Computational Biology Research Center[CBRC]

Advanced Industrial Science and Technology[AIST]
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Sequence Analysis Team

Research Topics

Sequence alignment

1.Genome Sequence Similarity Search (LAST)
2.Effective Repeat Masking (TanTan)

Next-gen Sequence Data Correction (RECOUNT)

Protein Subcellular Localization (WoLF PSORT)

1.Nuclear Export Signal Prediction (NESsential)
2.Mitochondrial Protein Targeting and Cleavage Prediction
3.Mitosomal Proteome Sequence Analysis



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Team Member

Paul Horton
Leader E-mail
Paul Houton
Key Words

Genome Sequence Analysis, Protein localization prediction, Motif Discovery, Gene Expression Analysis, NGS data processing methods


Martin Frith
Senior
Research
Scientist
E-mail
Key Words

genome evolution, motifs, genome function, alignment, repeats

Kenichiro Imai
Research
Scientist
E-mail
Key Words

Subcellualar localization of protein, Sorting signal Analysis, Mitochondrial protein

Thomas Poulsen
AIST
Research Staff
E-mail
Key Words

Sequence alignment, Series quantification, Localization prediction.


Papers List

  • "Mammalian NUMT insertion is non-random",
    Junko Tsuji, Martin C. Frith, Kentaro Tomii & Paul Horton
    Nucleic Acids Research, in press.
  • "A mostly traditional approach improves alignment of bisulfite-converted DNA",
    Martin C. Frith, Ryota Mori & Kiyoshi Asai
    Nucleic Acids Research, 2012.
  • "RecountDB: a database of mapped and count corrected transcribed sequences",
    Edward Wijaya, Martin C. Frith, Kiyoshi Asai & Paul Horton
    Nucleic Acids Research, (2012 NAR Database Issue)
  • "Prediction of leucine-rich nuclear export signal containing proteins with NESsential",
    Szu-Chin Fu, Kenichiro Imai & Paul Horton
    published online Nucleic Acids Research, June 24, 2011.
  • "Eukaryotic-wide sequence analysis of mitochondrial -barrel outer membrane proteins",
    Kenichiro Imai, Naoya Fujita, M. Micheal Gromiha & Paul Horton
    BMC Genomics, 12:79, 2011.
  • "Adaptive seeds tame genomic sequence comparison",
    S.M. Kie?basa, Raymond Wan, Kengo Sato, Paul Horton & Martin C. Frith
    Genome Research, 21:487-93, 2011.
  • "A new repeat-masking method enables specific detection of homologous sequences",
    Martin C. Frith
    Nucleic Acids Research, 39:e23, 2010.
  • "Incorporating sequence quality data into alignment improves DNA read mapping",
    Martin C. Frith, Raymond Wan & Paul Horton
    Nucleic Acids Research, 38(7):e100, 2010.
  • "Parameters for accurate genome alignment",
    Martin C. Frith, Michiaki Hamada & Paul Horton
    BMC Bioinformatics 11:80, Feb 9 2010.
  • "Mitochondrial -Barrel Proteins, an Exclusive Club?"(Correspondence),
    Kenichiro Imai, M. Michael Gromiha & Paul Horton
    Cell, 135(7):1158-9, 2008.
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