Search results for "protein structures"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
2	Georgina Mirceva, Danco Davcev	HMM Approach for Classifying Protein Structures.	FGIT	2009	DBLP DOI BibTeX RDF	Hidden Markov Model, Protein classification, SCOP
2	Alexander Kister	Relationship between Amino Acids Sequences and Protein Structures: Folding Patterns and Sequence Patterns.	ISBRA	2009	DBLP DOI BibTeX RDF	Beta-sandwich proteins, supersecondary structure, protein structure classification, sequence alignment, protein folding, protein structure prediction
2	Di Wu, Zhijun Wu, Yaxiang Yuan	Rigid versus unique determination of protein structures with geometric buildup.	Optimization Letters	2008	DBLP DOI BibTeX RDF	Biomolecular modeling, Protein structure determination, Linear and nonlinear systems of equations, Linear and nonlinear optimization, Graph embedding, Distance geometry
2	Natalja Kurbatova, Juris Viksna	Exploration of Evolutionary Relations between Protein Structures.	BIRD	2008	DBLP DOI BibTeX RDF
2	Janez Konc, Dusanka Janezic	A Branch and Bound Algorithm for Matching Protein Structures.	ICANNGA	2007	DBLP DOI BibTeX RDF
2	Hetunandan Kamisetty, Eric P. Xing, Christopher James Langmead	Free Energy Estimates of All-Atom Protein Structures Using Generalized Belief Propagation.	RECOMB	2007	DBLP DOI BibTeX RDF	Decoy Detection, Protein Structure, Probabilistic Graphical Models, Free Energy
2	Alejandro Balbín, Eugenio Andrade	Designing a Methodology to Estimate Complexity of Protein Structures.	ECAL	2007	DBLP DOI BibTeX RDF
2	Qishen Li, Jian Shu, Zhaojun Shi, Dandan Zhang	A General Solution for the Optimal Superimposition of Protein Structures.	ICIC	2006	DBLP DOI BibTeX RDF
2	Yong Wang, Ling-Yun Wu, Xiang-Sun Zhang, Luonan Chen	Automatic Classification of Protein Structures Based on Convex Hull Representation by Integrated Neural Network.	TAMC	2006	DBLP DOI BibTeX RDF
2	Jiyuan An, Yi-Ping Phoebe Chen	A Similarity Search Algorithm to Predict Protein Structures.	KES	2006	DBLP DOI BibTeX RDF
2	Feng Gao, Mohammed Javeed Zaki	PSIST: Indexing Protein Structures Using Suffix Trees.	CSB	2005	DBLP DOI BibTeX RDF
2	Evgeny B. Krissinel, Kim Henrick	Multiple Alignment of Protein Structures in Three Dimensions.	CompLife	2005	DBLP DOI BibTeX RDF
2	Maxim Shatsky, Alexandra Shulman-Peleg, Ruth Nussinov, Haim J. Wolfson	Recognition of Binding Patterns Common to a Set of Protein Structures.	RECOMB	2005	DBLP DOI BibTeX RDF
2	Jaspreet Singh Sodhi, Liam J. McGuffin, Kevin Bryson, Jonathan J. Ward, Lorenz Wernisch, David T. Jones	Automatic Prediction of Functional Site Regions in Low-Resolution Protein Structures.	CSB	2004	DBLP DOI BibTeX RDF
2	Chenyang Cui, Donghui Wang, Jiaoying Shi	Comparing 3D Protein Structures Similarity by Using Fractal Features.	CSB	2004	DBLP DOI BibTeX RDF
2	In-Yee Lee, Ta-tsen Soong, Jan-Ming Ho, Ming-Jing Hwang	Derivation and Analysis of Fragment Libraries of Protein Structures.	BIBE	2004	DBLP DOI BibTeX RDF
2	Sudha Ram, Wei Wei	Modeling the Semantics of 3D Protein Structures.	ER	2004	DBLP DOI BibTeX RDF
2	Leonid Meyerguz, David Kempe, Jon M. Kleinberg, Ron Elber	The evolutionary capacity of protein structures.	RECOMB	2004	DBLP DOI BibTeX RDF	evolutionary networks, rapidly mixing Markov chains, protein structure, approximate counting
