TAKEUCHI Fumihiko: publications

• ResearchGate: includes full-text and impact factor
• Google Scholar: includes citation count
• PubMed: only life science strict search; wider search

• publications on life science
  • Association study of common diseases and quantitative traits
  • Association study for warfarin pharmacogenomics
  • Other human genetics papers
  • Infectious disease transmission on human contact networks
  • Genomics and meta-genomics of infectious diseases
  • Genomics of Staphylococci
  • Mutations of Staphylococcus aureus
  • Other Staphylococcus aureus papers
  • Nucleotide sequences and evolution
• publications on triangulations
  • Enumeration of triangulations
  • Minimum weight triangulation
  • Polytopes of triangulations
  • Triangulations and dissections
  • Geometric shellings of 3-polytopes
  • Extendable shellability, vertex decomposability
  • View graphs of triangulations
  • Combinatorics of triangulations
  • Pseudo-triangulations
• softwares on life science
• softwares on triangulations
• patents
• grants
• awards
• lectures; teaching material

• Association study of common diseases and quantitative traits
  • Takeuchi, F. et al. (2003)
    Empirical evaluation of large-scale SNP and microsatellite analyses for exploring disease susceptibility genes by candidate chromosomal region approaches,
    in Proc. 48th annual meeting of the Japan society of human genetics, Nagasaki, 116. (HTML 3KB, in Japanese)
  • Takeuchi, F. et al. (2003)
    Empirical evaluation of large-scale SNP and haplotype analyses for exploring disease susceptibility mutations by candidate gene approaches,
    in Proc. 48th annual meeting of the Japan society of human genetics, Nagasaki, 116. (HTML 3KB, in Japanese)
  • Takeuchi, F. et al. (2005)
    Linkage disequilibrium grouping of single nucleotide polymorphisms (SNPs) reflecting haplotype phylogeny for efficient selection of tag SNPs,
    Genetics 170, 291--304. (PubMed)
  • Takeuchi, F. et al. (2007)
    Search of type 2 diabetes susceptibility gene on chromosome 20q,
    Biochem Biophys Res Commun. 357, 1100--1106. (PubMed)
  • Takeuchi, F., McGinnis, R. (2007)
    Quantifying disease genotype enrichment under multiple causative loci,
    in Proc. 16th annual meeting of the International Genetic Epidemiology Society, York, Genetic Epidemiology, 31, 646. (TEXT 4KB)
  • Takeuchi, F. et al. (2008)
    HapMap coverage for SNPs in the Japanese population,
    J Hum Genet. 53, 96--99. (PubMed)
  • Kato, N. et al. (2008)
    High-density association study and nomination of susceptibility genes for hypertension in the Japanese national project,
    Hum Mol Genet. 17, 617--627. (PubMed)
  • Takeuchi, F. et al. (2008)
    Search of type 2 diabetes susceptibility genes on chromosomes 1q, 3q and 12q,
    J. Hum. Genet. 53, 314. (PubMed)
  • Hunt, KA. et al. (2008)
    Newly identified genetic risk variants for celiac disease related to the immune response,
    Nat. Genet. 40, 395. (PubMed)
  • Takeuchi, F., McGinnis, R. (2008)
    Mathematical characterization of complex disease: Analytic expressions for the multi-locus additive model,
    in Proc. 58th annual meeting of the Americal Society of Human Genetics, Philadelphia. (HTML)
  • Takeuchi, F. et al. (2009)
    Genome-wide association study of type 2 diabetes in the Japanese using 550K array and the verification of genetic effects,
    in Proc. 52nd annual meeting of the Japan Diabetes Society, Osaka, Journal of the Japanese Diabetes Society 52, Supplement 1, S-286. (in Japanese, HTML)
  • Takeuchi, F. et al. (2009)
    Confirmation of multiple risk loci and genetic impacts by a genome-wide association study of type 2 diabetes in the Japanese population,
    Diabetes 58, 1690--1699. (PubMed) (Tables in Excel format)
  • Takeuchi, F. et al. (2009)
    Evaluation of genetic loci influencing adult height in the Japanese,
    in Proc. 54th annual meeting of the Japan Society of Human Genetics, Tokyo, 216. (in Japanese, PDF)
  • Takeuchi, F. et al. (2009)
    Ethnic diversity in fine mapping of the susceptibility loci G6PC2-ABCB11 for fasting glucose and CDKAL1 for type 2 diabetes,
    in Proc. 59th annual meeting of the American Society of Human Genetics, Honolulu, 1976. (HTML)
  • Takeuchi, F. et al. (2009)
    Confirmation of eight loci associated with measures of obesity in two Asian populations with substantial ethnic heterogeneity,
    in Proc. 27th annual scientific meeting of the Obesity Society, Washington DC; Obesity 17, Supplement 2, S81.
