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About siVirus

siVirus especially focuses on antiviral siRNA design and provides:


Designing siRNAs for HIV-1

  1. Select viral sequences for the conservation analysis. For example, select all subtype A1 sequences if you want to design optimal siRNAs for subtype A1. Simply checking all sequences is a good choice if you don't care about subtypes or geographic regions.
  2. Options:
    1. Select gene(s) or genomic region(s) for siRNA design.
    2. Specify target region by nucleotide position.
    3. Check here to hide less effective siRNAs (default).
    4. (not yet implemented)
    5. Submit button.
  3. Click submit button to design siRNAs.
  4. Results:
    1. siRNA sequence.
    2. siRNA position.
    3. siRNA efficacy predictions.
    4. Off-target search results. The number of human off-targets within two mismatches.
    5. Degrees of conservation.
    6. Conservation in the user-selected sequences.


siVirus web server

Viral sequence databases

Designing effective siRNA

Efficient off-target searches for siRNA


Yuki Naito, Kumiko Ui-Tei, Toru Nishikawa, Yutaka Takebe and Kaoru Saigo used the expertise of biology and informatics, and designed the system. Yuki Naito and Toru Nishikawa together implemented the entire system of siVirus, and developed novel, efficient algorithms for designing antiviral siRNAs. This work was supported in part by grants from the Ministry of Education, Culture, Sports, Science and Technology of Japan to K.S., K.U.-T. and Y.T., and by grants from the Ministry of Health, Labour and Welfare of Japan to Y.T.

Contact Information

E-mail: siVirus @ RNAi.jp

Last modified on Aug 20, 2006