2	Mariusz Milik, Sándor Szalma, Krzysztof A. Olszewski	FAUST: An Algorithm for Extracting Functionally Relevant Templates from Protein Structures.	WABI	2002	DBLP DOI BibTeX RDF
2	Brendan Mumey, Brian W. Bailey, Edward A. Dratz	Revealing protein structures: a new method for mapping antibody epitopes.	RECOMB	2002	DBLP DOI BibTeX RDF
2	Tatsuya Akutsu, Kentaro Onizuka, Masato Ishikawa	New hashing techniques and their application to a protein structure database system.	HICSS	1995	DBLP DOI BibTeX RDF	protein structure database system, hash vector, fixed length fragment, three dimensional protein structure, true hash vectors, root mean square deviation, PDB data, PROTEIX, database management systems, database management system, file organisation, biology computing, proteins, protein structures, structural similarity, molecular configurations, molecular biophysics, hashing techniques
1	Chi-Ho Ngan, David R. Hall, Brandon Zerbe, Laurie E. Grove, Dima Kozakov, Sandor Vajda	FTSite: high accuracy detection of ligand binding sites on unbound protein structures.	Bioinformatics	2012	DBLP DOI BibTeX RDF
1	Yingjie Lin, Seungyeul Yoo, Roberto Sanchez	SiteComp: a server for ligand binding site analysis in protein structures.	Bioinformatics	2012	DBLP DOI BibTeX RDF
1	Tim Harder, Mikael Borg, Wouter Boomsma, Peter Røgen, Thomas Hamelryck	Fast large-scale clustering of protein structures using Gauss integrals.	Bioinformatics	2012	DBLP DOI BibTeX RDF
1	Andrew J. Heim, Zhijun Li	Developing a high-quality scoring function for membrane protein structures based on specific inter-residue interactions.	Journal of Computer-Aided Molecular Design	2012	DBLP DOI BibTeX RDF
1	Zheng Zhang, Cheng Xing, Lushan Wang, Bin Gong, Hui Liu	IndelFR: a database of indels in protein structures and their flanking regions.	Nucleic Acids Research	2012	DBLP DOI BibTeX RDF
1	Gualberto Asencio Cortés, Jesús S. Aguilar-Ruiz, Alfonso E. Márquez Chamorro, Roberto Ruiz, Cosme Ernesto Santiesteban Toca	Prediction of Mitochondrial Matrix Protein Structures Based on Feature Selection and Fragment Assembly.	EvoBIO	2012	DBLP DOI BibTeX RDF
1	Pawel Daniluk, Bogdan Lesyng	A novel method to compare protein structures using local descriptors.	BMC Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Donata K. Kirchner, Peter Güntert	Objective identification of residue ranges for the superposition of protein structures.	BMC Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Morihiro Hayashida, Tatsuya Akutsu	Measuring the Similarity of Protein Structures Using Image Compression Algorithms.	IEICE Transactions	2011	DBLP BibTeX RDF
1	Arun Siddharth Konagurthu, Lloyd Allison, Peter J. Stuckey, Arthur M. Lesk	Piecewise linear approximation of protein structures using the principle of minimum message length.	Bioinformatics [ISMB/ECCB]	2011	DBLP DOI BibTeX RDF