  • Takeuchi, F. et al. (2011)
    Association of genetic variants for susceptibility to obesity with type 2 diabetes in the Japanese,
    Diabetologia, 54, 1350--1359. (PubMed)
  • Takeuchi, F. et al. (2009)
    Evaluation of genetic loci influencing adult height in the Japanese,
    J. Hum. Genet., 54, 749--752. (PubMed)
  • Takeuchi, F. et al. (2009)
    Common variants at the GCK, GCKR, G6PC2-ABCB11, and MTNR1B loci are associated with fasting glucose in two Asian populations,
    Diabetologia, 53, 299--308. (PubMed)
  • Takeuchi, F. et al. (2010)
    Blood pressure and hypertension are associated with seven loci in the Japanese population,
    Circulation, 121, 2302--2309. (PubMed)
  • Takeuchi, F. et al. (2010)
    Blood pressure and hypertension are associated with seven loci in the Japanese population,
    in Proc. 33rd annual scientific meeting of the Japanese Society of Hypertension, Fukuoka, 247 and 319.
  • International HapMap 3 Consortium (2010)
    Integrating common and rare genetic variation in diverse human populations,
    Nature, 467, 52--58. (PubMed)
  • Takeuchi, F., Kato, N. (2010)
    Testing heterogeneity of quantitative trait variance among genotype classes guides fine mapping of association signals (in Japanese),
    in Proc. 55th annual meeting of the Japan Society of Human Genetics, Ohmiya, 205.
  • Takeuchi, F., Kato, N. (2010)
    Testing heterogeneity of quantitative trait variance among genotype classes guides fine mapping of association signals,
    in Proc. 60th annual meeting of the American Society of Human Genetics, Washington DC, Program Number 2829. (ASHG)
  • Takeuchi, F. et al. (2011)
    Detection of common single nucleotide polymorphisms synthesizing quantitative trait association of rarer causal variants,
    Genome Res, 21, 1122--1130. (PubMed)
  • Kato, N, Takeuchi, F. et al. (2011)
    Meta-analysis of genome-wide association studies identifies common variants associated with blood pressure variation in east Asians,
    Nat. Genet. 43, 531--538. (PubMed)
  • Takeuchi, F. et al. (2010)
    Confirmation of ALDH2 as a major locus of drinking behavior and of its variants regulating multiple metabolic phenotypes in Japanese,
    Circulation J, 75, 911--918.
  • Kooner, JS. et al. (2011)
    Genome-wide association study in individuals of South Asian ancestry identifies six new type 2 diabetes susceptibility loci,
    Nat. Genet, 43, 984--989. (PubMed)
  • Takeuchi, F. et al. (2011)
    Genome-wide association study of coronary artery disease in the Japanese,
    Eur J Hum Genet, 20, 333--340. (PubMed)
  • Takeuchi, F. (2011)
    Fine-mapping of 13q14 locus associated with susceptibility to leprosy and Crohn's disease,
    in Proc. 61th annual meeting of the American Society of Human Genetics, Montreal, Program Number 467T. (ASHG)
  • Li, H. et al. (2012)
    Association of genetic variation in FTO with risk of obesity and type 2 diabetes with data from 96,551 East and South Asians,
    Daibetologia, 55, 981--995. (PubMed)
  • Cho, YS. et al. (2012)
    Meta-analysis of genome-wide association studies identifies eight new loci for type 2 diabetes in east Asians,
    Nat. Genet, 44, 67--72. (PubMed)
  • Wen, W. et al. (2012)
    Meta-analysis identifies common variants associated with body mass index in east Asians,
    Nat Genet. 44, 307--311. (PubMed)
  • Takeuchi, F. et al. (2012)
    Reevaluation of the association of seven candidate genes with blood pressure and hypertension: a replication study and meta-analysis with a larger sample size,
    Hypertens Res. 35, 825--831. (PubMed)
  • Kelly, MA. et al. (2012)
    Circadian Gene Variants and Susceptibility to Type 2 Diabetes: A Pilot Study,
    PLoS ONE 7, e32670.
