IEEE/ACM Transactions on Computational Biology and Bioinformatics, Volume 8 (original) (raw)

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Volume 8, Number 1, January 2011

• 
  Marie-France Sagot:
  EIC Editorial. 1
• 
  Megan Owen, J. Scott Provan:
  A Fast Algorithm for Computing Geodesic Distances in Tree Space. 2-13
• 
  Mohak Shah, Jacques Corbeil:
  A General Framework for Analyzing Data from Two Short Time-Series Microarray Experiments. 14-26
• 
  Sean Mauch, Mark A. Stalzer:
  Efficient Formulations for Exact Stochastic Simulation of Chemical Systems. 27-35
• 
  Dario Gasbarra, Sangita Kulathinal, Matti Pirinen, Mikko J. Sillanpää:
  Estimating Haplotype Frequencies by Combining Data from Large DNA Pools with Database Information. 36-44
• 
  Chandrajit L. Bajaj, Rezaul Alam Chowdhury, Vinay Siddahanavalli:
  F2Dock: Fast Fourier Protein-Protein Docking. 45-58
• 
  Joachim Giard, Patrice Rondao-Alface, Jean-Luc Gala, Benoît Macq:
  Fast Surface-Based Travel Depth Estimation Algorithm for Macromolecule Surface Shape Description. 59-68
• 
  Cinzia Pizzi, Pasi Rastas, Esko Ukkonen:
  Finding Significant Matches of Position Weight Matrices in Linear Time. 69-79
• 
  Razvan Andonie, Levente Fabry-Asztalos, Christopher B. Abdul-Wahid, Sarah Abdul-Wahid, Grant I. Barker, Lukas Magill:
  Fuzzy ARTMAP Prediction of Biological Activities for Potential HIV-1 Protease Inhibitors Using a Small Molecular Data Set. 80-93
• 
  Sushmita Mitra, Ranajit Das, Yoichi Hayashi:
  Genetic Networks and Soft Computing. 94-107
• 
  Wenxue Wang, Bijoy K. Ghosh, Himadri B. Pakrasi:
  Identification and Modeling of Genes with Diurnal Oscillations from Microarray Time Series Data. 108-121
• 
  Linkai Luo, Dengfeng Huang, Ling-Jun Ye, Qifeng Zhou, Guifang Shao, Hong Peng:
  Improving the Computational Efficiency of Recursive Cluster Elimination for Gene Selection. 122-129
• 
  Mehmet Tan, Mohammed Al-Shalalfa, Reda Alhajj, Faruk Polat:
  Influence of Prior Knowledge in Constraint-Based Learning of Gene Regulatory Networks. 130-142
• 
  Liuling Gong, Nidhal Bouaynaya, Dan Schonfeld:
  Information-Theoretic Model of Evolution over Protein Communication Channel. 143-151
• 
  Nathan A. Barker, Chris J. Myers, Hiroyuki Kuwahara:
  Learning Genetic Regulatory Network Connectivity from Time Series Data. 152-165
• 
  Delphine Ropers, Valentina Baldazzi, Hidde de Jong:
  Model Reduction Using Piecewise-Linear Approximations Preserves Dynamic Properties of the Carbon Starvation Response in Escherichia coli. 166-181
• 
  Yufeng Wu:
  New Methods for Inference of Local Tree Topologies with Recombinant SNP Sequences in Populations. 182-193
• 
  Ankit Agrawal, Xiaoqiu Huang:
  Pairwise Statistical Significance of Local Sequence Alignment Using Sequence-Specific and Position-Specific Substitution Matrices. 194-205
• 
  Rogier J. P. van Berlo, Dick de Ridder, Jean-Marc Daran, Pascale A. S. Daran-Lapujade, Bas Teusink, Marcel J. T. Reinders:
  Predicting Metabolic Fluxes Using Gene Expression Differences As Constraints. 206-216
• 
  Leo Lahti, Laura Elo, Tero Aittokallio, Samuel Kaski:
  Probabilistic Analysis of Probe Reliability in Differential Gene Expression Studies with Short Oligonucleotide Arrays. 217-225
• 
  K. C. Dukka Bahadur, Dennis R. Livesay:
  Topology Improves Phylogenetic Motif Functional Site Predictions. 226-233
• 
  Tamjidul Hoque, Madhu Chetty, Andrew Lewis, Abdul Sattar:
  Twin Removal in Genetic Algorithms for Protein Structure Prediction Using Low-Resolution Model. 234-245
• 
  Joaquim F. Pinto da Costa, Hugo Alonso, Luis Roque:
  A Weighted Principal Component Analysis and Its Application to Gene Expression Data. 246-252
• 
  Ping Li, James Lam:
  Disturbance Analysis of Nonlinear Differential Equation Models of Genetic SUM Regulatory Networks. 253-259
• 
  Cheng-Wei Luo, Ming-Chiang Chen, Yi-Ching Chen, Roger W. L. Yang, Hsiao-Fei Liu, Kun-Mao Chao:
  Linear-Time Algorithms for the Multiple Gene Duplication Problems. 260-265
• 
  Kezhi Mao, Wenyin Tang:
  Recursive Mahalanobis Separability Measure for Gene Subset Selection. 266-272
• 
  Vikram Krishnamurthy, Kai Yiu Luk:
  Semi-Markov Models for Brownian Dynamics Permeation in Biological Ion Channels. 273-281

