Search results for "protein"

Hits ?▲	Authors	Title	Venue	Year	Link	Author keywords
23	Denise M. Koch, Ann M. English, Gilles H. Peslherbe	Computational Investigation of Protein Chemistry: "S-Nitrosohemoglobin".	HPCS	2008	DBLP DOI BibTeX RDF	large-scale QM/MM calculations, protein chemistry, nitric oxide, Quantum chemistry
23	Wei Li, Yuehui Chen, Yaou Zhao	Multi-layer Ensemble Classifiers on Protein Secondary Structure Prediction.	ICIC (1)	2008	DBLP DOI BibTeX RDF	PSSM, Protein secondary structure prediction, Ensemble classification
23	Igor Berenboym, Mireille Avigal	Genetic algorithms with local search optimization for protein structure prediction problem.	GECCO	2008	DBLP DOI BibTeX RDF	global energy, lattice HP model, pull move, genetic algorithms, local search, protein folding
23	Richard A. Gonçalves, Marco César Goldbarg, Elizabeth Ferreira Gouvea Goldbarg, Myriam Regattieri Delgado	Warping search: a new metaheuristic applied to the protein structure prediction.	GECCO	2008	DBLP DOI BibTeX RDF	warping search, metaheuristics, protein structure prediction
23	Hong-Qiang Wang, Hailong Zhu, Timothy T. C. Yip, William C. S. Cho, Roger K. C. Ngan, Stephen C. K. Law	Exploring Protein Regulations with Regulatory Networks for Cancer Classification.	BMEI (1)	2008	DBLP DOI BibTeX RDF	classification, protein, cancer, regulatory network, biomarker
23	Hong Qin 0003, Li Yang 0001	Detection of Changes in Transitive Associations by Shortest-path Analysis of Protein Interaction Networks Integrated with Gene Expression Profiles.	BMEI (1)	2008	DBLP DOI BibTeX RDF	shortest path, gene expression, protein interaction network
23	Andrew Leaver-Fay, Yuanxin Liu, Jack Snoeyink, Xueyi Wang	Faster placement of hydrogens in protein structures by dynamic programming.	ACM J. Exp. Algorithmics	2007	DBLP DOI BibTeX RDF	hard-sphere model, hydrogen bonds, hydrogen placement, Dynamic programming, treewidth, protein structure
23	Anthony A. Philippakis, Aaron M. Qureshi, Michael F. Berger, Martha L. Bulyk	Design of Compact, Universal DNA Microarrays for Protein Binding Microarray Experiments.	RECOMB	2007	DBLP DOI BibTeX RDF	de Bruijn sequences, protein binding microarrays, linear feedback shift registers, motif, transcription factor
23	Tamjidul Hoque, Madhu Chetty, Laurence S. Dooley	Generalized Schemata Theorem Incorporating Twin Removal for Protein Structure Prediction.	PRIB	2007	DBLP DOI BibTeX RDF	Schemata theorem, twin removal, similarity in population, hard optimization problem, protein structure prediction
23	Chengyun Li, Lin Liu 0001, Jing Yang, Jinbin Li, Yue Zhang, Yunyue Wang, Yong Xie, Youyong Zhu	Polymorphism of Microsatellite Sequence within Protein Kinase ORFs in Phytopathogenic Fungus, Magnaporthe Grisea.	CCTA	2007	DBLP DOI BibTeX RDF	Magnaporthe grisea, protein kinase, microsatellite
23	Rui-Sheng Wang, Shi-Hua Zhang, Xiang-Sun Zhang, Luonan Chen	Identifying Modules in Complex Networks by a Graph-Theoretical Method and Its Application in Protein Interaction Networks.	ICIC (2)	2007	DBLP DOI BibTeX RDF	Minimum spanning tree (MST), complex network, protein interaction network, functional module
23	Sergio Raul Duarte Torres, David Camilo Becerra Romero, Luis Fernando Niño Vasquez, Yoan José Pinzón Ardila	A novel ab-initio genetic-based approach for protein folding prediction.	GECCO	2007	DBLP DOI BibTeX RDF	3D- FCC spatial representation, ab-initio methods, protein folding problem, genetic algorithms
