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SCISCIESCOPUS

A beta-complex statistical four body contact potential combined with a hydrogen bond statistical potential recognizes the correct native structure from protein decoy sets Go to Link

Sanchez-Gonzalez, Gilberto; Kim, Jae-Kwan; Kim, Deok-Soo; Garduno-Juarez, Ramon

ArticleIssue Date2013CitationPROTEINS : Structure, Function, and Bioinformatics, v.81, no.8, pp 1420 - 1433PublisherWiley-Liss Inc

SCISCIESCOPUS

Anomalies in quasi-triangulations and beta-complexes of spherical atoms in molecules Go to Link

Kim, Deok-Soo; Cho, Youngsong; Ryu, Joonghyun; Kim, Jae-Kwan; Kim, Donguk

ArticleIssue Date2013CitationCAD Computer Aided Design, v.45, no.1, pp 35 - 52PublisherPergamon Press Ltd.

SCISCIESCOPUS

BetaCavityWeb: a webserver for molecular voids and channels Go to Link

Kim, Jae-Kwan; Cho, Youngsong; Lee, Mokwon; Laskowski, Roman A.; Ryu, Seong Eon; Sugihara, Kokichi; Kim, Deok-Soo

ArticleIssue Date2015CitationNucleic Acids Research, v.43, no.W1, pp W413 - W418PublisherOxford University Press

SCISCIESCOPUS

BetaDock: Shape-Priority Docking Method Based on Beta-Complex Go to Link

Kim, Deok-Soo; Kim, Chong-Min; Won, Chung-In; Kim, Jae-Kwan; Ryu, Joonghyun; Cho, Youngsong; Lee, Changhee; Bhak, Jong

ArticleIssue Date2011CitationJournal of Biomolecular Structure and Dynamics, v.29, no.1, pp 219 - 242PublisherAdenine Press

SCIESCOPUS

BetaMol: A Molecular Modeling, Analysis and Visualization Software Based on the Beta-Complex and the Quasi-Triangulation Go to Link

Cho, Youngsong; Kim, Jae-Kwan; Ryu, Joonghyun; Won, Chung-In; Kim, Chong-Min; Kim, Donguk; Kim, Deok-Soo

ArticleIssue Date2012CitationJournal of Advanced Mechanical Design, Systems and Manufacturing, v.6, no.3, pp 389 - 403PublisherJapan Society of Mechanical Engineers

SCOPUS

BetaMol: Molecular modeling, analysis, and visualization software based on the beta-complex derived from the Voronoi diagram Go to Link

Cho, Youngsong; Kim, Jae-Kwan; Won, Chung-In; Ryu, Joonghyun; Kim, Chong-Min; Kim, Deok-Soo

ArticleIssue Date2011CitationProceedings - 2011 8th International Symposium on Voronoi Diagrams in Science and Engineering, ISVD 2011, pp.48 - 57PublisherIEEE

OTHER

BetaNMR: a Beta-complex Approach to Molecular Distance Geometry Problem Go to Link

Seo, Jeongyeon; Kim, Deok Soo; Mucherino, Antonio; Kim, Jae-Kwan; Lavor, Carlile

ArticleIssue Date2013Citation2nd International Conferenceon Computational Biomedicine 2013, pp 1 - 1Publisher2nd International Conferenceon Computational Biomedicine 2013

SCISCIESCOPUS

BetaSuperposer: superposition of protein surfaces using beta-shapes Go to Link

Kim, Jae-Kwan; Kim, Deok-Soo

ArticleIssue Date2012CitationJournal of Biomolecular Structure and Dynamics, v.30, no.6, pp 684 - 700PublisherAdenine Press

SCISCIESCOPUS

BetaVoid: Molecular voids via beta-complexes and Voronoi diagrams Go to Link

Kim, Jae-Kwan; Cho, Youngsong; Laskowski, Roman A.; Ryu, Seong Eon; Sugihara, Kokichi; Kim, Deok-Soo

ArticleIssue Date2014CitationPROTEINS : Structure, Function, and Bioinformatics, v.82, no.9, pp 1829 - 1849PublisherWiley-Liss Inc

SCOPUS

BULL! - The molecular geometry engine based on Voronoi diagram, quasi-triangulation, and beta-complex Go to Link

Kim, Deok-Soo; Cho, Youngsong; Kim, Jae-Kwan; Ryu, Joonghyun; Lee, Mokwon; Cha, Jehyun; Song, Chanyoung

ArticleIssue Date2014CitationLecture Notes in Computer Science, v.8592 LNCS, pp 206 - 213PublisherSpringer Verlag

SCISCIESCOPUS

GalaxyDock2: Protein-Ligand Docking Using Beta-Complex and Global Optimization Go to Link

Shin, Woong-Hee; Kim, Jae-Kwan; Kim, Deok-Soo; Seok, Chaok

ArticleIssue Date2013CitationJournal of Computational Chemistry, v.34, no.30, pp 2647 - 2656PublisherJohn Wiley & Sons Inc.