Volume 8, Number 2, March 2011

• 
  Marie-France Sagot:
  EIC Editorial. 289-291
• 
  Fang-Xiang Wu, Jun Huan:
  Guest Editorial: Special Focus on Bioinformatics and Systems Biology. 292-293
• 
  Yanpeng Li, Xiaohua Hu, Hongfei Lin, Zhiahi Yang:
  A Framework for Semisupervised Feature Generation and Its Applications in Biomedical Literature Mining. 294-307
• 
  Jong Cheol Jeong, Xiaotong Lin, Xue-wen Chen:
  On Position-Specific Scoring Matrix for Protein Function Prediction. 308-315
• 
  Sangyoon Oh, Min Su Lee, Byoung-Tak Zhang:
  Ensemble Learning with Active Example Selection for Imbalanced Biomedical Data Classification. 316-325
• 
  Zina M. Ibrahim, Alioune Ngom, Ahmed Y. Tawfik:
  Using Qualitative Probability in Reverse-Engineering Gene Regulatory Networks. 326-334
• 
  Amit Sabnis, Robert W. Harrison:
  A Continuous-Time, Discrete-State Method for Simulating the Dynamics of Biochemical Systems. 335-341
• 
  Douglas W. Raiford, Dan E. Krane, Travis E. Doom, Michael L. Raymer:
  A Genetic Optimization Approach for Isolating Translational Efficiency Bias. 342-352
• 
  Ramesh Ram, Madhu Chetty:
  A Markov-Blanket-Based Model for Gene Regulatory Network Inference. 353-367
• 
  Zengyou He, Can Yang, Weichuan Yu:
  A Partial Set Covering Model for Protein Mixture Identification Using Mass Spectrometry Data. 368-380
• 
  Yonghui Wu, Timothy J. Close, Stefano Lonardi:
  Accurate Construction of Consensus Genetic Maps via Integer Linear Programming. 381-394
• 
  Zafer Aydin, Yucel Altunbasak, Hakan Erdogan:
  Bayesian Models and Algorithms for Protein β-Sheet Prediction. 395-409
• 
  Gabriel Cardona, Mercè Llabrés, Francesc Rosselló, Gabriel Valiente:
  Comparison of Galled Trees. 410-427
• 
  Kwong-Sak Leung, Kin-Hong Lee, Jinfeng Wang, Eddie Y. T. Ng, Henry L. Y. Chan, Stephen Kwok-Wing Tsui, Tony Shu Kam Mok, Pete Chi-Hang Tse, Joseph J. Y. Sung:
  Data Mining on DNA Sequences of Hepatitis B Virus. 428-440
• 
  Tien-ho Lin, Robert F. Murphy, Ziv Bar-Joseph:
  Discriminative Motif Finding for Predicting Protein Subcellular Localization. 441-451
• 
  Saras Saraswathi, Suresh Sundaram, Narasimhan Sundararajan, Michael T. Zimmermann, Marit Nilsen-Hamilton:
  ICGA-PSO-ELM Approach for Accurate Multiclass Cancer Classification Resulting in Reduced Gene Sets in Which Genes Encoding Secreted Proteins Are Highly Represented. 452-463
• 
  Itziar Irigoien, Sergi Vives, Concepción Arenas:
  Microarray Time Course Experiments: Finding Profiles. 464-475
• 
  Qiwen Dong, Shuigeng Zhou:
  Novel Nonlinear Knowledge-Based Mean Force Potentials Based on Machine Learning. 476-486
• 
  Sébastien Loriot, Sushant Sachdeva, Karine Bastard, Chantal Prévost, Frédéric Cazals:
  On the Characterization and Selection of Diverse Conformational Ensembles with Applications to Flexible Docking. 487-498
• 
  Robert Giegerich, Christian Höner zu Siederdissen:
  Semantics and Ambiguity of Stochastic RNA Family Models. 499-516
• 
  Ali Tofigh, Michael T. Hallett, Jens Lagergren:
  Simultaneous Identification of Duplications and Lateral Gene Transfers. 517-535
• 
  Michael D. Lieberman, Sima Taheri, Huimin Guo, Fatemeh Mirrashed, Inbal Yahav, Aleks Aris, Ben Shneiderman:
  Visual Exploration across Biomedical Databases. 536-550
• 
  Glenn Hickey, Mathieu Blanchette, Paz Carmi, Anil Maheshwari, Norbert Zeh:
  An Approximation Algorithm for the Noah's Ark Problem with Random Feature Loss. 551-556
• 
  Juan Cortés, Sophie Barbe, Monique Erard, Thierry Siméon:
  Encoding Molecular Motions in Voxel Maps. 557-563
• 
  Jairo Rocha:
  Graph Comparison by Log-Odds Score Matrices with Application to Protein Topology Analysis. 564-569
• 
  André Fujita, João Ricardo Sato, Marcos Angelo Almeida Demasi, Rui Yamaguchi, Teppei Shimamura, Carlos Eduardo Ferreira, Mari Cleide Sogayar, Satoru Miyano:
  Inferring Contagion in Regulatory Networks. 570-576