23	Telma Woerle de Lima, Rodrigo Antonio Faccioli, Paulo Henrique Ribeiro Gabriel, Alexandre C. B. Delbem, Ivan Nunes da Silva	Evolutionary approach to protein structure prediction with hydrophobic interactions.	GECCO	2007	DBLP DOI BibTeX RDF	protein tertiary structure, evolutionary algorithms
23	Chung-Tsai Su, Tong-Ming Hsu, Chien-Yu Chen 0001, Yu-Yen Ou, Yen-Jen Oyang	Enhancing Protein Disorder Detection by Refined Secondary Structure Prediction.	BIRD	2007	DBLP DOI BibTeX RDF	protein disorder prediction, Radial Basis Function Network, secondary structure
23	Xiaomei Li	Protein Folding Simulation with New Move Set in 3D Lattice Model.	International Conference on Computational Science (2)	2007	DBLP DOI BibTeX RDF	Protein folding simulation, 3D lattice model, move set
23	Juan Frausto Solís, E. F. Román, David Romero 0003, Xavier Soberon, Ernesto Liñán-García	Analytically Tuned Simulated Annealing Applied to the Protein Folding Problem.	International Conference on Computational Science (2)	2007	DBLP DOI BibTeX RDF	Simulated Annealing, Protein Folding, Peptide
23	Giuseppe Nicosia, Giovanni Stracquadanio	Generalized Pattern Search and Mesh Adaptive Direct Search Algorithms for Protein Structure Prediction.	WABI	2007	DBLP DOI BibTeX RDF	pattern search algorithms, protein folding, non-linear optimization
23	Hatice Gulcin Ozer, William C. Ray	Informative Motifs in Protein Family Alignments.	WABI	2007	DBLP DOI BibTeX RDF	sequence alignment, protein structure, motif, Information content
23	Guoqi Li, Huanye Sheng	Extracting Features from Gene Ontology for the Identification of Protein Subcellular Location by Semantic Similarity Measurement.	PAKDD Workshops	2007	DBLP DOI BibTeX RDF	Protein subcellular location, semantic similarity, Gene Ontology
23	Clayton Matthew Johnson, Anitha Katikireddy	A genetic algorithm with backtracking for protein structure prediction.	GECCO	2006	DBLP DOI BibTeX RDF	genetic algorithms, protein structure prediction, HP model
23	Brian M. Gurbaxani, Parag Mallick	Finding Protein Domain Boundaries: An Automated, Non-Homology-Based Method.	IEEE Intell. Syst.	2005	DBLP DOI BibTeX RDF	amino acid patterns, protein domains, Bayesian algorithm
23	Ildeberto Aparecido Rodello, José Remo Ferreira Brega, Antonio Carlos Sementille, Fátima L. S. Nunes Marques	JVRMol: a low cost java-based distributed virtual environment for protein molecule analysis and visualization.	VRCAI	2004	DBLP DOI BibTeX RDF	protein analysis and visualization, Java, distributed virtual environments
23	Niranjan Nagarajan, Golan Yona	A multi-expert system for the automatic detection of protein domains from sequence information.	RECOMB	2003	DBLP DOI BibTeX RDF	domain boundaries, domain prediction, protein domains, SCOP
23	Alessandro Vullo, Paolo Frasconi	A Bi-Recursive Neural Network Architecture for the Prediction of Protein Coarse Contact Maps.	CSB	2002	DBLP DOI BibTeX RDF	Protein contact maps, machine learning, recursive neural networks
23	Steffen Schulze-Kremer	Genetic Algorithms for Protein Tertiary Structure Prediction.	ECML	1993	DBLP DOI BibTeX RDF	protein tertiary structure, ab initio prediction, genetic algorithm
22	Jacob Kongsted, Ulf Ryde	An improved method to predict the entropy term with the MM/PBSA approach.	J. Comput. Aided Mol. Des.	2009	DBLP DOI BibTeX RDF	MM/PBSA, Avidin, Factor Xa, Cytochrome P450, Entropy