  • Xi, B. et al. (2012)
    Common polymorphism near the MC4R gene is associated with type 2 diabetes: data from a meta-analysis of 123,373 individuals,
    Diabetologia, 55, 2660--2666. (PubMed)
  • Pinidiyapathirage, MJ. et al. (2012)
    The burden of diabetes mellitus and impaired fasting glucose in an urban population of Sri Lanka,
    Diabetic Medicine doi:10.1111/dme.12013. (PubMed)
  • Takeuchi, F. et al. (2012)
    Association of genetic variants influencing lipid levels with coronary artery disease in Japanese individuals,
    PLoS ONE, 7, e46385.
  • Tabara, Y. et al. (2012)
    Hunting for genes for hypertension: the Millennium Genome Project for Hypertension,
    Hypertens Res. 35, 567-73. (PubMed)
  • Okada, Y. et al. (2012)
    Meta-analysis identifies multiple loci associated with kidney function-related traits in east Asian populations,
    Nat Genet. 44, 904-9. (PubMed)
  • Okamura Y. et al. (2012)
    Deletion of CDKAL1 affects high-fat diet-induced fat accumulation and glucose-stimulated insulin secretion in mice, indicating relevance to diabetes,
    PLoS ONE, 7, e49055.
  • Li, H. et al. (2013)
    A genome-wide association study identifies GRK5 and RASGRP1 as type 2 diabetes loci in Chinese Hans,
    Diabetes. 62, 291-298 (PubMed)
  • Takeuchi, F. et al. (2013)
    Genetic impact on uric acid concentration and hyperuricemia in the japanese population,
    J Atheroscler Thromb. 20, 351-67. (PubMed)
  • Saxena, R. et al. (2013)
    Genome-wide association study identifies a novel locus contributing to type 2 diabetes susceptibility in Sikhs of Punjabi origin from India,
    Diabetes. 62, 1746--1755. (PubMed)
  • Wang, X. et al. (2013)
    Comparing methods for performing trans-ethnic meta-analysis of genome-wide association studies,
    Hum Mol Genet. 22, 2303-11. (PubMed)
  • Chackrewarthy, S. et al. (2013)
    A comparison between revised NCEP ATP III and IDF definitions in diagnosing metabolic syndrome in an urban Sri Lankan population; The Ragama Health Study,
    ISRN Endocrinology, 320176. (PubMed)
  • Franceschini, N. et al. (2013)
    Genome-wide association analysis of blood-pressure traits in African-ancestry individuals reveals common associated genes in African and non-African populations,
    Am J Hum Genet. 93, 545-554. (PubMed)
  • Kelly, T. et al. (2013)
    Genome-wide association study meta-analysis reveals transethnic replication of mean arterial and pulse pressure loci,
    Hypertension. 62, 853--859. (PubMed)
  • DIAGRAM Consortium (2014)
    Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility,
    Nat Genet, 46, 234--244. (PubMed)
  • Xi, B., Takeuchi, F. et al. (2014)
    Associations of genetic variants in/near body mass index-associated genes with type 2 diabetes: a systematic meta-analysis,
    Clin Endocrinol (Oxf). 2014 Feb 16. doi: 10.1111/cen.12428 [Epub ahead of print]
  • Chen, P., Takeuchi, F. et al. (2014)
    Multiple Non-glycemic Genomic Loci Are Newly Associated with Blood Level of Glycated Hemoglobin in East Asians,
    Diabetes, 2014 Mar 19. [Epub ahead of print]
  • Akiyama, K., Takeuchi, F. et al. (2014)
    Systematic Fine-Mapping of Association with BMI and Type 2 Diabetes at the FTO Locus by Integrating Results from Multiple Ethnic Groups,
    PLoS ONE, 9, e101329
  • Wen, W. et al. (2014)
    Meta-analysis of genome-wide association studies in East Asian-ancestry populations identifies four new loci for body mass index,
    Hum Mol Genet. 23, 5492--5504. (PubMed)
  • Kasturiratne, A. et al. (2014)
    Association of genetic variants with non-alcoholic fatty liver disease in an urban Sri Lankan community,
    Liver Int. doi: 10.1111/liv.12624. [Epub ahead of print] (PubMed)
  • Hwang, JY. et al. (2014)
    Genome-wide association meta-analysis identifies novel variants associated with fasting plasma glucose in East Asians,
    Diabetes. 2014 Sep 3. pii: DB_140563. [Epub ahead of print] (PubMed)
  • He, M. et al. (2015)
    Meta-analysis of genome-wide association studies of adult height in East Asians identifies 17 novel loci,
    Hum Mol Genet., 24, 1791-1800. (PubMed)
  • Takeuchi, F. et al. (2015)
    Heterogeneous Effects of Association Between Blood Pressure Loci and Coronary Artery Disease in East Asian Individuals,
    Circ J., 79, 830-838. (PubMed)
  • Takeuchi, F., Kato, N. (2018)
    Extending SNP-based heritability analysis: how many variants show strong effect in a GWAS,
    in Proc. 27th annual meeting of the International Genetic Epidemiology Society, San Diego, Genetic Epidemiology, xxx, xxx; Annual Meeting of the American Society of Human Genetics (poster)
• Association study for warfarin pharmacogenomics
  • McGinnis, R. et al. (2008)
    Genome-wide association scan for genetic determinants of warfarin dose,
    in Proc. 58th annual meeting of the Americal Society of Human Genetics, Philadelphia. (HTML)
  • Press release: GenomeWeb Daily News, November 14, 2008.