Volume 8, Number 3, May 2011

• 
  Alfredo Benso, Stefano Di Carlo, Gianfranco Politano:
  A cDNA Microarray Gene Expression Data Classifier for Clinical Diagnostics Based on Graph Theory. 577-591
• 
  Erdem Yörük, Michael F. Ochs, Donald Geman, Laurent Younes:
  A Comprehensive Statistical Model for Cell Signaling. 592-606
• 
  Jianxin Wang, Min Li, Jianer Chen, Yi Pan:
  A Fast Hierarchical Clustering Algorithm for Functional Modules Discovery in Protein Interaction Networks. 607-620
• 
  Jianxing Feng, Rui Jiang, Tao Jiang:
  A Max-Flow-Based Approach to the Identification of Protein Complexes Using Protein Interaction and Microarray Data. 621-634
• 
  Katharina T. Huber, Leo van Iersel, Steven Kelk, Radoslaw Suchecki:
  A Practical Algorithm for Reconstructing Level-1 Phylogenetic Networks. 635-649
• 
  James T. Murphy, Ray Walshe, Marc Devocelle:
  A Theoretical Analysis of the Prodrug Delivery System for Treating Antibiotic-Resistant Bacteria. 650-658
• 
  Santanu Ghorai, Anirban Mukherjee, Sanghamitra Sengupta, Pranab K. Dutta:
  Cancer Classification from Gene Expression Data by NPPC Ensemble. 659-671
• 
  Gregor Goessler:
  Component-Based Modeling and Reachability Analysis of Genetic Networks. 672-682
• 
  Yoshinori Tamada, Seiya Imoto, Hiromitsu Araki, Masao Nagasaki, Cristin G. Print, Stephen D. Charnock-Jones, Satoru Miyano:
  Estimating Genome-Wide Gene Networks Using Nonparametric Bayesian Network Models on Massively Parallel Computers. 683-697
• 
  Alexander K. Hudek, Daniel Gregory Brown:
  FEAST: Sensitive Local Alignment with Multiple Rates of Evolution. 698-709
• 
  Elizabeth S. Allman, Sonja Petrovic, John A. Rhodes, Seth Sullivant:
  Identifiability of Two-Tree Mixtures for Group-Based Models. 710-722
• 
  Tianwei Yu, Hesen Peng, Wei Sun:
  Incorporating Nonlinear Relationships in Microarray Missing Value Imputation. 723-731
• 
  Bin Song, I. Esra Büyüktahtakin, Sanjay Ranka, Tamer Kahveci:
  Manipulating the Steady State of Metabolic Pathways. 732-747
• 
  Qian Xu, Sinno Jialin Pan, Hannah Hong Xue, Qiang Yang:
  Multitask Learning for Protein Subcellular Location Prediction. 748-759
• 
  Rubén Armañanzas, Yvan Saeys, Iñaki Inza, Miguel García-Torres, Concha Bielza, Yves Van de Peer, Pedro Larrañaga:
  Peakbin Selection in Mass Spectrometry Data Using a Consensus Approach with Estimation of Distribution Algorithms. 760-774
• 
  Antonina Mitrofanova, Vladimir Pavlovic, Bud Mishra:
  Prediction of Protein Functions with Gene Ontology and Interspecies Protein Homology Data. 775-784
• 
  Stephen J. Willson:
  Regular Networks Can be Uniquely Constructed from Their Trees. 785-796
• 
  Tilo Strutz:
  3D Shape Reconstruction of Loop Objects in X-Ray Protein Crystallography. 797-807
• 
  Banu Dost, Chunlei Wu, Andrew I. Su, Vineet Bafna:
  TCLUST: A Fast Method for Clustering Genome-Scale Expression Data. 808-818
• 
  Jayendra Venkateswaran, Bin Song, Tamer Kahveci, Chris Jermaine:
  TRIAL: A Tool for Finding Distant Structural Similarities. 819-831
• 
  Giorgio Valentini:
  True Path Rule Hierarchical Ensembles for Genome-Wide Gene Function Prediction. 832-847
• 
  Mukul S. Bansal, Ron Shamir:
  A Note on the Fixed Parameter Tractability of the Gene-Duplication Problem. 848-850
• 
  Aditya Kumar Sehgal, Sanmay Das, Keith Noto, Milton H. Saier Jr., Charles Elkan:
  Identifying Relevant Data for a Biological Database: Handcrafted Rules versus Machine Learning. 851-857
• 
  Minh Ngoc Nguyen, Jacek M. Zurada, Jagath C. Rajapakse:
  Toward Better Understanding of Protein Secondary Structure: Extracting Prediction Rules. 858-864

