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ORCIDPRIB 2010: Nijmegen, The Netherlands
- Tjeerd Dijkstra, Evgeni Tsivtsivadze, Elena Marchiori, Tom Heskes:
Pattern Recognition in Bioinformatics - 5th IAPR International Conference, PRIB 2010, Nijmegen, The Netherlands, September 22-24, 2010. Proceedings. Lecture Notes in Computer Science 6282, Springer 2010, ISBN 978-3-642-16000-4
Classification of Biological Sequences
- Bastiaan A. van den Berg, Jurgen F. Nijkamp, Marcel J. T. Reinders, Liang Wu, Herman J. Pel, Johannes A. Roubos, Dick de Ridder:
Sequence-Based Prediction of Protein Secretion Success in Aspergillus niger. 3-14 - Gennady G. Fedonin
, Mikhail S. Gelfand:
Machine Learning Study of DNA Binding by Transcription Factors from the LacI Family. 15-26 - Jennifer Smith:
Joint Loop End Modeling Improves Covariance Model Based Non-coding RNA Gene Search. 27-37 - Hongyu Su, Markus Heinonen, Juho Rousu:
Structured Output Prediction of Anti-cancer Drug Activity. 38-49 - Norman E. Davey, Niall J. Haslam, Denis C. Shields, Richard J. Edwards:
SLiMSearch: A Webserver for Finding Novel Occurrences of Short Linear Motifs in Proteins, Incorporating Sequence Context. 50-61 - Witold Dyrka, Jean-Christophe Nebel, Malgorzata Kotulska:
Towards 3D Modeling of Interacting TM Helix Pairs Based on Classification of Helix Pair Sequence. 62-73 - Gökhan Yavas, Mehmet Koyutürk, Thomas LaFramboise:
Optimization Algorithms for Identification and Genotyping of Copy Number Polymorphisms in Human Populations. 74-85 - Prem Raj Adhikari, Jaakko Hollmén:
Preservation of Statistically Significant Patterns in Multiresolution 0-1 Data. 86-97 - Christian Widmer, Nora C. Toussaint, Yasemin Altun, Oliver Kohlbacher, Gunnar Rätsch:
Novel Machine Learning Methods for MHC Class I Binding Prediction. 98-109
Unsupervised Learning Methods for Biological Sequences
- Shruthi Prabhakara, Raj Acharya:
SIMCOMP: A Hybrid Soft Clustering of Metagenome Reads. 113-124 - Elijah Myers, Paul S. Fisher, Keith Irwin, Jinsuk Baek, João C. Setubal:
The Complexity and Application of Syntactic Pattern Recognition Using Finite Inductive Strings. 125-136 - Ashish Kishor Bindal, R. Sabarinathan, J. Sridhar, Durairaj Sherlin, Krishna Sekar:
An Algorithm to Find All Identical Motifs in Multiple Biological Sequences. 137-148 - Andrew K. C. Wong, Dennis Zhuang, Gary C. L. Li, En-Shiun Annie Lee:
Discovery of Non-induced Patterns from Sequences. 149-160 - Armando J. Pinho, Sara P. Garcia, Paulo Jorge S. G. Ferreira, Vera Afreixo, Carlos A. C. Bastos, António J. R. Neves, João M. O. S. Rodrigues:
Exploring Homology Using the Concept of Three-State Entropy Vector. 161-170 - Valentina Sulimova, Nikolay Razin, Vadim Mottl, Ilya B. Muchnik, Casimir A. Kulikowski:
A Maximum-Likelihood Formulation and EM Algorithm for the Protein Multiple Alignment Problem. 171-182 - Malte Brinkmeyer, Thasso Griebel, Sebastian Böcker:
Polynomial Supertree Methods Revisited. 183-194 - Vincenzo Bonnici, Alfredo Ferro, Rosalba Giugno, Alfredo Pulvirenti, Dennis E. Shasha:
Enhancing Graph Database Indexing by Suffix Tree Structure. 195-203
Learning Methods for Gene Expression and Mass Spectrometry Data
- George Lee, Anant Madabhushi:
