Original Articles(2016)

  • Aoki Y, Okamura Y, Ohta H, Kinoshita K, Obayashi T. ALCOdb: Gene Coexpression Database for Microalgae. Plant Cell Phys, 2016 Jan;57(1):e3. PubMed Journal
  • Aoki Y, Okamura Y, Tadaka S, Kinoshita K, Obayashi T. ATTED-II in 2016: A plant coexpression database towards lineage-specific coexpression. Plant Cell Phys, 2016 Jan;57(1):e5. PubMed Journal
  • Nishi H, Nakata J and Kinoshita K. Distribution of single nucleotide variants on protein-protein interaction sites and its relation to minor allele frequency. Protein Sci.2016 Feb;25(2):316-21. PubMed Journal
  • Kasahara K, Shirota M and Kinoshita K. Ion Concentration- and Voltage-Dependent Push and Pull Mechanisms of Potassium Channel Ion Conduction. PLoS One.2016 Mar 7;11(3):e0150716. PubMed Journal
  • Fujiwara Y, Kondo H. X, Shirota M, Kobayashi M, Takeshita K, Nakagawa A, Okamura Y and Kinoshita K. Structural basis for the membrane association of ankyrinG via palmitoylation. Sci Rep.2016 Apr 5;6:23981. PubMed Journal
  • Yamada KD, Nishi H and Kinoshita K. Structural characterization of single nucleotide variants at ligand binding sites and enzyme active sites of human proteins. Biophysics and Physicobiology 13, 157-163, 2016 PubMed Journal
  • Koshiba S, Motoike I, Kojima K, Hasegawa T, Shirota M, Saito T, Saigusa D, Danjoh I, Katsuoka F, Ogishima S, Kawai Y, Yamaguchi-Kabata Y, Sakurai M, Hirano S, Nakata J, Motohashi H, Hozawa A, Kuriyama S, Minegishi N, Nagasaki M, Takai-Igarashi T, Fuse N, Kiyomoto H, Sugawara J, Suzuki Y, Kure S, Yaegashi N, Tanabe O, Kinoshita K, Yasuda J and YamamotoM. The structural origin of metabolic quantitative diversity. Sci Rep.2016 Aug 16;6:31463. PubMed Journal
  • Murakami Y, Omori S and Kinoshita K. NLDB: a database for 3D protein-ligand interactions in enzymatic reactions. J Struct Funct Genomics PubMed Journal
  • Saigusa D, Okamura Y, Motoike IN, Katoh Y, Kurosawa Y, Saijyo R, Koshiba S, Yasuda J, Motohashi H, Sugawara J, Tanabe O, Kinoshita K and Yamamoto M. Establishment of Protocols for Global Metabolomics by LC-MS for Biomarker Discovery. PLoS One. 2016 Aug 31;11(8):e0160555. PubMed Journal
  • Shirota M and Kinoshita K.Discrepancies between human DNA, mRNA and protein reference sequences and their relation to single nucleotide variants in the human population. Database (Oxford) 2016. Sep 1;2016. pii: baw124. PubMed Journal
  • Kuriyama S, Yaegashi N, Nagami F, Arai T, Kawaguchi Y, Osumi N, Sakaida M, Suzuki Y, Nakayama K, Hashizume H, Tamiya G, Kawame H, Suzuki K, Hozawa A, Nakaya N, Kikuya M, Metoki H, Tsuji I, Fuse N, Kiyomoto H, Sugawara J, Tsuboi A, Egawa S, Ito K, Chida K, Ishii T, Tomita H, Taki Y, Minegishi N, Ishii N, Yasuda J, Igarashi K, Shimizu R, Nagasaki M, Koshiba S, Kinoshita K, Ogishima S, Takai-Igarashi T, Tominaga T, Tanabe O, Ohuchi N, Shimosegawa T, Kure S, Tanaka H, Ito S, Hitomi J, Tanno K, Nakamura M, Ogasawara K, Kobayashi S, Sakata K, Satoh M, Shimizu A, Sasaki M, Endo R, Sobue K, Study Group TT and Yamamoto M. The Tohoku Medical Megabank Project: Design and Mission. J Epidemiol.2016; 26(9): 493–511. PubMed Journal
  • Kasahara K and Kinoshita K. Landscape of protein-small ligand binding modes. Protein Sci. 2016 Sep; 25(9): 1659–1671. PubMed Journal
  • Tadaka S and Kinoshita K. NCMine: Core-peripheral based functional module detection using near-clique mining. Bioinformatics.2016 Nov 15;32(22):3454-3460. PubMed Journal
  • Kasahara K and Kinoshita K. IBiSA_Tools: A Computational Toolkit for Ion-Binding State Analysis in Molecular Dynamics Trajectories of Ion Channels. PLoS One. 2016 Dec 1;11(12):e0167524.
    PubMed Journal
  • Gojobori T, Ikeo K, Katayama Y, Kawabata T, Kinjo AR, Kinoshita K, Kwon Y, Migita O, Mizutani H, Muraoka M, Nagata K, Omori S, Sugawara H, Yamada D, Yura K. VaProS: A Database-Integration Approach for Protein/Genome Information Retrieval. J Struct Funct Genomics.2016 Dec;17(4):69-81. PubMed Journal
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