  • Takeuchi, F. et al. (2009)
    A genome-wide association study confirms VKORC1, CYP2C9 and CYP4F2 as principal genetic determinants of warfarin dose,
    PLoS Genet. 5, e1000433 (supplementary program)
  • Takeuchi, F. et al. (2010)
    Evaluation of pharmacogenetic algorithm for warfarin dose requirements in Japanese patients,
    Circulation J, 74, 977--982. (PubMed)
• Other human genetics papers
  • Tsuchihashi-Makaya et al. (2009)
    Gene-environmental interaction regarding alcohol metabolizing enzymes in the Japanese general population,
    Hypertension Res. 32, 207--213. (PubMed)
• Infectious disease transmission on human contact networks
  • Takeuchi, F., Yamamoto, K. (2005)
    Effectiveness of vaccination strategies for infectious diseases according to human contact networks,
    in Proc. 54th Japan National Congress for Theoretical and Applied Mechanics, Tokyo, 131--132. (PDF 195KB)
  • Takeuchi, F., Yamamoto, K. (2005)
    Effectiveness of vaccination strategies for infectious diseases according to human contact networks,
    in Proc. 5th International Conference on Computational Science (ICCS 2005), Atlanta, Lecture Notes in Computer Science 3514, Springer-Verlag, 2005, 956--962. (Abstract) (PDF 318KB)
  • Press release: Nikkei Science, June 2005, 74.
  • Takeuchi, F. (2005)
    Effectiveness of vaccination strategies for infectious diseases according to human contact networks (review),
    in Proc. 16th Annual Conference of the Japanese Society for Bio-Defense Research, Tokyo, 52. (HTML 5KB)
  • Press release: Medical Tribune, 38(36), September 8, 2005, 24.
  • Takeuchi, F. (2005)
    Effectiveness of vaccination strategies for infectious diseases according to human contact networks (review),
    Jpn. J. Infect. Dis. 58, S16--S17. (PubMed) (PDF 46KB)
  • Takeuchi, F., Yamamoto, K. (2006)
    Effectiveness of realistic vaccination strategies for contact networks of various degree distributions,
    J. Theor. Biol. 243, 39--47. (PubMed) (Mathematica program for simulation)
• Genomics and meta-genomics of infectious diseases
  • Sekizuka, T. et al. (2011)
    Complete sequencing of the blaNDM-1-positive IncA/C plasmid from Escherichia coli ST38 isolate suggests a possible origin from plant pathogens,
    PLoS ONE 6, e25334.
  • Kuroda, M. et al. (2012)
    Detection of a possible bioterrorism agent, Francisella sp., in a clinical specimen by use of next-generation direct DNA sequencing,
    J Clin Microbiol. 50, 1810-1812. (PubMed)
  • Sekizuka, T. et al. (2012)
    Corynebacterium ulcerans 0102 carries the gene encoding diphtheria toxin on a prophage different from the C. diphtheriae NCTC 13129 prophage,
    BMC Microbiol. 12, 72. (PubMed)
  • Saitoh, M. et al. (2012)
    Molecular evolution of hemagglutinin (H) gene in measles virus genotypes D3, D5, D9, and H1,
    PLoS ONE, 7, e50660.
