Pattern Recognition in Bioinformatics: 4th IAPR International Conference, PRIB 2009, Sheffield, UK, September 7-9, 2009. Proceedings [1 ed.] 3642040306, 9783642040306
This book constitutes the refereed proceedings of the Fourth International Workshop on Pattern Recognition in Bioinforma
269 27 81KB
English Pages 452 [462] Year 2009
Table of contents :
Front Matter....Pages -
Evolutionary Parameters in Sequence Families....Pages 1-12
MProfiler: A Profile-Based Method for DNA Motif Discovery....Pages 13-23
On Utilizing Optimal and Information Theoretic Syntactic Modeling for Peptide Classification....Pages 24-35
Joint Tracking of Cell Morphology and Motion....Pages 36-45
Multiclass Microarray Gene Expression Analysis Based on Mutual Dependency Models....Pages 46-55
An Efficient Convex Nonnegative Network Component Analysis for Gene Regulatory Network Reconstruction....Pages 56-66
Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana ....Pages 67-78
Sequential Hierarchical Pattern Clustering....Pages 79-88
Syntactic Pattern Recognition Using Finite Inductive Strings....Pages 89-101
Evidence-Based Clustering of Reads and Taxonomic Analysis of Metagenomic Data....Pages 102-112
Avoiding Spurious Feedback Loops in the Reconstruction of Gene Regulatory Networks with Dynamic Bayesian Networks....Pages 113-124
Ligand Electron Density Shape Recognition Using 3D Zernike Descriptors....Pages 125-136
Definition of Valid Proteomic Biomarkers: A Bayesian Solution....Pages 137-149
Inferring Meta-covariates in Classification....Pages 150-161
A Multiobjective Evolutionary Algorithm for Numerical Parameter Space Characterization of Reaction Diffusion Systems....Pages 162-174
Knowledge-Guided Docking of WW Domain Proteins and Flexible Ligands....Pages 175-186
Distinguishing Regional from Within-Codon Rate Heterogeneity in DNA Sequence Alignments....Pages 187-198
A Hybrid Metaheuristic for Biclustering Based on Scatter Search and Genetic Algorithms....Pages 199-210
Di-codon Usage for Gene Classification....Pages 211-221
Counting Patterns in Degenerated Sequences....Pages 222-232
Modelling Stem Cells Lineages with Markov Trees....Pages 233-243
Bi-clustering of Gene Expression Data Using Conditional Entropy....Pages 244-254
c-GAMMA:Comparative Genome Analysis of Molecular Markers....Pages 255-269
Semi-supervised Prediction of Protein Interaction Sentences Exploiting Semantically Encoded Metrics....Pages 270-281
Classification of Protein Interaction Sentences via Gaussian Processes....Pages 282-292
MCMC Based Bayesian Inference for Modeling Gene Networks....Pages 293-306
Efficient Optimal Multi-level Thresholding for Biofilm Image Segmentation....Pages 307-318
A Pattern Classification Approach to DNA Microarray Image Segmentation....Pages 319-330
Drugs and Drug-Like Compounds: Discriminating Approved Pharmaceuticals from Screening-Library Compounds....Pages 331-343
Fast SCOP Classification of Structural Class and Fold Using Secondary Structure Mining in Distance Matrix....Pages 344-353
Short Segment Frequency Equalization: A Simple and Effective Alternative Treatment of Background Models in Motif Discovery....Pages 354-364
Bayesian Optimization Algorithm for the Non-unique Oligonucleotide Probe Selection Problem....Pages 365-376
Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles....Pages 377-390
Recursive Neural Networks for Undirected Graphs for Learning Molecular Endpoints....Pages 391-403
Enhancing the Effectiveness of Fingerprint-Based Virtual Screening: Use of Turbo Similarity Searching and of Fragment Frequencies of Occurrence....Pages 404-414
Patterns, Movement and Clinical Diagnosis of Abdominal Adhesions....Pages 415-426
Class Prediction from Disparate Biological Data Sources Using an Iterative Multi-Kernel Algorithm....Pages 427-438
Cross-Platform Analysis with Binarized Gene Expression Data....Pages 439-449
Back Matter....Pages -
Front Matter....Pages -
Evolutionary Parameters in Sequence Families....Pages 1-12
