Computational Biology Research Center[CBRC]

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

website

Key Words

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

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Martin Frith

Senior
Research
Scientist

website

E-mail

Key Words

genome evolution, motifs, genome function, alignment, repeats

Kenichiro Imai

Research
Scientist

website

E-mail

Key Words

Subcellualar localization of protein, Sorting signal Analysis, Mitochondrial protein

Thomas Poulsen

AIST
Research Staff

website

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 β-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 β-Barrel Proteins, an Exclusive Club?"(Correspondence),
  Kenichiro Imai, M. Michael Gromiha & Paul Horton
  Cell, 135(7):1158-9, 2008.