  • Matsuo, J. et al. (2013)
    Protochlamydia induces apoptosis of human HEp-2 cells through mitochondrial dysfunction mediated by chlamydial protease-like activity factor,
    PLoS ONE. 8, e56005.
  • Kukimoto, I. et al. (2013)
    Genetic variation of human papillomavirus type 16 in individual clinical specimens revealed by deep sequencing,
    PLoS ONE. 8, e80583.
  • Nakanaga, K. et al. (2014)
    Discrimination of Mycobacterium abscessus subsp. massiliense from Mycobacterium abscessus subsp. abscessus in clinical isolates by multiplex PCR,
    J Clin Microbiol. 52, 251--259. (PubMed)
  • Takeuchi, F. et al. (2014)
    MePIC, metagenomic pathogen identification for clinical specimens,
    Jpn J Infect Dis. 67, 62--65. (PubMed)
  • Ishida, K. et al. (2014)
    Amoebal endosymbiont Neochlamydia genome sequence illuminates the bacterial role in the defense of the host amoebae against Legionella pneumophila,
    PLoS ONE, 9, e95166
  • Azuma, Y. et al. (2014)
    Human Papillomavirus Genotype Distribution in Cervical Intraepithelial Neoplasia Grade 2/3 and Invasive Cervical Cancer in Japanese Women,
    Japanese Journal of Clinical Oncology doi: 10.1093/jjco/hyu112. (PubMed)
  • Saitoh, M. et al. (2015)
    Molecular evolution of haemagglutinin (H) gene in measles virus,
    Scientific Reports, accepted
  • Takeuchi, F. et al. (2015)
    The Mitochondrial Genomes of a Myxozoan Genus Kudoa are Extremely Divergent in Metazoa,
    PLoS ONE, accepted
  • Takeuchi, F. et al. (2015)
    Genetic variants of Kudoa septempunctata (Myxozoa: Multivalvulida), a flounder parasite causing foodborne disease,
    J Fish Diseases 10.1111/jfd.12395 (PubMed)
• Genomics of Staphylococci
  • Baba T. et al. (2002)
    Genome and virulence determinants of high virulence community-acquired MRSA,
    Lancet 359, 1819--1827. (PubMed)
  • Takeuchi, F., Yamamoto, K. (2002)
    Comparative genomics of MRSA strains,
    in Proc. 10th international symposium on staphylococci and staphylococcal infections, Tsukuba, 135. (PDF 3KB)
  • Katayama Y. et al. (2003)
    Identification in Methicillin-Susceptible Staphylococcus hominis of an Active Primordial Mobile Genetic Element for the Staphylococcal Cassette Chromosome mec of Methicillin-Resistant Staphylococcus aureus,
    J. Bacteriol. 185, 2711--2722. (PubMed) (Abstract)
  • Takeuchi, F., Hiramatsu, K. (2003)
    Comparative genomics among Staphylococcus species and strains for the identification of genomic islands (Gislands) involved in pathogenesis and drug resistance,
    in Proc. 3rd Awaji international forum on infection and immunity, Awaji Island, P-095. (HTML 2KB)
  • Baba, T. et al. (2004)
    The Staphylococcus aureus genome,
    in Ala'aldeen, Dlawer and Hiramatsu, Keiichi editors, Staphylococcus aureus: Molecular and Clinical Aspects, Horwood Publishing Limited, Chichester, ISBN: 1-898563-96-9.