22	Haiyun Lu, Hao Li 0032, Shamima Banu Bte Sm Rashid, Wee Kheng Leow, Yih-Cherng Liou	Knowledge-Guided Docking of WW Domain Proteins and Flexible Ligands.	PRIB	2009	DBLP DOI BibTeX RDF
22	Yongchao Liu, Bertil Schmidt, Douglas L. Maskell	MSA-CUDA: Multiple Sequence Alignment on Graphics Processing Units with CUDA.	ASAP	2009	DBLP DOI BibTeX RDF
22	Pietro di Lena, Piero Fariselli, Luciano Margara, Marco Vassura, Rita Casadio	On the Upper Bound of the Prediction Accuracy of Residue Contacts in Proteins with Correlated Mutations: The Case Study of the Similarity Matrices.	WABI	2009	DBLP DOI BibTeX RDF
22	Ankit Agrawal 0001, Xiaoqiu Huang 0001	DNAlignTT: Pairwise DNA alignment with sequence specific transition-transversion ratio.	EIT	2008	DBLP DOI BibTeX RDF
22	Jason Flannick, Antal F. Novak, Chuong B. Do, Balaji S. Srinivasan, Serafim Batzoglou	Automatic Parameter Learning for Multiple Network Alignment.	RECOMB	2008	DBLP DOI BibTeX RDF
22	Peng Chen 0001, Chunmei Liu, Legand L. Burge III, Mahmood Mohammad, William M. Southerland, Clay Gloster	Prediction of Inter-residue Contact Clusters from Hydrophobic Cores.	ICMLA	2008	DBLP DOI BibTeX RDF
22	Xiangchao Gan, Leonidas Kapsokalivas, Andreas Alexander Albrecht, Kathleen Steinhöfel	A Symmetry-Free Subspace for Ab initioProtein Folding Simulations.	BIRD	2008	DBLP DOI BibTeX RDF
22	Jing Hu 0001, Changhui Yan	Mining sequence features for DNA-binding site prediction.	CIBCB	2008	DBLP DOI BibTeX RDF
22	Harald Servat, Cecilia González-Alvarez, Xavier Aguilar, Daniel Cabrera-Benitez, Daniel Jiménez-González	Drug Design Issues on the Cell BE.	HiPEAC	2008	DBLP DOI BibTeX RDF
22	Guojun Li, Zhijie Liu, Jun-tao Guo, Ying Xu 0001	An Algorithm for Simultaneous Backbone Threading and Side-Chain Packing.	Algorithmica	2007	DBLP DOI BibTeX RDF
22	Amarda Shehu, Cecilia Clementi, Lydia E. Kavraki	Sampling Conformation Space to Model Equilibrium Fluctuations in Proteins.	Algorithmica	2007	DBLP DOI BibTeX RDF
22	A. Keith Dunker, Christopher J. Oldfield, Jingwei Meng, Pedro Romero, Jack Y. Yang, Zoran Obradovic, Vladimir N. Uversky	Intrinsically Disordered Proteins: An Update.	BIBE	2007	DBLP DOI BibTeX RDF
22	Xiaohua Hu 0001	Biomedical Literature Mining.	BIBE	2007	DBLP DOI BibTeX RDF
22	Vladimir N. Uversky, Christopher J. Oldfield, A. Keith Dunker	Intrinsically Disordered Proteins in Human Diseases.	BIBE	2007	DBLP DOI BibTeX RDF
22	Yu-Feng Huang, Yu-Shin Lin, Tian-Wei Hsu, Chien-Kang Huang	Mining Conserved Structures of Enzymes from Functional Hierarchical Classification.	BIBE	2007	DBLP DOI BibTeX RDF
22	Joonghyun Ryu, Rhohun Park, Youngsong Cho, Jeongyeon Seo, Deok-Soo Kim	beta-shape Based Computation of Blending Surfaces on a Molecule.	ISVD	2007	DBLP DOI BibTeX RDF
22	Gregory M. Reck, Iosif I. Vaisman	Decoy Discrimination Using Contact Potentials Based on Delaunay Tessellation of Hydrated Proteins.	ISVD	2007	DBLP DOI BibTeX RDF
22	Kenneth McGarry, Sheila Garfield, Stefan Wermter	Auto-Extraction, Representation and Integration of a Diabetes Ontology Using Bayesian Networks.	CBMS	2007	DBLP DOI BibTeX RDF
22	Ji Won Yoon, Simon J. Godsill, ChulHun Kang, Tae-Seong Kim 0001	Bayesian Inference for 2D Gel Electrophoresis Image Analysis.	BIRD	2007	DBLP DOI BibTeX RDF
22	Zelmina Lubovac, David Corne, Jonas Gamalielsson, Björn Olsson	Weighted Cohesiveness for Identification of Functional Modules and Their Interconnectivity.	BIRD	2007	DBLP DOI BibTeX RDF	SWEMODE, interconnectivity, systems biology, Gene Ontology, functional modules