Semi-Supervised Graph Embedding Scheme with Active Learning (SSGEAL): Classifying High Dimensional Biomedical Data. 207-218 - Wassim Ayadi, Mourad Elloumi, Jin-Kao Hao:
Iterated Local Search for Biclustering of Microarray Data. 219-229 - Alessandro Perina, Pietro Lovato, Vittorio Murino, Manuele Bicego:
Biologically-aware Latent Dirichlet Allocation (BaLDA) for the Classification of Expression Microarray. 230-241 - Beatriz Pontes, Raúl Giráldez, Jesús S. Aguilar-Ruiz:
Measuring the Quality of Shifting and Scaling Patterns in Biclusters. 242-252 - Ronnie Bathoorn, Monique C. M. Welten, Michael Richardson, Arno Siebes, Fons J. Verbeek:
Frequent Episode Mining to Support Pattern Analysis in Developmental Biology. 253-263 - Carlotta Orsenigo, Carlo Vercellis:
Time Series Gene Expression Data Classification via L1-norm Temporal SVM. 264-274
Bioimaging
- Iman Rezaeian, Luis Rueda:
Sub-grid and Spot Detection in DNA Microarray Images Using Optimal Multi-level Thresholding. 277-288 - Shiwen Zhu, Paul Matsudaira, Roy E. Welsch, Jagath C. Rajapakse:
Quantification of Cytoskeletal Protein Localization from High-Content Images. 289-300 - Alexander E. Nezhinsky, Fons J. Verbeek:
Pattern Recognition for High Throughput Zebrafish Imaging Using Genetic Algorithm Optimization. 301-312 - Scott Doyle, Anant Madabhushi:
Consensus of Ambiguity: Theory and Application of Active Learning for Biomedical Image Analysis. 313-324 - Fabian Ojeda, Marco Signoretto, Raf Van de Plas, Etienne Waelkens, Bart De Moor, Johan A. K. Suykens:
Semi-supervised Learning of Sparse Linear Models in Mass Spectral Imaging. 325-334
Molecular Structure Prediction
- S. P. T. Krishnan, Mushfique Junayed Khurshid, Bharadwaj Veeravalli:
A Matrix Algorithm for RNA Secondary Structure Prediction. 337-348 - Yizhao Ni, Mahesan Niranjan:
Exploiting Long-Range Dependencies in Protein beta-Sheet Secondary Structure Prediction. 349-357 - Alfonso E. Márquez Chamorro, Federico Divina, Jesús S. Aguilar-Ruiz, Gualberto Asencio-Cortés:
Alpha Helix Prediction Based on Evolutionary Computation. 358-367 - Stefano Teso, Cristina Di Risio, Andrea Passerini, Roberto Battiti:
An On/Off Lattice Approach to Protein Structure Prediction from Contact Maps. 368-379
Protein Protein Interaction and Network Inference
- Luis Rueda, Carolina Gárate, Sridip Banerjee, Md. Mominul Aziz:
Biological Protein-Protein Interaction Prediction Using Binding Free Energies and Linear Dimensionality Reduction. 383-394 - Kristine A. Pattin, Jiang Gui, Jason H. Moore:
Employing Publically Available Biological Expert Knowledge from Protein-Protein Interaction Information. 395-406 - Fabrício Martins Lopes, David Correa Martins Jr., Junior Barrera, Roberto M. Cesar:
SFFS-MR: A Floating Search Strategy for GRNs Inference. 407-418 - Frédéric Cazals:
Revisiting the Voronoi Description of Protein-Protein Interfaces: Algorithms. 419-430 - Daniel James Barker, Steven M. Hill, Sach Mukherjee:
MC4: A Tempering Algorithm for Large-Sample Network Inference. 431-442 - Nicolas Brunel, Florence d'Alché-Buc:
Flow-Based Bayesian Estimation of Nonlinear Differential Equations for Modeling Biological Networks. 443-454
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