  • Takeuchi, F. et al. (2004)
    Comparative genomics and evolution of Staphylococcus aureus, epidermidis and haemolyticus,
    Japanese Journal of Bacteriology 59, 124. (HTML 2KB, in Japanese)
  • Takeuchi, F. et al. (2004)
    Comparative genomics and evolution of Staphylococcus aureus, epidermidis and haemolyticus,
    in Proc. Genomes 2004, Hinxton, 81--82. (HTML 3KB)
  • Takeuchi, F. et al. (2005)
    Whole genome sequencing of Staphylococcus haemolyticus uncovers extreme plasticity of its genome and dynamism in the evolution of human-colonizing staphylococcal species,
    in Proc. 5th Awaji international forum on infection and immunity, Awaji Island, P-001, 61. (HTML 2KB)
  • Takeuchi, F. et al. (2005)
    Whole-genome sequencing of Staphylococcus haemolyticus uncovers the extreme plasticity of its genome and the evolution of human-colonizing staphylococcal species,
    J. Bacteriol. 187, 7292--7308. (PubMed) (Abstract) (erratum) (slides focused on oriC environ, PDF 1.4MB)
  • Takeuchi, F. et al. (2005)
    Chromosomal distribution of homologs extracts horizontally transferred genomic regions in Staphylococcus aureus, epidermidis and haemolyticus,
    in Proc. the Tapestry of life: Lateral transfers of heritable elements, Sackler colloquia, Irvine, 48. (HTML 3KB)
  • Takeuchi, F. et al. (2006)
    Speciation of Staphylococci and the oriC environ,
    in Proc. 12th international symposium on staphylococci and staphylococcal infections, Maastricht, 127. (HTML 2KB)
  • Takeuchi, F. et al. (2007)
    Comparative analysis of MRSA,
    in Ji, Yindou editor, Methicillin-Resistant Staphylococcus aureus (MRSA) Protocols, Humana Press, Totowa, ISBN: 1-58829-655-5.
  • Baba, T. et al. (2009)
    Complete Genome Sequence of Macrococcus caseolyticus Strain JSCS5402, Reflecting the Ancestral Genome of the Human-Pathogenic Staphylococci,
    J. Bacteriol. 191, 1180--1190. (PubMed) (Abstract)
  • Hiramatsu, K. et al. (2013)
    Genomic Basis for Methicillin Resistance in Staphylococcus aureus,
    Infect Chemother. 45, 117--136. (PubMed)
• Mutations of Staphylococcus aureus
  • Kapi, M. et al. (2002)
    Spontaneous mutation accompanying decreased growth rate confers vancomycin resistance in the subpopulation of hetero-VRSA strain Mu3,
    in Proc. 10th international symposium on staphylococci and staphylococcal infections, Tsukuba, 51. (PDF 6KB)
• Other Staphylococcus aureus papers
  • Kuroda, M. et al. (2003)
    Two-component system VraSR positively modulates the regulation of cell-wall biosynthesis pathway in Staphylococcus aureus,
    Mol Microbiol. 49, 807--21. (PubMed)
  • Ito, T. et al. (2004)
    Novel type V staphylococcal cassette chromosome mec driven by a novel cassette chromosome recombinase, ccrC,
    Antimicrob Agents Chemother. 48, 2637--51. (PubMed)
  • Hiramatsu, K. et al. (2004)
    Genetic characterization of methicillin-resistant Staphylococcus aureus,
    Vaccine 2 Suppl 1, S5--8. (PubMed)
  • Watanabe, S. et al. (2005)
    Structural comparison of ten serotypes of Staphylocoagulases in Staphylococcus aureus,
    J. Bacteriol. 187, 3698--3707. (PubMed)
  • Watanabe, S. et al. (2007)
    Precise excision and self-integration of a composite transposon as a model for spontaneous large-scale chromosome inversion/deletion of the Staphylococcus haemolyticus clinical strain JCSC1435,
    J. Bacteriol. 189, 2921--2925. (PubMed)
  • Neoh, HM. et al. (2007)
    Impact of reduced vancomycin susceptibility on the therapeutic outcome of MRSA bloodstream infections,
    Ann of Clin Microbiol Antimicrob. 6, 13 (PubMed)
  • Neoh, HM. et al. (2008)
    Mutated response regulator graR is responsible for phenotypic Conversion of Staphylococcus aureus from heterogeneous Vancomycin-intermediate resistance to Vancomycin-intermediate resistance,
    Antimicrob Agents Chemother. 52, 45--53. (PubMed)
  • Baba, T. et al. (2008)
    Genome sequence of Staphylococcus aureus strain Newman and comparative analysis of staphylococcal genomes: polymorphism and evolution of two major pathogenicity islands,
    J. Bacteriol. 190, 300--310. (PubMed)
  • Han, X. et al. (2009)
    Identification of a novel variant of staphylococcal cassette chromosome mec, type II.5, and its truncated form by insertion of putative conjugative transposon Tn6012,
    Antimicrob Agents Chemother. 53, 2616-2619. (PubMed)
  • Zhang, M. et al. (2011)
    Identification of the third type of PVL phage in ST59 methicillin-resistant Staphylococcus aureus (MRSA) strains,
    FEMS Microbiology Letters, 323, 20--28.