22	Frank DiMaio, Ameet Soni, George N. Phillips, Jude W. Shavlik	Improved Methods for Template-Matching in Electron-Density Maps Using Spherical Harmonics.	BIBM	2007	DBLP DOI BibTeX RDF
22	Lin Wang 0006, Minghu Jiang, Stefan Wölfl 0002, Yinghua Lu	Negative Localized Relationship Among p70S6 with Smad1, 2, 3 and p38 in Three Treated Human Cancer Cell Lines.	PAKDD Workshops	2007	DBLP DOI BibTeX RDF
22	Pierre-Yves Bourguignon, Vincent Danos, François Képès, Serge Smidtas, Vincent Schächter	Property-Driven Statistics of Biological Networks.	Trans. Comp. Sys. Biology	2006	DBLP DOI BibTeX RDF
22	Zhuo Wang, Xin-Guang Zhu, Yazhu Chen, Yi-Xue Li, Lei Liu	Comparison of Modularization Methods in Application to Different Biological Networks.	VDMB	2006	DBLP DOI BibTeX RDF	Markov clustering (MCL), network, simulated annealing (SA), module
22	Timothy Lee, Rahul Singh, Ten-Yang Yen, Bruce Macher	MS2DB: An Algorithmic Approach to Determine Disulfide Linkage Patterns.	CBMS	2006	DBLP DOI BibTeX RDF
22	Giovanni Ciriello, Matteo Comin, Concettina Guerra	Application re-structuring and data management on a grid environment: a case study for bioinformatics.	IPDPS	2006	DBLP DOI BibTeX RDF
22	Congzhong Cai, Qianfei Yuan, Hanguang Xiao, Xinghua Liu, Lianyi Han, Yu Zong Chen	Prediction of Transmembrane Proteins from Their Primary Sequence by Support Vector Machine Approach.	ICIC (3)	2006	DBLP DOI BibTeX RDF
22	Zhenqiang Tan, Anthony K. H. Tung	Mining Frequent 3D Sequential Patterns.	SSDBM	2006	DBLP DOI BibTeX RDF
22	Nachi Gupta, Adrian K. Agogino, Kagan Tumer	Efficient agent-based models for non-genomic evolution.	AAMAS	2006	DBLP DOI BibTeX RDF	non-genomic evolution, reinforcement learning, multiagent systems
22	Betty Yee Man Cheng, Jaime G. Carbonell, Judith Klein-Seetharaman	A Machine Text-Inspired Machine Learning Approach for Identification of Transmembrane Helix Boundaries.	ISMIS	2005	DBLP DOI BibTeX RDF
22	Robert S. Germain, Blake G. Fitch, Aleksandr Rayshubskiy, Maria Eleftheriou, Michael Pitman, Frank Suits, Mark Giampapa, T. J. Christopher Ward	Blue matter on blue gene/L: massively parallel computation for biomolecular simulation.	CODES+ISSS	2005	DBLP DOI BibTeX RDF
22	Hasan Ogul, Ü. Erkan Mumcuoglu	Discriminative Remote Homology Detection Using Maximal Unique Sequence Matches.	IDA	2005	DBLP DOI BibTeX RDF
22	Kamaljit Kaur	Dynamic effects on Peptide Structure: Molecular dynamics simulations of a peptide employing ensemble of peptides.	ICMENS	2005	DBLP DOI BibTeX RDF
22	Min Song 0001, Il-Yeol Song, Xiaohua Hu 0001, Robert B. Allen	An Automatic Unsupervised Querying Algorithm for Efficient Information Extraction in Biomedical Domain.	PAKDD	2005	DBLP DOI BibTeX RDF
22	Jae-Hong Eom, Byoung-Tak Zhang	BioPubMiner: Machine Learning Component-Based Biomedical Information Analysis Platform.	CIT	2004	DBLP DOI BibTeX RDF
22	Jae-Hong Eom, Byoung-Tak Zhang	PubMiner: Machine Learning-Based Text Mining System for Biomedical Information Mining.	AIMSA	2004	DBLP DOI BibTeX RDF	Bioinformatics and Software Application, Data Mining, Machine Learning, Natural Language Processing
22	Jan A. Spriet	Side-Chain Structure Prediction Based on Dead-End Elimination: Single Split DEE-criterion Implementation and Elimination Power.	WABI	2003	DBLP DOI BibTeX RDF