1	Haim Ashkenazy, Ron Unger, Yossef Kliger	Hidden conformations in protein structures.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Jean-Christophe Gelly, Alexandre G. de Brevern	Protein Peeling 3D: new tools for analyzing protein structures.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Sheng Wang, Jian Peng, Jinbo Xu	Alignment of distantly related protein structures: algorithm, bound and implications to homology modeling.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Alberto J. M. Martin, Michele Vidotto, Filippo Boscariol, Tomàs Di Domenico, Ian Walsh, Silvio C. E. Tosatto	RING: networking interacting residues, evolutionary information and energetics in protein structures.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	David Fournier, Miguel A. Andrade-Navarro	PDBpaint, a visualization webservice to tag protein structures with sequence annotations.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Ilona Kifer, Ruth Nussinov, Haim J. Wolfson	GOSSIP: a method for fast and accurate global alignment of protein structures.	Bioinformatics	2011	DBLP DOI BibTeX RDF
1	Aleksandar Poleksic	Optimal Pairwise Alignment of Fixed protein Structures in Subquadratic Time.	J. Bioinformatics and Computational Biology	2011	DBLP DOI BibTeX RDF
1	Jae In Kim, Sungsoo Na, Kilho Eom	Domain decomposition-based structural condensation of large protein structures for understanding their conformational dynamics.	Journal of Computational Chemistry	2011	DBLP DOI BibTeX RDF
1	Elina Tjioe, Keren Lasker, Ben M. Webb, Haim J. Wolfson, Andrej Sali	MultiFit: a web server for fitting multiple protein structures into their electron microscopy density map.	Nucleic Acids Research	2011	DBLP DOI BibTeX RDF
1	Luca Parca, Iolanda Mangone, Pier Federico Gherardini, Gabriele Ausiello, Manuela Helmer-Citterich	Phosfinder: a web server for the identification of phosphate-binding sites on protein structures.	Nucleic Acids Research	2011	DBLP DOI BibTeX RDF
1	Matthew D. Shortridge, Thomas Triplet, Peter Z. Revesz, Mark A. Griep, Robert Powers	Bacterial protein structures reveal phylum dependent divergence.	Computational Biology and Chemistry	2011	DBLP DOI BibTeX RDF
1	Narayanaswamy Srinivasan, G. Agarwal, R. M. Bhaskara, R. Gadkari, Oruganty Krishnadev, B. Lakshmi, S. Mahajan, S. Mohanty, R. Mudgal, R. Rakshambikai, S. Sandhya, G. Sudha, L. S. Swapna, N. Tyagi	Influence of Genomic and Other Biological Data Sets in the Understanding of Protein Structures, Functions and Interactions.	IJKDB	2011	DBLP BibTeX RDF
1	Christiane Regina Soares Brasil, Alexandre Cláudio Botazzo Delbem, Daniel Rodrigo Ferraz Bonetti	Investigating relevant aspects of MOEAs for protein structures prediction.	GECCO	2011	DBLP DOI BibTeX RDF
1	Swetha Billa, Mark A. Griep, Peter Z. Revesz	Approximate Search on Protein Structures for Identification of Horizontal Gene Transfer in Bacteria.	SARA	2011	DBLP BibTeX RDF
1	Alfonso E. Márquez Chamorro, Federico Divina, Jesús S. Aguilar-Ruiz	Evolutionary computation for the prediction of secondary protein structures.	SAC	2011	DBLP DOI BibTeX RDF
1	Md. Kamrul Islam, Madhu Chetty, Manzur Murshed	Conflict Resolution Based Global Search Operators for Long Protein Structures Prediction.	ICONIP	2011	DBLP DOI BibTeX RDF
1	Timothy Matthew Fawcett, Stephanie Jimenez Irausquin, Mikhail Simin, Homayoun Valafar	An Artificial Neural Network Based Approach for Identification of Native Protein Structures Using an Extended Forcefield.	BIBM	2011	DBLP DOI BibTeX RDF
1	Haiying Wang, Huiru Zheng	Correlation of genomics features with the date and party hub distinction: A view from three dimensional protein structures.	BIBM Workshops	2011	DBLP DOI BibTeX RDF