• Nucleotide sequences and evolution
  • Takeuchi, F., Yamamoto, K., Yoshikura, H. (2000)
    Analysis of DNA coding regions,
    in Proc. 1st international conference on systems biology (ICSB 2000), Tokyo, 233-238. (PDF 169KB)
  • Takeuchi, F., Yamamoto, K., Yoshikura, H. (2001)
    How random are nucleotide sequences in coding regions?,
    in Proc. Human genome meeting 2001, Edinburgh, 85. (HTML 6KB)
  • Takeuchi, F., Yamamoto, K. (2001)
    Randomness of nucleotide sequences for gene finding,
    in Proc. Bioinformatics and genome research, San Francisco. (PDF 100KB)
  • Takeuchi, F., Yamamoto, K. (2001)
    Evolution is increasing randomness of nucleotides in coding sequences,
    in Proc. 24th annual meeting of the molecular biology society of Japan, Yokohama, 859. (HTML 2KB)
  • Takeuchi, F., Futamura, Y., Yoshikura, H., Yamamoto, K. (2002)
    Statistics of trinucleotides in coding sequences and evolution,
    in Proc. Human genome meeting 2002, Shanghai, 89. (HTML 3KB)
  • Takeuchi, F., Futamura, Y., Yoshikura, H., Yamamoto, K. (2003)
    Statistics of trinucleotides in coding sequences and evolution,
    J. Theor. Biol. 222, 139--149. (PubMed) (PDF 373KB)
  • Takeuchi, F., Futamura, Y., Yoshikura, H., Yamamoto, K. (2003)
    Trinucleotide statistics classify viruses and bacteriophages of different nucleotide types,
    in Proc. Human genome meeting 2003, Cancun, 86. (HTML 3KB)

• Enumeration of triangulations
  • Fumihiko Takeuchi, Hiroshi Imai & Keiko Imai:
    Enumerating triangulations for arbitrary configurations of points and for products of two simplices,
    Surikaisekikenkyujo Kokyuroku 992, ``Keisanriron to sono ouyou'', 1997, 98--105. (PDF 241KB)
  • Fumihiko Takeuchi & Hiroshi Imai:
    Enumerating triangulations for products of two simplices and for arbitrary configurations of points,
    in Proc. of Computing and combinatorics: third annual international conference (COCOON'97), Lecture Notes in Computer Science 1276, Springer-Verlag, 1997, 470--481. (PDF 238KB)
  • Fumihiko Takeuchi:
    Enumerating triangulations in general dimension,
    master thesis, Univ. of Tokyo, 1998. (PDF 521KB) and related files in Mathematica
  • Hiroshi Imai, Tomonari Masada, Fumihiko Takeuchi & Keiko Imai:
    Enumerating triangulations in general dimension,
    Int. J. of Comput. Geom. and Appl., 12 (2002), 455--480. (PDF 300KB)
• Minimum weight triangulation
  • Yoshiaki Kyoda, Keiko Imai, Fumihiko Takeuchi & Akira Tajima:
    A branch-and-cut approach for minimum weight triangulation,
    in Proc. of Algorithms and computation---8th international symposium (ISAAC '97), Lecture Notes in Computer Science 1350, Springer-Verlag, 1997, 384--393. (PDF 196KB)
• Polytopes of triangulations
  • Fumihiko Takeuchi, Hiroshi Imai & Keiko Imai:
    Polytopes of linear programming relaxation for triangulations,
    Surikaisekikenkyujo Kokyuroku 1068, ``Surisaitekika no riron to ouyou'', 1998, 121--133. (PDF 179KB)
• Triangulations and dissections
  • Jesus A. De Loera, Francisco Santos & Fumihiko Takeuchi:
    Extremal properties for dissections of convex 3-polytopes,
    SIAM J. Discrete Math. 14 (2001), 143--161. (PDF 344KB)
• Geometric shellings of 3-polytopes
  • Takayuki Ishizeki & Fumihiko Takeuchi:
    Geometric shellings of 3-polytopes,
    in Proc. of 11th Canadian conference on computational geometry, Vancouver, 1999, 132--135. (PDF 209KB)
• Extendable shellability, vertex decomposability
  • Sonoko Moriyama & Fumihiko Takeuchi:
    Incremental construction properties in dimension two---shellability, extendable shellability and vertex decomposability,
    in Proc. of 12th Canadian conference on computational geometry, Fredericton, 2000, 65--72. (PDF 176KB)
  • Sonoko Moriyama & Fumihiko Takeuchi:
    Incremental construction properties in dimension two---shellability, extendable shellability and vertex decomposability,
    Disc. Math. 263 (2003), 295--296. (PDF 103KB)