22	Yonatan Bilu, Michal Linial	On the predictive power of sequence similarity in yeast.	RECOMB	2001	DBLP DOI BibTeX RDF
22	Giuseppe Lancia, Robert D. Carr, Brian Walenz, Sorin Istrail	101 optimal PDB structure alignments: a branch-and-cut algorithm for the maximum contact map overlap problem.	RECOMB	2001	DBLP DOI BibTeX RDF
22	Rolf Backofen, Sebastian Will	Optimally Compact Finite Sphere Packings - Hydrophobic Cores in the FCC.	CPM	2001	DBLP DOI BibTeX RDF
22	Gareth Hannaford, Carsten Maple, Jonathan G. L. Mullins	Finding and Characterising Candidate Binding Sites.	IV	2001	DBLP DOI BibTeX RDF
22	Jason Tsong-Li Wang, Gung-Wei Chirn, Thomas G. Marr, Bruce A. Shapiro, Dennis E. Shasha, Kaizhong Zhang	Combinatorial Pattern Discovery for Scientific Data: Some Preliminary Results.	SIGMOD Conference	1994	DBLP DOI BibTeX RDF
22	Cathy H. Wu, George M. Whitson	Artificial Neural System for Gene Classification Using a Domain Database.	ACM Conference on Computer Science	1990	DBLP DOI BibTeX RDF
22	Gang Fang, Jin Xu, Shemin Zhang	Performing DNA computation with RecA-mediated triple-stranded DNA structure.	Nat. Comput.	2009	DBLP DOI BibTeX RDF	RecA protein, Satisfiability problem (SAT), Triple-stranded DNA structure, DNA computing, NP-complete problems
22	Saket Navlakha, James Robert White, Niranjan Nagarajan, Mihai Pop, Carl Kingsford	Finding Biologically Accurate Clusterings in Hierarchical Tree Decompositions Using the Variation of Information.	RECOMB	2009	DBLP DOI BibTeX RDF	Hierarchical Tree Decompositions, Variation of Information, OTUs, Clustering, Protein Interaction Networks, Metagenomics
22	Rumen Andonov, Nicola Yanev, Noël Malod-Dognin	An Efficient Lagrangian Relaxation for the Contact Map Overlap Problem.	WABI	2008	DBLP DOI BibTeX RDF	Protein structure alignment, contact map overlap, combinatorial optimization, integer programming, branch and bound, Lagrangian relaxation
22	Edward E. Pryor Jr., Jacquelyn S. Fetrow	PDB-SQL: a storage engine for macromolecular data.	ACM Southeast Regional Conference	2007	DBLP DOI BibTeX RDF	macromolecular data, protein data bank (PDB), data management, MySQL, data standardization
22	Jizhen Zhao, Dongsheng Che, Liming Cai	Comparative Pathway Prediction Via Unified Graph Modeling of Genomic Structure Information.	ISBRA	2007	DBLP DOI BibTeX RDF	Pathway prediction, protein-DNA interaction, operon, independent set, clique, tree decomposition
22	Rui-Sheng Wang, Yong Wang 0001, Xiang-Sun Zhang, Luonan Chen	Detecting Community Structure in Complex Networks by Optimal Rearrangement Clustering.	PAKDD Workshops	2007	DBLP DOI BibTeX RDF	optimal rearrangement clustering, Complex networks, community structure, protein interaction network, functional modules
22	Zhong Huang, Yun Li, Xiaohua Hu 0001	Anti-parallel Coiled Coils Structure Prediction by Support Vector Machine Classification.	Trans. Comp. Sys. Biology	2006	DBLP DOI BibTeX RDF	coiled coil, SOCKET algorithm, protein sequence data, SVM
22	Yinglei Song, Chunmei Liu, Xiuzhen Huang, Russell L. Malmberg, Ying Xu, Liming Cai	Efficient Parameterized Algorithms for Biopolymer Structure-Sequence Alignment.	IEEE ACM Trans. Comput. Biol. Bioinform.	2006	DBLP DOI BibTeX RDF	Structure-sequence alignment, RNA structure homology search, dynamic programming, tree decomposition, parameterized algorithm, protein threading