1	Yi-Ruen Lin, Hsin-Yuan Wei, Tsung-Lin Tsai, Thy-Hou Lin	HDAPD: a web tool for searching the disease-associated protein structures.	BMC Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Changhoon Kim, Jodi Basner, Byungkook Lee	Detecting internally symmetric protein structures.	BMC Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Pandurangan Sundaramurthy, Khader Shameer, Raashi Sreenivasan, Sunita Gakkhar, Ramanathan Sowdhamini	HORI: a web server to compute Higher Order Residue Interactions in protein structures.	BMC Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Martin Mechelke, Michael Habeck	Robust probabilistic superposition and comparison of protein structures.	BMC Bioinformatics	2010	DBLP DOI BibTeX RDF
1	Pilar Cossio, Antonio Trovato, Fabio Pietrucci, Flavio Seno, Amos Maritan, Alessandro Laio	Exploring the Universe of Protein Structures beyond the Protein Data Bank.	PLoS Computational Biology	2010	DBLP DOI BibTeX RDF
1	Fred P. Davis, Andrej Sali	The Overlap of Small Molecule and Protein Binding Sites within Families of Protein Structures.	PLoS Computational Biology	2010	DBLP DOI BibTeX RDF
1	Michail Yu. Lobanov, Eugenia Furletova, Natalya S. Bogatyreva, Mikhail A. Roytberg, Oxana V. Galzitskaya	Library of Disordered Patterns in 3D Protein Structures.	PLoS Computational Biology	2010	DBLP DOI BibTeX RDF
1	Martin Mann, Alessandro Dal Palù	Lattice model refinement of protein structures	CoRR	2010	DBLP BibTeX RDF
1	Sasakthi S. Abeysinghe, Matthew L. Baker, Wah Chiu, Tao Ju	Semi-isometric Registration of Line Features for Flexible Fitting of Protein Structures.	Comput. Graph. Forum	2010	DBLP DOI BibTeX RDF
1	Tetsuo Shibuya	Fast Hinge Detection Algorithms for Flexible Protein Structures.	IEEE/ACM Trans. Comput. Biology Bioinform.	2010	DBLP DOI BibTeX RDF
1	Shandar Ahmad, Ozlem Keskin, Kenji Mizuguchi, Akinori Sarai, Ruth Nussinov	CCRXP: exploring clusters of conserved residues in protein structures.	Nucleic Acids Research	2010	DBLP DOI BibTeX RDF
1	Michail Yu. Lobanov, Benjamin A. Shoemaker, Sergiy O. Garbuzynskiy, Jessica H. Fong, Anna R. Panchenko, Oxana V. Galzitskaya	ComSin: database of protein structures in bound (complex) and unbound (single) states in relation to their intrinsic disorder.	Nucleic Acids Research	2010	DBLP DOI BibTeX RDF
1	Adeel Malik, Ahmad Firoz, Vivekanand Jha, Shandar Ahmad	PROCARB: A Database of Known and Modelled Carbohydrate-Binding Protein Structures with Sequence-Based Prediction Tools.	Adv. Bioinformatics	2010	DBLP DOI BibTeX RDF
1	S. Balaji, V. Swaminathan, K. Kannan	A Simple Algorithm for Maximum Clique and Matching Protein Structures.	IJCOPI	2010	DBLP BibTeX RDF
1	R. Sabarinathan, Raunak Basu, Krishna Sekar	ProSTRIP: A method to find similar structural repeats in three-dimensional protein structures.	Computational Biology and Chemistry	2010	DBLP DOI BibTeX RDF
1	Do Phuc, Nguyen Thi Kim Phung	Visualization of the Similar Protein Structures Using SOM Neural Network and Graph Spectra.	ACIIDS	2010	DBLP DOI BibTeX RDF
1	Glennie Helles	Improving Search for Low Energy Protein Structures with an Iterative Niche Genetic Algorithm.	BIOINFORMATICS	2010	DBLP BibTeX RDF
1	Thomas Fober, Eyke Hüllermeier	Similarity measures for protein structures based on fuzzy histogram comparison.	FUZZ-IEEE	2010	DBLP DOI BibTeX RDF