Volume 8, Number 4, July 2011

• 
  Mark Borodovsky, Teresa M. Przytycka, Sanguthevar Rajasekaran, Alexander Zelikovsky:
  Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications. 865-866
• 
  Yosi Shibberu, Allen Holder:
  A Spectral Approach to Protein Structure Alignment. 867-875
• 
  Nicola Ferraro, Luigi Palopoli, Simona Panni, Simona E. Rombo:
  Asymmetric Comparison and Querying of Biological Networks. 876-889
• 
  John Wiedenhoeft, Roland Krause, Oliver Eulenstein:
  The Plexus Model for the Inference of Ancestral Multidomain Proteins. 890-901
• 
  Nicholas D. Pattengale, Andre J. Aberer, Krister M. Swenson, Alexandros Stamatakis, Bernard M. E. Moret:
  Uncovering Hidden Phylogenetic Consensus in Large Data Sets. 902-911
• 
  Rob Gysel, Dan Gusfield:
  Extensions and Improvements to the Chordal Graph Approach to the Multistate Perfect Phylogeny Problem. 912-917
• 
  Ming-Chi Tsai, Guy E. Blelloch, R. Ravi, Russell Schwartz:
  A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure. 918-928
• 
  Sanghamitra Bandyopadhyay, Malay Bhattacharyya:
  A Biologically Inspired Measure for Coexpression Analysis. 929-942
• 
  Nuno Tenazinha, Susana Vinga:
  A Survey on Methods for Modeling and Analyzing Integrated Biological Networks. 943-958
• 
  Chao-Wen Huang, Wun-Shiun Lee, Sun-Yuan Hsieh:
  An Improved Heuristic Algorithm for Finding Motif Signals in DNA Sequences. 959-975
• 
  Sebastian Böcker, Birte Kehr, Florian Rasche:
  Determination of Glycan Structure from Tandem Mass Spectra. 976-986
• 
  Samuel S. Y. Wong, Weimin Luo, Keith C. C. Chan:
  EvoMD: An Algorithm for Evolutionary Molecular Design. 987-1003
• 
  Ivan Merelli, Paolo Cozzi, Daniele D'Agostino, Andrea Clematis, Luciano Milanesi:
  Image-Based Surface Matching Algorithm Oriented to Structural Biology. 1004-1016
• 
  Pietro di Lena, Piero Fariselli, Luciano Margara, Marco Vassura, Rita Casadio:
  Is There an Optimal Substitution Matrix for Contact Prediction with Correlated Mutations? 1017-1028
• 
  Katharina T. Huber, Andreas Spillner, Radoslaw Suchecki, Vincent Moulton:
  Metrics on Multilabeled Trees: Interrelationships and Diameter Bounds. 1029-1040
• 
  Xin Zhao, Leo Wang-Kit Cheung:
  Multiclass Kernel-Imbedded Gaussian Processes for Microarray Data Analysis. 1041-1053
• 
  Peng Zhang, Houqiang Li, Honghui Wang, Stephen T. C. Wong, Xiaobo Zhou:
  Peak Tree: A New Tool for Multiscale Hierarchical Representation and Peak Detection of Mass Spectrometry Data. 1054-1066
• 
  Yasser El-Manzalawy, Drena Dobbs, Vasant G. Honavar:
  Predicting MHC-II Binding Affinity Using Multiple Instance Regression. 1067-1079
• 
  Feng Yang, Kezhi Mao:
  Robust Feature Selection for Microarray Data Based on Multicriterion Fusion. 1080-1092
• 
  Peter Tiño, Hongya Zhao, Hong Yan:
  Searching for Coexpressed Genes in Three-Color cDNA Microarray Data Using a Probabilistic Model-Based Hough Transform. 1093-1107
• 
  Li-San Wang, James H. Leebens-Mack, P. Kerr Wall, Kevin Beckmann, Claude W. dePamphilis, Tandy J. Warnow:
  The Impact of Multiple Protein Sequence Alignment on Phylogenetic Estimation. 1108-1119
• 
  Bashir Sadjad, Zsolt Zsoldos:
  Toward a Robust Search Method for the Protein-Drug Docking Problem. 1120-1133
• 
  Yang Chen, Jinglu Hu:
  Accurate Reconstruction for DNA Sequencing by Hybridization Based on a Constructive Heuristic. 1134-1140
• 
  Sylvain Guillemot, Jesper Jansson, Wing-Kin Sung:
  Computing a Smallest Multilabeled Phylogenetic Tree from Rooted Triplets. 1141-1147
• 
  Tim Peters, David W. Bulger, To-ha Loi, Jean Yee Hwa Yang, David Ma:
  Two-Step Cross-Entropy Feature Selection for Microarrays - Power Through Complementarity. 1148-1151

