environmental BiologyKaohsiung Medical UniversityKaohsiungTaiwan

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