1	Carsten Henneges, Christoph Behle, Andreas Zell	Practical Graph Isomorphism for Graphlet Data Mining in Protein Structures.	IJCCI (Selected Papers)	2010	DBLP DOI BibTeX RDF
1	Bin Liu 0014, Xiaolong Wang, Lei Lin, Buzhou Tang, Qiwen Dong, Xuan Wang	Prediction of protein binding sites in protein structures using hidden Markov support vector machine.	BMC Bioinformatics	2009	DBLP DOI BibTeX RDF
1	Ali Karci, Murat Demir	Estimation of protein structures by classification of angles between alpha-carbons of amino acids based on artificial neural networks.	Expert Syst. Appl.	2009	DBLP DOI BibTeX RDF
1	Dario Ghersi, Roberto Sanchez	EASYMIFS and SITEHOUND: a toolkit for the identification of ligand-binding sites in protein structures.	Bioinformatics	2009	DBLP DOI BibTeX RDF
1	R. Matthew Ward, Eric Venner, Bryce Daines, Stephen Murray, Serkan Erdin, David M. Kristensen, Olivier Lichtarge	Evolutionary Trace Annotation Server: automated enzyme function prediction in protein structures using 3D templates.	Bioinformatics	2009	DBLP DOI BibTeX RDF
1	Alberto Pascual-García, David Abia, Angel R. Ortiz, Ugo Bastolla	Cross-Over between Discrete and Continuous Protein Structure Space: Insights into Automatic Classification and Networks of Protein Structures.	PLoS Computational Biology	2009	DBLP DOI BibTeX RDF
1	Bosco K. Ho, David A. Agard	Probing the Flexibility of Large Conformational Changes in Protein Structures through Local Perturbations.	PLoS Computational Biology	2009	DBLP DOI BibTeX RDF
1	Zaixin Lu, Zhiyu Zhao, Sergio Garcia, Krishnakumar Krishnaswamy, Bin Fu	Search Similar protein Structures with Classification, Sequence and 3D alignments.	J. Bioinformatics and Computational Biology	2009	DBLP DOI BibTeX RDF
1	Jun Gao, Zhijun Li	Conserved network properties of helical membrane protein structures and its implication for improving membrane protein homology modeling at the twilight zone.	Journal of Computer-Aided Molecular Design	2009	DBLP DOI BibTeX RDF
1	Kristian Rother, Peter Werner Hildebrand, Andrean Goede, Bjoern Gruening, Robert Preissner	Voronoia: analyzing packing in protein structures.	Nucleic Acids Research	2009	DBLP DOI BibTeX RDF
1	Marylens Hernandez, Dario Ghersi, Roberto Sanchez	SITEHOUND-web: a server for ligand binding site identification in protein structures.	Nucleic Acids Research	2009	DBLP DOI BibTeX RDF
1	Ofir Goldenberg, Elana Erez, Guy Nimrod, Nir Ben-Tal	The ConSurf-DB: pre-calculated evolutionary conservation profiles of protein structures.	Nucleic Acids Research	2009	DBLP DOI BibTeX RDF
1	Shuoyong Shi, Bhadrachalam Chitturi, Nick V. Grishin	ProSMoS server: a pattern-based search using interaction matrix representation of protein structures.	Nucleic Acids Research	2009	DBLP DOI BibTeX RDF
1	Satoshi Fukuchi, Keiichi Homma, Shigetaka Sakamoto, Hideaki Sugawara, Yoshio Tateno, Takashi Gojobori, Ken Nishikawa	The GTOP database in 2009: updated content and novel features to expand and deepen insights into protein structures and functions.	Nucleic Acids Research	2009	DBLP DOI BibTeX RDF
1	Pietro di Lena, Marco Vassura, Luciano Margara, Piero Fariselli, Rita Casadio	On the Reconstruction of Three-dimensional Protein Structures from Contact Maps.	Algorithms	2009	DBLP DOI BibTeX RDF
