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論　文（最近の論文）

  • Tamura Y, Harada Y, Nishikawa SI, Yamano K, Kamiya M, Shiota T, Kuroda T, Kuge O, Sesaki H, Imai K, Tomii K, Endo T.:"Tam41 Is a CDP-Diacylglycerol Synthase Required for Cardiolipin Biosynthesis in Mitochondria", Cell Metabolism, in press.(2013). headAbstract
  • Nishino T, Rago F, Hori T, Tomii K, Cheeseman IM, Fukagawa T.:"CENP-T provides a structural platform for outer kinetochore assembly.", The EMBO Journa, 6;32(3), pp.424-36.(2013). headAbstract
  • Kimura M, Kose S, Okumura N, Imai K, Furuta M, Sakiyama N, Tomii K, Horton P, Takao T, Imamoto N.:"Identification of cargo proteins specific for the nucleocytoplasmic transport carrier transportin by combination of an in vitro transport system and stable isotope labeling by amino acids in cell culture (SILAC)-based quantitative proteomics.", Mol Cell Proteomics.,12(1), pp145-57(2013). headAbstract
  • Iwata H, Gotoh O.:"Benchmarking spliced alignment programs including an extended version of spaln (spaln2) that incorporates additional species-specific features", Nucleic Acids Res., 1;40(20):e161. doi: 10.1093/nar/gks708.(2012). headAbstract
  • Belinky F, Bahir I, Stelzer G, Zimmerman S, Rosen N, Nativ N, Dalah I, Iny Stein T, Rappaport N, Mituyama T, Safran M, Lancet D.:"Non-redundant compendium of human ncRNA genes in GeneCards.", Bioinformatics, (2012). (in press) headAbstract
  • Dmitry Nerukh, Noriaki Okimoto, Atsushi Suenaga, and Makoto Taiji:"Ligand diffusion on protein surface observed in molecular dynamics simulation", J. Phys. Chem. Lett.. 3 (23), pp.3476-3479 (2012). headAbstract
  • Krishnan Harini, Sankar Kannan, Wataru Nemoto, Kazuhiko Fukui, Ramanathan Sowdhamini:"Residue conservation and dimer-interface analysis of olfactory receptor molecular models", Journal of Molecular Biochemistry. 1, pp.161-170 (2012). headAbstract
  • Goro Terai, Hiroaki Okida, Kiyoshi Asai, Toutai Mituyama :"Prediction of Conserved Precursors of miRNAs and Their Mature Forms by Integrating Position-Specific Structural Features", PLoS One.. PLoS ONE 7(9): e44314. doi:10.1371 (2012). headAbstract
  • Yamasaki S, Terada T, Kono H, Shimizu K, Sarai A.:"A new method for evaluating the specificity of indirect readout in protein-DNA recognition", Nucleic Acids Res.. 1;40(17):e129 (2012). headAbstract
  • Akiyama S, Suenaga A, Kobayashi T, Kamioka T, Taiji M, Kuroda Y.:"Experimental identification and theoretical analysis of a thermally stabilized green fluorescent protein variant", Biochemistry.. 9;51(40):7974-82. doi: 10.1021/bi300580j.(2012). headAbstract
  • Suenaga A, Okimoto N, Hirano Y, Fukui K.:"An efficient computational method for calculating ligand binding affinities", PLoS One.. ;7(8):e42846. doi: 10.1371(2012). headAbstract
  • Priyadarzini TR, Selvin JF, Gromiha MM, Fukui K, Veluraja K.:"Theoretical Investigation on the Binding Specificity of Sialyldisaccharides with Hemagglutinins of Influenza A Virus by Molecular Dynamics Simulations", J Biol Chem.. 2012 Oct 5;287(41):34547-57. doi: 10.1074/jbc.M112.357061 (2012). headAbstract
  • Daiyasu H, Nemoto W, Toh H.:"Evolutionary analysis of functional divergence among chemokine receptors, decoy receptors and viral receptors.", Front Microbiol.. 2012;3:264. doi: 10.3389/fmicb.2012.00264.(2012). headAbstract
  • Yokobori T, Mimori K, Iwatsuki M, Ishii H, Tanaka F, Sato T, Toh H, Sudo T, Iwaya T, Tanaka Y, Onoyama I, Kuwano H, Nakayama KI, Mori M.:"Copy number loss of FBXW7 is related to gene expression and poor prognosis in esophageal squamous cell carcinoma.", Int J Oncol..2012 Jul;41(1):253-9. doi: 10.3892/ijo.2012.1436.(2012). headAbstract
  • Wataru Nemoto and Hiroyuki Toh :"Functional region prediction with a set of appropriate homologous sequences-an index for sequence selection by integrating structure and sequence information with spatial statistics", BMC Structural Biology.12:11 doi:10.1186/1472-6807-12-11(2012). headAbstract
  • Martin C. Frith,Ryota Mori and Kiyoshi Asai:"A mostly-traditional approach improves alignment of bisulfite-converted DNA", Nucleic Acids Research. Volume 40, Issue 13:pp.e100.(2012). headAbstract
  • 根本 航:"生物物理学における情報科学的解析の未来", 生物物理. 52(2), pp.100-101.(2012).
