Standley DM - Search Results

1

Blind prediction of interfacial water positions in CAPRI.

Lensink MF, Moal IH, Bates PA, Kastritis PL, Melquiond AS, Karaca E, Schmitz C, van Dijk M, Bonvin AM, Eisenstein M, Jiménez-García B, Grosdidier S, Solernou A, Pérez-Cano L, Pallara C, Fernández-Recio J, Xu J, Muthu P, Praneeth Kilambi K, Gray JJ, Grudinin S, Derevyanko G, Mitchell JC, Wieting J, Kanamori E, Tsuchiya Y, Murakami Y, Sarmiento J, Standley DM, Shirota M, Kinoshita K, Nakamura H, Chavent M, Ritchie DW, Park H, Ko J, Lee H, Seok C, Shen Y, Kozakov D, Vajda S, Kundrotas PJ, Vakser IA, Pierce BG, Hwang H, Vreven T, Weng Z, Buch I, Farkash E, Wolfson HJ, Zacharias M, Qin S, Zhou HX, Huang SY, Zou X, Wojdyla JA, Kleanthous C, Wodak SJ. Lensink MF, et al. Among authors: standley dm. Proteins. 2014 Apr;82(4):620-32. doi: 10.1002/prot.24439. Epub 2013 Nov 23. Proteins. 2014. PMID: 24155158 Free PMC article.

2

Detecting local structural similarity in proteins by maximizing number of equivalent residues.

Standley DM, Toh H, Nakamura H. Standley DM, et al. Proteins. 2004 Nov 1;57(2):381-91. doi: 10.1002/prot.20211. Proteins. 2004. PMID: 15340925

3

GASH: an improved algorithm for maximizing the number of equivalent residues between two protein structures.

Standley DM, Toh H, Nakamura H. Standley DM, et al. BMC Bioinformatics. 2005 Sep 8;6:221. doi: 10.1186/1471-2105-6-221. BMC Bioinformatics. 2005. PMID: 16146579 Free PMC article.

4

Flexible docking of an amyloid-forming peptide from beta(2)-microglobulin.

Standley DM, Yonezawa Y, Goto Y, Nakamura H. Standley DM, et al. FEBS Lett. 2006 Nov 13;580(26):6199-205. doi: 10.1016/j.febslet.2006.10.022. Epub 2006 Oct 18. FEBS Lett. 2006. PMID: 17069810 Free article.

5

ASH structure alignment package: sensitivity and selectivity in domain classification.

Standley DM, Toh H, Nakamura H. Standley DM, et al. BMC Bioinformatics. 2007 Apr 4;8:116. doi: 10.1186/1471-2105-8-116. BMC Bioinformatics. 2007. PMID: 17407606 Free PMC article.

6

Docking of protein molecular surfaces with evolutionary trace analysis.

Kanamori E, Murakami Y, Tsuchiya Y, Standley DM, Nakamura H, Kinoshita K. Kanamori E, et al. Among authors: standley dm. Proteins. 2007 Dec 1;69(4):832-8. doi: 10.1002/prot.21737. Proteins. 2007. PMID: 17803239

7

Functional annotation by sequence-weighted structure alignments: statistical analysis and case studies from the Protein 3000 structural genomics project in Japan.

Standley DM, Toh H, Nakamura H. Standley DM, et al. Proteins. 2008 Sep;72(4):1333-51. doi: 10.1002/prot.22015. Proteins. 2008. PMID: 18384072

8

[From structures to functions: annotation by structural bioinformatics].

Standley DM, Nakamura H. Standley DM, et al. Tanpakushitsu Kakusan Koso. 2008 Apr;53(5):638-44. Tanpakushitsu Kakusan Koso. 2008. PMID: 18409555 Review. Japanese. No abstract available.

9

Protein structure databases with new web services for structural biology and biomedical research.

Standley DM, Kinjo AR, Kinoshita K, Nakamura H. Standley DM, et al. Brief Bioinform. 2008 Jul;9(4):276-85. doi: 10.1093/bib/bbn015. Epub 2008 Apr 22. Brief Bioinform. 2008. PMID: 18430752 Review.

10

EPSVR and EPMeta: prediction of antigenic epitopes using support vector regression and multiple server results.

Liang S, Zheng D, Standley DM, Yao B, Zacharias M, Zhang C. Liang S, et al. Among authors: standley dm. BMC Bioinformatics. 2010 Jul 16;11:381. doi: 10.1186/1471-2105-11-381. BMC Bioinformatics. 2010. PMID: 20637083 Free PMC article.

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