This book constitutes the refereed proceedings of the 5th International Conference on Pattern Recognition in Bioinformatics, PRIB 2010, held in Nijmegen, The Netherlands, in September 2010. The 38 revised full papers presented were carefully reviewed and selected from 46 submissions. The field of bioinformatics has two main objectives: the creation and maintenance of biological databases and the analysis of life sciences data in order to unravel the mysteries of biological function. Computer science methods such as pattern recognition, machine learning, and data mining have a great deal to offer the field of bioinformatics.
Author(s): Bastiaan A. van den Berg, Jurgen F. Nijkamp, Marcel J. T. Reinders, Liang Wu (auth.), Tjeerd M. H. Dijkstra, Evgeni Tsivtsivadze, Elena Marchiori, Tom Heskes (eds.)
Series: Lecture Notes in Computer Science 6282 : Lecture Notes in Bioinformatics
Edition: 1
Publisher: Springer-Verlag Berlin Heidelberg
Year: 2010
Language: English
Pages: 442
Tags: Computational Biology/Bioinformatics; Health Informatics; Pattern Recognition; Data Mining and Knowledge Discovery; Computer Imaging, Vision, Pattern Recognition and Graphics; Artificial Intelligence (incl. Robotics)
Front Matter....Pages -
Front Matter....Pages 1-1
Sequence-Based Prediction of Protein Secretion Success in Aspergillus niger ....Pages 3-14
Machine Learning Study of DNA Binding by Transcription Factors from the LacI Family....Pages 15-26
Joint Loop End Modeling Improves Covariance Model Based Non-coding RNA Gene Search....Pages 27-37
Structured Output Prediction of Anti-cancer Drug Activity....Pages 38-49
SLiMSearch: A Webserver for Finding Novel Occurrences of Short Linear Motifs in Proteins, Incorporating Sequence Context....Pages 50-61
Towards 3D Modeling of Interacting TM Helix Pairs Based on Classification of Helix Pair Sequence....Pages 62-73
Optimization Algorithms for Identification and Genotyping of Copy Number Polymorphisms in Human Populations....Pages 74-85
Preservation of Statistically Significant Patterns in Multiresolution 0-1 Data....Pages 86-97
Novel Machine Learning Methods for MHC Class I Binding Prediction....Pages 98-109
Front Matter....Pages 111-111
SIMCOMP: A Hybrid Soft Clustering of Metagenome Reads....Pages 113-124
The Complexity and Application of Syntactic Pattern Recognition Using Finite Inductive Strings....Pages 125-136
An Algorithm to Find All Identical Motifs in Multiple Biological Sequences....Pages 137-148
Discovery of Non-induced Patterns from Sequences....Pages 149-160
Exploring Homology Using the Concept of Three-State Entropy Vector....Pages 161-170
A Maximum-Likelihood Formulation and EM Algorithm for the Protein Multiple Alignment Problem....Pages 171-182
Polynomial Supertree Methods Revisited....Pages 183-194
Enhancing Graph Database Indexing by Suffix Tree Structure....Pages 195-203
Front Matter....Pages 205-205
Semi-Supervised Graph Embedding Scheme with Active Learning (SSGEAL): Classifying High Dimensional Biomedical Data....Pages 207-218
Iterated Local Search for Biclustering of Microarray Data....Pages 219-229
Biologically-aware Latent Dirichlet Allocation (BaLDA) for the Classification of Expression Microarray....Pages 230-241
Front Matter....Pages 205-205
Measuring the Quality of Shifting and Scaling Patterns in Biclusters....Pages 242-252
Frequent Episode Mining to Support Pattern Analysis in Developmental Biology....Pages 253-263
Time Series Gene Expression Data Classification via L 1 -norm Temporal SVM....Pages 264-274
Front Matter....Pages 275-275
Sub-grid and Spot Detection in DNA Microarray Images Using Optimal Multi-level Thresholding....Pages 277-288
Quantification of Cytoskeletal Protein Localization from High-Content Images....Pages 289-300
Pattern Recognition for High Throughput Zebrafish Imaging Using Genetic Algorithm Optimization....Pages 301-312
Consensus of Ambiguity: Theory and Application of Active Learning for Biomedical Image Analysis....Pages 313-324
Semi-supervised Learning of Sparse Linear Models in Mass Spectral Imaging....Pages 325-334
Front Matter....Pages 335-335
A Matrix Algorithm for RNA Secondary Structure Prediction....Pages 337-348
Exploiting Long-Range Dependencies in Protein β -Sheet Secondary Structure Prediction....Pages 349-357
Alpha Helix Prediction Based on Evolutionary Computation....Pages 358-367
An On/Off Lattice Approach to Protein Structure Prediction from Contact Maps....Pages 368-379
Front Matter....Pages 381-381
Biological Protein-Protein Interaction Prediction Using Binding Free Energies and Linear Dimensionality Reduction....Pages 383-394
Employing Publically Available Biological Expert Knowledge from Protein-Protein Interaction Information....Pages 395-406
SFFS-MR: A Floating Search Strategy for GRNs Inference....Pages 407-418
Revisiting the Voronoi Description of Protein-Protein Interfaces: Algorithms....Pages 419-430
MC 4 : A Tempering Algorithm for Large-Sample Network Inference....Pages 431-442
Flow-Based Bayesian Estimation of Nonlinear Differential Equations for Modeling Biological Networks....Pages 443-454
Back Matter....Pages -