1	Paul Shealy, Homayoun Valafar	An Investigation in Aligning Multiple Protein Structures Using Biochemical and Biophysical Properties.	BIOCOMP	2009	DBLP BibTeX RDF
1	Inken Wohlers, Lars Petzold, Francisco S. Domingues, Gunnar W. Klau	Aligning Protein Structures Using Distance Matrices and Combinatorial Optimization.	GCB	2009	DBLP BibTeX RDF
1	Rafael Ördög, Vince Grolmusz	On the Bond Graphs in the Delaunay-Tetrahedra of the Simplicial Decomposition of Spatial Protein Structures.	IWANN	2009	DBLP DOI BibTeX RDF
1	Richard Easty, Nikolay Nikolov	Mashing up life science literature resources.	JCDL	2009	DBLP DOI BibTeX RDF	browser plugin, life science literature, data integration
1	Tammy M. K. Cheng, Yu-En Lu, Pietro Liò	Identification of structurally important amino acids in proteins by graph-theoretic measures.	KDD Workshop on Statistical and Relational Learning in Bioinformatics	2009	DBLP DOI BibTeX RDF	protein stability, graph theory, computational biology, vertex cover, protein structure
1	Hari Krishna Yalamanchili, Nita Parekh	Graph Spectral Approach for Identifying Protein Domains.	BICoB	2009	DBLP DOI BibTeX RDF	Domain prediction, Protein contact networks, Graph spectral analysis
1	Brijnesh J. Jain, Klaus Obermayer	Algorithms for the Sample Mean of Graphs.	CAIP	2009	DBLP DOI BibTeX RDF
1	Georgina Mirceva, Andrea Kulakov, Danco Davcev	SGNG Protein Classifier by Matching 3D Structures.	HAIS	2009	DBLP DOI BibTeX RDF
1	Viviane Palodeto, Hernán Terenzi, Jefferson Luiz Brum Marques	Training Neural Networks for Protein Secondary Structure Prediction: The Effects of Imbalanced Data Set.	ICIC	2009	DBLP DOI BibTeX RDF	Artificial neural network training, Imbalanced data, Protein secondary structure prediction
1	Tetsuo Shibuya	Searching Protein 3-D Structures in Linear Time.	RECOMB	2009	DBLP DOI BibTeX RDF
1	Dariusz Mrozek, Bozena Malysiak-Mrozek, Stanislaw Kozielski	Protein Comparison by the Alignment of Fuzzy Energy Signatures.	RSKT	2009	DBLP DOI BibTeX RDF
1	Nan Du, Bin Wu, Liutong Xu, Bai Wang, Pei Xin	Parallel Algorithm for Enumerating Maximal Cliques in Complex Network.	Mining Complex Data	2009	DBLP DOI BibTeX RDF
1	Kalidas Yeturu, Nagasuma Chandra	PocketMatch: A new algorithm to compare binding sites in protein structures.	BMC Bioinformatics	2008	DBLP DOI BibTeX RDF
1	Roberto Mosca, Barbara Brannetti, Thomas R. Schneider	Alignment of protein structures in the presence of domain motions.	BMC Bioinformatics	2008	DBLP DOI BibTeX RDF
1	Rafael Ördög, Zoltan Szabadka, Vince Grolmusz	Analyzing the simplicial decomposition of spatial protein structures.	BMC Bioinformatics	2008	DBLP DOI BibTeX RDF
1	Gabriele Ausiello, Pier Federico Gherardini, Paolo Marcatili, Anna Tramontano, Allegra Via, Manuela Helmer-Citterich	FunClust: a web server for the identification of structural motifs in a set of non-homologous protein structures.	BMC Bioinformatics	2008	DBLP DOI BibTeX RDF
1	Laurence Leherte, Daniel P. Vercauteren	Collective motions in protein structures: Applications of elastic network models built from electron density distributions.	Computer Physics Communications	2008	DBLP DOI BibTeX RDF
1	Mallika Veeramalai, David Gilbert	A novel method for comparing topological models of protein structures enhanced with ligand information.	Bioinformatics	2008	DBLP DOI BibTeX RDF