SCISCIESCOPUS

Highly Stable Au Nanoparticles with Tunable Spacing and Their Potential Application in Surface Plasmon Resonance Biosensors Go to Link

Gao, Shuyan; Koshizaki, Naoto; Tokuhisa, Hideo; Koyama, Emiko; Sasaki, Takeshi; Kim, Jae-Kwan; Ryu, Joonghyun; Kim, Deok-Soo; Shimizu, Yoshiki

ArticleIssue Date2010CitationAdvanced Functional Materials, v.20, no.1, pp 78 - 86PublisherJohn Wiley & Sons Ltd.

SCOPUS

Kim, Donguk; Cho, Youngsong; Kim, Jae-Kwan; Lee, Yuan-Shin; Kim, Deok Soo

ArticleIssue Date2014CitationLecture Notes in Computer Science, v.8580 LNCS, no.PART 2, pp 381 - 393PublisherSpringer Verlag

SCIESCOPUS

Innovative Platform for Transmission Localized Surface Plasmon Transducers and Its Application in Detecting Heavy Metal Pd(II)Go to Link

Gao, Shuyan; Koshizaki, Naoto; Koyama, Emiko; Tokuhisa, Hideo; Sasaki, Takeshi; Kim, Jae-Kwan; Cho, Youngsong; Kim, Deok-Soo; Shimizu, Yoshiki

ArticleIssue Date2009CitationAnalytical Chemistry, v.81, no.18, pp 7703 - 7712PublisherAmerican Chemical Society

SCOPUS

Molecular geometry and BULL!Go to Link

Cho, Youngsong; Kim, Jae-Kwan; Ryu, Joonghyun; Lee, Mokwon; Cha, Jehyun; Song, Chanyoung; Kim, Deok-Soo

ArticleIssue Date2014CitationProceedings - 2014 International Conference on Cyberworlds, CW 2014, pp.261 - 268PublisherInstitute of Electrical and Electronics Engineers Inc.

SCIESCOPUS

Optimal Ligand Descriptor for Pocket Recognition Based on the Beta-Shape Go to Link

Kim, Jae-Kwan; Won, Chung-In; Cha, Jehyun; Lee, Kichun; Kim, Deok-Soo

ArticleIssue Date2015CitationPLoS ONE, v.10, no.4, pp 1 - 29PublisherPublic Library of Science

SCIESCOPUS

Protein-ligand docking based on beta-shape Go to Link

Kim, Chong-Min; Won, Chung-In; Kim, Jae-Kwan; Ryu, Joonghyun; Bhak, Jong; Kim, Deok-Soo

ArticleIssue Date2010CitationLecture Notes in Computer Science, v.6290, pp 123 - 138PublisherSpringer Verlag

SCISCIESCOPUS

QTF: Quasi-triangulation file format Go to Link

Kim, Deok-Soo; Cho, Youngsong; Kim, Jae-Kwan; Ryu, Joonghyun

ArticleIssue Date2012CitationCAD Computer Aided Design, v.44, no.9, pp 835 - 845PublisherPergamon Press Ltd.

SCISCIESCOPUS

Querying simplexes in quasi-triangulation Go to Link

Kim, Deok-Soo; Kim, Jae-Kwan; Cho, Youngsong; Kim, Chong-Min

ArticleIssue Date2012CitationCAD Computer Aided Design, v.44, no.2, pp 85 - 98PublisherPergamon Press Ltd.

SCOPUS

Searching simplexes in quasi-triangulation Go to Link

Kim, Deok-Soo; Kim, Jae-Kwan; Kim, Chong-Min

ArticleIssue Date2010CitationISVD 2010 - 7th International Symposium on Voronoi Diagrams in Science and Engineering, pp.105 - 111PublisherIEEE

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Browsing by Kim, Jae-KwanAuthor

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