TRFMA: a web-based tool for terminal restriction fragment length polymorphism analysis based on molecular weight

  • Authors:

  • Yoshio Nakano;Toru Takeshita;Yoshihisa Yamashita

  • Affiliations:

  • Department of Preventive Dentistry, Faculty of Dental Science, Kyushu University Fukuoka-shi, Japan;Department of Preventive Dentistry, Faculty of Dental Science, Kyushu University Fukuoka-shi, Japan;Department of Preventive Dentistry, Faculty of Dental Science, Kyushu University Fukuoka-shi, Japan

  • Venue:
  • Bioinformatics
  • Year:
  • 2006

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Abstract

Summary: TRFMA provides a Web environment for analyzing T-RFLP results based on molecular weights of the fragments, rather than the numbers of nucleotides, to increase accuracy. The 16S rRNA data are saved as an XML file containing around 650 sequences (light version) and a MySQL database containing around 50 000 sequences (full version), which are connected to Web server via PHP5 and manipulated on an Internet browser. Availability: TRFMA is freely available at http://myamagu.dent.kyushu-u.ac.jp/bioinformatics/trfma/index.html and can be downloaded from the same site. Contact: yosh@dent.kyushu-u.ac.jp