MProfiler: A Profile-Based Method for DNA Motif Discovery....Pages 13-23
On Utilizing Optimal and Information Theoretic Syntactic Modeling for Peptide Classification....Pages 24-35
Joint Tracking of Cell Morphology and Motion....Pages 36-45
Multiclass Microarray Gene Expression Analysis Based on Mutual Dependency Models....Pages 46-55
An Efficient Convex Nonnegative Network Component Analysis for Gene Regulatory Network Reconstruction....Pages 56-66
Using Higher-Order Dynamic Bayesian Networks to Model Periodic Data from the Circadian Clock of Arabidopsis Thaliana ....Pages 67-78
Sequential Hierarchical Pattern Clustering....Pages 79-88
Syntactic Pattern Recognition Using Finite Inductive Strings....Pages 89-101
Evidence-Based Clustering of Reads and Taxonomic Analysis of Metagenomic Data....Pages 102-112
Avoiding Spurious Feedback Loops in the Reconstruction of Gene Regulatory Networks with Dynamic Bayesian Networks....Pages 113-124
Ligand Electron Density Shape Recognition Using 3D Zernike Descriptors....Pages 125-136
Definition of Valid Proteomic Biomarkers: A Bayesian Solution....Pages 137-149
Inferring Meta-covariates in Classification....Pages 150-161
A Multiobjective Evolutionary Algorithm for Numerical Parameter Space Characterization of Reaction Diffusion Systems....Pages 162-174
Knowledge-Guided Docking of WW Domain Proteins and Flexible Ligands....Pages 175-186
Distinguishing Regional from Within-Codon Rate Heterogeneity in DNA Sequence Alignments....Pages 187-198
A Hybrid Metaheuristic for Biclustering Based on Scatter Search and Genetic Algorithms....Pages 199-210
Di-codon Usage for Gene Classification....Pages 211-221
Counting Patterns in Degenerated Sequences....Pages 222-232
Modelling Stem Cells Lineages with Markov Trees....Pages 233-243
Bi-clustering of Gene Expression Data Using Conditional Entropy....Pages 244-254
c-GAMMA:Comparative Genome Analysis of Molecular Markers....Pages 255-269
Semi-supervised Prediction of Protein Interaction Sentences Exploiting Semantically Encoded Metrics....Pages 270-281
Classification of Protein Interaction Sentences via Gaussian Processes....Pages 282-292
MCMC Based Bayesian Inference for Modeling Gene Networks....Pages 293-306
Efficient Optimal Multi-level Thresholding for Biofilm Image Segmentation....Pages 307-318
A Pattern Classification Approach to DNA Microarray Image Segmentation....Pages 319-330
Drugs and Drug-Like Compounds: Discriminating Approved Pharmaceuticals from Screening-Library Compounds....Pages 331-343
Fast SCOP Classification of Structural Class and Fold Using Secondary Structure Mining in Distance Matrix....Pages 344-353
Short Segment Frequency Equalization: A Simple and Effective Alternative Treatment of Background Models in Motif Discovery....Pages 354-364
Bayesian Optimization Algorithm for the Non-unique Oligonucleotide Probe Selection Problem....Pages 365-376
Microarray Time-Series Data Clustering via Multiple Alignment of Gene Expression Profiles....Pages 377-390
Recursive Neural Networks for Undirected Graphs for Learning Molecular Endpoints....Pages 391-403
Enhancing the Effectiveness of Fingerprint-Based Virtual Screening: Use of Turbo Similarity Searching and of Fragment Frequencies of Occurrence....Pages 404-414
Patterns, Movement and Clinical Diagnosis of Abdominal Adhesions....Pages 415-426
Class Prediction from Disparate Biological Data Sources Using an Iterative Multi-Kernel Algorithm....Pages 427-438
Cross-Platform Analysis with Binarized Gene Expression Data....Pages 439-449
Back Matter....Pages -
![Pattern Recognition in Bioinformatics: 4th IAPR International Conference, PRIB 2009, Sheffield, UK, September 7-9, 2009. Proceedings [1 ed.]
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- Author / Uploaded
- Said Hassan Ahmed
- Tor Flå (auth.)
- Visakan Kadirkamanathan
- Guido Sanguinetti
- Mark Girolami
- Mahesan Niranjan
- Josselin Noirel (eds.)
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