Original Articles(2011)

  • Patil A, Nakai K and Kinoshita K. Assessing the utility of gene co-expression stability in combination with correlation in the analysis of protein-protein interaction networks. BMC Genomics, 2011 Nov 30;12 Suppl 3:S19 PubMed Journal
  • Fleishman SJ, Whitehead TA, Strauch EM, Corn JE, Qin S, Zhou HX, Mitchell JC, Demerdash ON, Takeda-Shitaka M, Terashi G, Moal IH, Li X, Bates PA, Zacharias M, Park H, Ko JS, Lee H, Seok C, Bourquard T, Bernauer J, Poupon A, Azé J, Soner S, Ovali SK, Ozbek P, Tal NB, Haliloglu T, Hwang H, Vreven T, Pierce BG, Weng Z, Pérez-Cano L, Pons C, Fernández-Recio J, Jiang F, Yang F, Gong X, Cao L, Xu X, Liu B, Wang P, Li C, Wang C, Robert CH, Guharoy M, Liu S, Huang Y, Li L, Guo D, Chen Y, Xiao Y, London N, Itzhaki Z, Schueler-Furman O, Inbar Y, Potapov V, Cohen M, Schreiber G, Tsuchiya Y, Kanamori E, Standley DM, Nakamura H, Kinoshita K, Driggers CM, Hall RG, Morgan JL, Hsu VL, Zhan J, Yang Y, Zhou Y, Kastritis PL, Bonvin AM, Zhang W, Camacho CJ, Kilambi KP, Sircar A, Gray JJ, Ohue M, Uchikoga N, Matsuzaki Y, Ishida T, Akiyama Y, Khashan R, Bush S, Fouches D, Tropsha A, Esquivel-Rodríguez J, Kihara D, Stranges PB, Jacak R, Kuhlman B, Huang SY, Zou X, Wodak SJ, Janin J and Baker D. Community-wide assessment of protein-interface modeling suggests improvements to design methodology. J Mol Biol, 2011 Nov 25;414(2):289-302 PubMed Journal
  • Shirota M, Ishida T and Kinoshita K. Absolute quality evaluation of protein model structures using statistical potentials with respect to the native and reference states. Proteins, 2011 May;79(5):1550-63 PubMed Journal
  • Obayashi T, Nishida K, Kasahara K and Kinoshita K. ATTED-II updates: condition-specific gene coexpression to extend coexpression analyses and applications to a broad range of flowering plants. Plant Cell Physiol, 2011 Feb;52(2):213-9 PubMed Journal
  • Obayashi T and Kinoshita K. COXPRESdb: a database to compare gene coexpression in seven model animals. Nucleic Acids Res, 2011 Jan;39(Database issue):D1016-22 PubMed Journal
  • Motono C, Nakata J, Koike R, Shimizu K, Shirota M, Amemiya T, Tomii K, Nagano N, Sakaya N, Misoo K, Sato M, Kidera A, Hiroaki H, Shirai T, Kinoshita K, Noguchi T and Ota M. SAHG, a comprehensive database of predicted structures of all human proteins. Nucleic Acids Res, 2011 Jan;39(Database issue):D487-93 PubMed Journal
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