Volume 8, Number 5, September 2011

• 
  Dongxiao Zhu, Lipi R. Acharya, Hui Zhang:
  A Generalized Multivariate Approach to Pattern Discovery from Replicated and Incomplete Genome-Wide Measurements. 1153-1169
• 
  Rui Chang, Robert Shoemaker, Wei Wang:
  A Novel Knowledge-Driven Systems Biology Approach for Phenotype Prediction upon Genetic Intervention. 1170-1182
• 
  Ekhine Irurozki, Borja Calvo, José Antonio Lozano:
  A Preprocessing Procedure for Haplotype Inference by Pure Parsimony. 1183-1195
• 
  Simone Battagliero, Giuseppe D. Puglia, Saverio Vicario, Francesco Rubino, Gaetano Scioscia, Pietro Leo:
  An Efficient Algorithm for Approximating Geodesic Distances in Tree Space. 1196-1207
• 
  David J. John, Jacquelyn S. Fetrow, James L. Norris:
  Continuous Cotemporal Probabilistic Modeling of Systems Biology Networks from Sparse Data. 1208-1222
• 
  Carito Guziolowski, Sylvain Blachon, Tatiana Baumuratova, Gautier Stoll, Ovidiu Radulescu, Anne Siegel:
  Designing Logical Rules to Model the Response of Biomolecular Networks with Complex Interactions: An Application to Cancer Modeling. 1223-1234
• 
  Sitanshu Sekhar Sahu, Ganapati Panda:
  Efficient Localization of Hot Spots in Proteins Using a Novel S-Transform Based Filtering Approach. 1235-1246
• 
  Samuel Coulbourn Flores, Michael A. Sherman, Christopher M. Bruns, Peter K. Eastman, Russ B. Altman:
  Fast Flexible Modeling of RNA Structure Using Internal Coordinates. 1247-1257
• 
  Biing-Feng Wang, Chien-Hsin Lin:
  Improved Algorithms for Finding Gene Teams and Constructing Gene Team Trees. 1258-1272
• 
  Chun-Hou Zheng, Lei Zhang, To-Yee Ng, Simon Chi-Keung Shiu, De-Shuang Huang:
  Metasample-Based Sparse Representation for Tumor Classification. 1273-1282
• 
  Qian Peng, Andrew D. Smith:
  Multiple Sequence Assembly from Reads Alignable to a Common Reference Genome. 1283-1295
• 
  Nadja Betzler, René van Bevern, Michael R. Fellows, Christian Komusiewicz, Rolf Niedermeier:
  Parameterized Algorithmics for Finding Connected Motifs in Biological Networks. 1296-1308
• 
  Jong Kyoung Kim, Seungjin Choi:
  Probabilistic Models for Semisupervised Discriminative Motif Discovery in DNA Sequences. 1309-1317
• 
  Pedro Feijão, João Meidanis:
  SCJ: A Breakpoint-Like Distance that Simplifies Several Rearrangement Problems. 1318-1329
• 
  Marco Mernberger, Gerhard Klebe, Eyke Hüllermeier:
  SEGA: Semiglobal Graph Alignment for Structure-Based Protein Comparison. 1330-1343
• 
  Peter Boyen, Dries Van Dyck, Frank Neven, Roeland C. H. J. van Ham, Aalt D. J. van Dijk:
  SLIDER: A Generic Metaheuristic for the Discovery of Correlated Motifs in Protein-Protein Interaction Networks. 1344-1357
• 
  Harry Buhrman, Peter T. S. van der Gulik, Steven Kelk, Wouter M. Koolen, Leen Stougie:
  Some Mathematical Refinements Concerning Error Minimization in the Genetic Code. 1358-1372
• 
  William W. L. Wong, Forbes J. Burkowski:
  Using Kernel Alignment to Select Features of Molecular Descriptors in a QSAR Study. 1373-1384
• 
  Marco Muselli, Alberto Bertoni, Marco Frasca, Alessandro Beghini, Francesca Ruffino, Giorgio Valentini:
  A Mathematical Model for the Validation of Gene Selection Methods. 1385-1392
• 
  Elena Dubrova, Maxim Teslenko:
  A SAT-Based Algorithm for Finding Attractors in Synchronous Boolean Networks. 1393-1399
• 
  Zhi-Zhong Chen, Lusheng Wang:
  Fast Exact Algorithms for the Closest String and Substring Problems with Application to the Planted (L, d)-Motif Model. 1400-1410
• 
  Simona Grusea:
  On the Distribution of the Number of Cycles in the Breakpoint Graph of a Random Signed Permutation. 1411-1416
• 
  Getachew K. Befekadu, Mahlet G. Tadesse, Tsung-Heng Tsai, Habtom W. Ressom:
  Probabilistic Mixture Regression Models for Alignment of LC-MS Data. 1417-1424
• 
  Paolo Magni, Angela Simeone, Sandra Healy, Antonella Isacchi, Roberta Bosotti:
  Summarizing Probe Intensities of Affymetrix GeneChip 3' Expression Arrays Taking into Account Day-to-Day Variability. 1425-1430
• 
  Ehud Aharoni, Hani Neuvirth, Saharon Rosset:
  The Quality Preserving Database: A Computational Framework for Encouraging Collaboration, Enhancing Power and Controlling False Discovery. 1431-1437