22	Keith Marsolo, Srinivasan Parthasarathy 0001, Kotagiri Ramamohanarao	Structure-based querying of proteins using wavelets.	CIKM	2006	DBLP DOI BibTeX RDF	protein structure similarity, indexing, wavelets
22	Julie Wilson	Automated Classification of Images from Crystallisation Experiments.	ICDM	2006	DBLP DOI BibTeX RDF	protein crystallization, classification, automation, image analysis
22	Bekir Ergüner, Özgün Erdogan, Osman Ugur Sezerman	Prediction and Classification for GPCR Sequences Based on Ligand Specific Features.	ISCIS	2006	DBLP DOI BibTeX RDF	G-Protein Coupled Receptors (GPCRs), ligand specificity, GPCR sequence
22	Man-Wai Mak, Sun-Yuan Kung	A Solution to the Curse of Dimensionality Problem in Pairwise Scoring Techniques.	ICONIP (1)	2006	DBLP DOI BibTeX RDF	Fisher discriminant analysis, protein sequence analysis, support vector machines, Feature selection, curse of dimensionality, subcellular localization
22	Bo Yan, Youxing Qu, Fenglou Mao, Victor Olman, Ying Xu 0001	PRIME: A Mass Spectrum Data Mining Tool for De Nova Sequencing and PTMs Identification.	J. Comput. Sci. Technol.	2005	DBLP DOI BibTeX RDF	de novo sequencing, protein post-translational modifications, tandem mass spectrometry, graph algorithm, proteomics
22	Vincenzo Cutello, Giuseppe Narzisi, Giuseppe Nicosia, Mario Pavone	Clonal Selection Algorithms: A Comparative Case Study Using Effective Mutation Potentials.	ICARIS	2005	DBLP DOI BibTeX RDF	CLONALG, opt-IA, one- counting, trap functions, 2D HP Protein Structure Prediction, pattern recognition, NP-complete problems, numerical optimization, Clonal Selection Algorithms
22	Niranjan P. Bidargaddi, Madhu Chetty, Joarder Kamruzzaman	A Fuzzy Viterbi Algorithm for Improved Sequence Alignment and Searching of Proteins.	EvoWorkshops	2005	DBLP DOI BibTeX RDF	protein sequence alignment, fuzzy HMM, HMM, profiles
22	Matthew Menke, Eben Scanlon, Jonathan King, Bonnie Berger, Lenore Cowen	Wrap-and-pack: a new paradigm for beta structural motif recognition with application to recognizing beta trefoils.	RECOMB	2004	DBLP DOI BibTeX RDF	beta structures, beta trefoils, motif recognition, rotamer libraries, threading, protein structure prediction
22	Vincenzo Cutello, Giuseppe Nicosia, Mario Pavone	Exploring the Capability of Immune Algorithms: A Characterization of Hypermutation Operators.	ICARIS	2004	DBLP DOI BibTeX RDF	hypermutation operators, hypermacromutation operator, trap functions, 2D HP protein structure prediction problem, Clonal selection algorithms, aging operator
22	Saravanan Dayalan, Savitri Bevinakoppa	Dihedral Angle Database Based on Disulfide Bonds.	BIBE	2004	DBLP DOI BibTeX RDF	Dihedral angle database, Disulfide bonds, Protein Structure Prediction
22	Markku Siermala, Martti Juhola, Mauno Vihinen	On Postprocessing of Neural Network Prediction of Polyproline Type II Secondary Structures: Network Spectrum, Response Analysis, and Scattering.	Neural Comput. Appl.	2003	DBLP DOI BibTeX RDF	Analysis of prediction results, Polyproline type II, Postprocessing of neural network results, Neural networks, Protein secondary structures
22	Andreas Heger, Michael Lappe, Liisa Holm	Accurate detection of very sparse sequence motifs.	RECOMB	2003	DBLP DOI BibTeX RDF	protein evolution, algorithm, consistency, sequence alignment
22	Natsuhiko Futamura, Srinivas Aluru, Desh Ranjan, Bhanu Hariharan	Efficient Parallel Algorithms for Solvent Accessible Surface Area of Proteins.	IEEE Trans. Parallel Distributed Syst.	2002	DBLP DOI BibTeX RDF	accessible surface area, parallel algorithm, Monte Carlo, Computational biology, protein folding