  • Ito J, Tabei Y, Shimizu K, Tomii K, Tsuda K.:"PDB-scale analysis of known and putative ligand-binding sites with structural sketches.", Proteins.. 2012 Mar;80(3):747-63 (2012). headAbstract
  • Sayoko Yamamoto, Ying Zhang, Takumi Yamaguchi, Tomoshi Kameda and Koichi Kato: "Lanthanide-assisted NMR evaluation of a dynamic ensemble of oligosaccharide conformations”,Chem Comm, 48(39), pp.4752-4754 (2012). headAbstract
  • M Michael Gromiha, K Harini, R Sowdhamini and Kazuhiko Fukui:"Relationship between amino acid properties and functional parameters in olfactory receptors and discrimination of mutants with enhanced specificity", BMC Bioinformatics. 2012, 13(Suppl 7):S1 doi:10.1186/1471-2105-13-S7-S1 (2012). headAbstract
  • Muhammed Z, Arai S, Saijo S, Yamato I, Murata T, Suenaga A.:Calculating the Na+ translocating V-ATPase catalytic site affinity for substrate binding by homology modeled NtpA monomer using molecular dynamics/free energy calculation.", J Mol Graph Model.. 2012 Jul;37:59-66. doi: 10.1016/j.jmgm.2012.03.006.(2012). headAbstract
  • Wan R, Anh VN, Asai K.:"Transformations for the compression of FASTQ quality scores of next-generation sequencing data.", Bioinformatics.. 2012 Mar 1;28(5):628-35. doi: 10.1093/bioinformatics/btr689.(2012). headAbstract
  • Fukui K, Takahashi K.:"Infrared multiple photon dissociation Spectroscopy and Computational Studies of O-Glycosylated Peptides", Anal Chem.. 2012 Mar 6;84(5):2188-94. doi: 10.1021/ac202379v. (2012). headAbstract
  • Satoshi Yamasaki, Shugo Nakamura, and Kazuhiko Fukui:"Prospects for Tertiary Structure Prediction of RNA Based on Secondary Structure Information.", J. Chem. Inf. Model.. 2012, 52 (2), pp.557-567 (2012). headAbstract
  • Watanabe M, Kobayashi T, Hirokawa T, Yoshida A, Ito Y, Yamada S, Orimoto N, Yamasaki Y, Arisawa M, Shuto S.:"Cyclopropane-based stereochemical diversity-oriented conformational restriction strategy: histamine H3 and/or H4 receptor ligands with the 2,3-methanobutane backbone.", Org Biomol Chem. 28;10(4):736-45.(2012). headAbstract
  • Ito J, Tabei Y, Shimizu K, Tsuda K, Tomii K.:"PoSSuM: a database of similar protein-ligand binding and putative pockets.", Nucleic Acids Res.. 2012 Jan;40(Database issue):D541-8.(2012). headAbstract
  • Hamada S, Satoh K, Fujibuchi W, Hirota M, Kanno A, Unno J, Masamune A, Kikuta K, Kume K, Shimosegawa T.:"MiR-126 acts as a tumor suppressor in pancreatic cancer cells via the regulation of ADAM9.", Mol Cancer Res.. 2012 Jan;10(1):3-10.(2012). headAbstract
  • Katsuhisa Horimoto:"On Two Issues of Molecular Network Models in Systems Biology - A Review", Proceedings, The Tenth International Symposium on Operations Research and Its Applications (ISORA 2011), Dunhuang, China, August 28-31, 2011 pp.22-27 (2012). headFull Text
  • M. Michael Gromiha,R. Sowdhamini,K. Fukui:"Structure-Function Relationship in Olfactory Receptors", Bio-Inspired Computing and Applications Lecture Notes in Computer Science . Volume 6840, 2012, pp.618-623 (2012). headAbstract
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