Volume 8, Number 6, November 2011

• 
  Apostolos Axenopoulos, Petros Daras, Georgios E. Papadopoulos, Elias N. Houstis:
  A Shape Descriptor for Fast Complementarity Matching in Molecular Docking. 1441-1457
• 
  Wenqi Zhao, Guoliang Xu, Chandrajit L. Bajaj:
  An Algebraic Spline Model of Molecular Surfaces for Energetic Computations. 1458-1467
• 
  Markus E. Nebel, Anika Scheid:
  Analysis of the Free Energy in a Stochastic RNA Secondary Structure Model. 1468-1482
• 
  Liang Zhao, Limsoon Wong, Jinyan Li:
  Antibody-Specified B-Cell Epitope Prediction in Line with the Principle of Context-Awareness. 1483-1494
• 
  Murat Can Cobanoglu, Yücel Saygin, Osman Ugur Sezerman:
  Classification of GPCRs Using Family Specific Motifs. 1495-1508
• 
  Qi Li, Chandra Kambhamettu:
  Contour Extraction of Drosophila Embryos. 1509-1521
• 
  Jung Hun Oh, Jean Gao:
  Fast Kernel Discriminant Analysis for Classification of Liver Cancer Mass Spectra. 1522-1534
• 
  Qingfeng Chen, Yi-Ping Phoebe Chen:
  Function Annotation for Pseudoknot Using Structure Similarity. 1535-1544
• 
  Georgios Chalkidis, Masao Nagasaki, Satoru Miyano:
  High Performance Hybrid Functional Petri Net Simulations of Biological Pathway Models on CUDA. 1545-1556
• 
  Helong Li, Sam Kwong, Lihua Yang, Daren Huang, Dongping Xiao:
  Hilbert-Huang Transform for Analysis of Heart Rate Variability in Cardiac Health. 1557-1567
• 
  Jinhua Sheng, Hong-Wen Deng, Vince D. Calhoun, Yu-Ping Wang:
  Integrated Analysis of Gene Expression and Copy Number Data on Gene Shaving Using Independent Component Analysis. 1568-1579
• 
  Carla C. M. Chen, Holger Schwender, Jonathan M. Keith, Robin Nunkesser, Kerrie L. Mengersen, Paula E. Macrossan:
  Methods for Identifying SNP Interactions: A Review on Variations of Logic Regression, Random Forest and Bayesian Logistic Regression. 1580-1591
• 
  Chun-Hou Zheng, Lei Zhang, Vincent To-Yee Ng, Simon Chi-Keung Shiu, De-Shuang Huang:
  Molecular Pattern Discovery Based on Penalized Matrix Decomposition. 1592-1603
• 
  Xavier Le Faucheur, Eli Hershkovitz, Rina Tannenbaum, Allen R. Tannenbaum:
  Nonparametric Clustering for Studying RNA Conformations. 1604-1619
• 
  Iván Dotú, Manuel Cebrián, Pascal Van Hentenryck, Peter Clote:
  On Lattice Protein Structure Prediction Revisited. 1620-1632
• 
  Hong-Dong Li, Yi-Zeng Liang, Qing-Song Xu, Dong-Sheng Cao, Bin-Bin Tan, Bai-Chuan Deng, Chen-Chen Lin:
  Recipe for Uncovering Predictive Genes Using Support Vector Machines Based on Model Population Analysis. 1633-1641
• 
  Christoph Hafemeister, Roland Krause, Alexander Schliep:
  Selecting Oligonucleotide Probes for Whole-Genome Tiling Arrays with a Cross-Hybridization Potential. 1642-1652
• 
  Thomas Fober, Serghei Glinca, Gerhard Klebe, Eyke Hüllermeier:
  Superposition and Alignment of Labeled Point Clouds. 1653-1666
• 
  Tamir Tuller, Elchanan Mossel:
  Co-evolution Is Incompatible with the Markov Assumption in Phylogenetics. 1667-1670
• 
  Bing-Yu Sun, Zhi-Hua Zhu, Jiuyong Li, Bin Linghu:
  Combined Feature Selection and Cancer Prognosis Using Support Vector Machine Regression. 1671-1677
• 
  Weiguo Liu, Bertil Schmidt, Wolfgang Müller-Wittig:
  CUDA-BLASTP: Accelerating BLASTP on CUDA-Enabled Graphics Hardware. 1678-1684
• 
  Louxin Zhang:
  From Gene Trees to Species Trees II: Species Tree Inference by Minimizing Deep Coalescence Events. 1685-1691
• 
  Michael R. Fellows, Tzvika Hartman, Danny Hermelin, Gad M. Landau, Frances A. Rosamond, Liat Rozenberg:
  Haplotype Inference Constrained by Plausible Haplotype Data. 1692-1699
• 
  Jérôme Ambroise, Joachim Giard, Jean-Luc Gala, Benoît Macq:
  Identification of Relevant Properties for Epitopes Detection Using a Regression Model. 1700-1707
• 
  Qingguo Wang, Yi Shang, Dong Xu:
  Improving a Consensus Approach for Protein Structure Selection by Removing Redundancy. 1708-1715
• 
  Aleksandar Poleksic:
  Optimizing a Widely Used Protein Structure Alignment Measure in Expected Polynomial Time. 1716-1720
• 
  Thiago de Souza Rodrigues, Fernanda Caldas Cardoso, Santuza Maria Ribeiro Teixeira, Sergio Costa Oliveira, Antônio de Pádua Braga:
  Protein Classification with Extended-Sequence Coding by Sliding Window. 1721-1726