22	Shawn Delaney, Gregory Butler, Clement W. H. Lam, Larry H. Thiel	Three Improvements to the BLASTP Search of Genome Databases.	SSDBM	2000	DBLP DOI BibTeX RDF	genome database, BLAST algorithm, sequence alignment, approximate string match, protein sequences
22	Minoru Asogawa, Yukiko Fujiwara, Akihiko Konagaya	A combination of a functional motif model and a structural motif model for a database validation.	HICSS (5)	1995	DBLP DOI BibTeX RDF	functional motif model, structural motif model, database validation, leucine zipper motif, twisted alpha helix sequences, DNA binding site, alpha helix region, Swiss Protein database, helical structures, PDB database, neural network, hidden Markov models, HMM, hidden Markov model, database management systems, neural nets, DNA, genetics, biology computing, subsequence
22	Mohammad Shafkat Amin, Anupam Bhattacharjee, Russell L. Finley Jr., Hasan M. Jamil	A stochastic approach to candidate disease gene subnetwork extraction.	SAC	2010	DBLP DOI BibTeX RDF	disease genes, random walk, protein-protein interaction network
22	Hsiang-Yuan Yeh, Yi-Yu Liu, Cheng-Yu Yeh, Von-Wun Soo	Identifying Prostate Cancer-Related Networks from Microarray Data Based on Genotype-Phenotype Networks Using Markov Blanket Search.	BIBE	2010	DBLP DOI BibTeX RDF	Microarry data, Markov Blanket search, Phenotype networks, Prostate Cancer, Protein-protein interaction networks
22	Lin Yao, Chengjie Sun, Xiaolong Wang 0001, Xuan Wang 0002	Multi-class Relationship Extraction from Biomedical Literature Using Maximum Entropy.	IIH-MSP	2010	DBLP DOI BibTeX RDF	Machine Learning, Protein-protein Interaction, Maximum Entropy Model, Relationship Extraction
22	Phuong Dao, Alexander Schönhuth, Fereydoun Hormozdiari, Iman Hajirasouliha, Süleyman Cenk Sahinalp, Martin Ester	Quantifying Systemic Evolutionary Changes by Color Coding Confidence-Scored PPI Networks.	WABI	2009	DBLP DOI BibTeX RDF	Biomolecular Network Motifs, Evolutionary Systems Biology, Color Coding, Protein-Protein Interaction Networks
22	David E. Shaw, Martin M. Deneroff, Ron O. Dror, Jeffrey Kuskin, Richard H. Larson, John K. Salmon, Cliff Young, Brannon Batson, Kevin J. Bowers, Jack C. Chao, Michael P. Eastwood, Joseph Gagliardo, J. P. Grossman, C. Richard Ho, Doug Ierardi, István Kolossváry, John L. Klepeis, Timothy Layman, Christine McLeavey, Mark A. Moraes, Rolf Mueller, Edward C. Priest, Yibing Shan, Jochen Spengler, Michael Theobald, Brian Towles, Stanley C. Wang	Anton, a special-purpose machine for molecular dynamics simulation.	ISCA	2007	DBLP DOI BibTeX RDF	biomolecular system simulation, computational drug design, special-purpose machine, bioinformatics, computational biology, molecular dynamics, protein folding, protein structure
20	Thanh Hai Dang, Tien Anh Vu	xCAPT5: protein-protein interaction prediction using deep and wide multi-kernel pooling convolutional neural networks with protein language model.	BMC Bioinform.	2024	DBLP DOI BibTeX RDF
20	Lirong Wu, Yijun Tian 0001, Yufei Huang, Siyuan Li, Haitao Lin, Nitesh V. Chawla, Stan Z. Li	MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding.	CoRR	2024	DBLP DOI BibTeX RDF
20	Zeynep Banu Ozger	A robust protein language model for SARS-CoV-2 protein-protein interaction network prediction.	Artif. Intell. Medicine	2023	DBLP DOI BibTeX RDF