• View graphs of triangulations
  • Fumihiko Takeuchi:
    Nonregular triangulations, view graphs of triangulations, and linear programming duality,
    Surikaisekikenkyujo Kokyuroku 1175, ``Algebraic combinatorics and convex polytopes'', 2000, 77--85. (PDF 167KB)
  • Fumihiko Takeuchi:
    Nonregular triangulations, view graphs of triangulations, and linear programming duality,
    Discrete and computational geometry: Japanese conference; revised papers (JCDCG 2000), Lecture Notes in Computer Science 2098, Springer-Verlag, 2001, 330--338. (PDF 165KB) Appendix (PDF 43KB)
• Combinatorics of triangulations
  • Fumihiko Takeuchi:
    Combinatorics of triangulations,
    Ph.D thesis, Univ. of Tokyo, 2001. (English, PDF 811KB) (With Japanese, PDF 960KB)
• Pseudo-triangulations
  • Lutz Kettner, David Kirkpatrick, Andrea Mantler, Jack Snoeyink, Bettina Speckmann & Fumihiko Takeuchi:
    Tight degree bounds for pseudo-triangulations of points,
    Computational Geometry: Theory and Applications 25 (2003), 3--12.

• ldgroup: linkage disequilibrium grouping of single nucleotide polymorphisms (SNPs) reflecting haplotype phylogeny for efficient selection of tag SNPs.
  The program written in R is available here. This is still developmental. Any comments or requests are welcome! README.txt ldgroup.R test.phased test.geno test.dat
• A program for testing if an SNP represents a synthetic association. The program written in R is available here. synthetic.R

• Enumeration of all triangulations (in Mathematica)
• Enumeration of regular triangulations by Tomonari Masada

• 2004.07--2006.09
  'Special Coordination Funds for Promoting Science and Technology' from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan.
• 2005.04--2006.09
  'Grant-in-Aid for Young Scientists (B)' from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan.
• 2010.04--2011.03
  PI: Teruyo Ito, 'Grant-in-Aid for ???' from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan. For the SCCmec database
• 2011.04--2013.03
  'Grant-in-Aid for Young Scientists (B)' from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan.
• 2013.04--2016.03
  'Grant-in-Aid for Scientific Research (C)' from the Ministry of Education, Culture, Sports, Science and Technology (MEXT) of Japan.

• The Japanese Society of Hypertension, Young Investigator's Award 2010

• Infection control science and bioinformatics
  Juntendo University Graduate School of Medicine, 17 Jan 2005 (lecture slides; in Japanese) (model file for Berkeley Madonna)
• Statistical genetics for hunting disease susceptibility genes: GWAS and next
  Lecture given at the Univ of Tokyo, 1 July 2011 (lecture slides; in Japanese)
• Statistical genetics for post-GWAS: meta-analysis and fine mapping
  Lecture given at RIKEN, 16 Sept 2011 (lecture slides; in Japanese)
• Bacterial genomics analysis using Unix
  Juntendo University Graduate School of Medicine, Jan--Feb 2013 (lecture notes; in Japanese)
• Genome-wide association study: success of multi-ethnic large-scale analyses and worries for geographic genetic structure
  Lecture given at Tohoku University, 15 Jan 2016 (slides; in Japanese)
• Genome-wide association study of hypertension
  Japanese Joint Statistical Meeting, 6 Sept 2016 (slides; in Japanese)
• Genome-wide association study and epigenome analysis of hypertension
  Annual Scientific Meeting of the Japanese Society of Hypertension, 1 Oct 2016 (slides; in Japanese)
• Basics of artificial intelligence and deep learning
  Japan Medical Association, 19 Jan 2017 (slides; in Japanese)
• Genomics and epigenomics of metabolic diseases
  Annual Meeting of the Japanese Diabetes Society, 25 May 2018 (slides; in Japanese)
• Genome-wide association study of hypertension
  Annual Scientific Meeting of the Japanese Society of Hypertension, 16 Sep 2018 (slides; in Japanese)
• Medical genome statistical analysis (notes; in Japanese)