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Privacy notice: By enabling the option above, your browser will contact the API of unpaywall.org to load hyperlinks to open access articles. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Unpaywall privacy policy.

Archived links via Wayback Machine

For web page which are no longer available, try to retrieve content from the of the Internet Archive (if available).

load content from archive.org

Privacy notice: By enabling the option above, your browser will contact the API of archive.org to check for archived content of web pages that are no longer available. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Internet Archive privacy policy.

Reference lists

Add a list of references from , , and to record detail pages.

load references from crossref.org and opencitations.net

Privacy notice: By enabling the option above, your browser will contact the APIs of crossref.org, opencitations.net, and semanticscholar.org to load article reference information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the Crossref privacy policy and the OpenCitations privacy policy, as well as the AI2 Privacy Policy covering Semantic Scholar.

Citation data

Add a list of citing articles from and to record detail pages.

load citations from opencitations.net

Privacy notice: By enabling the option above, your browser will contact the API of opencitations.net and semanticscholar.org to load citation information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the OpenCitations privacy policy as well as the AI2 Privacy Policy covering Semantic Scholar.

OpenAlex data

Load additional information about publications from .

load data from openalex.org

Privacy notice: By enabling the option above, your browser will contact the API of openalex.org to load additional information. Although we do not have any reason to believe that your call will be tracked, we do not have any control over how the remote server uses your data. So please proceed with care and consider checking the information given by OpenAlex.

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since 2018, dblp has been operated and maintained by: