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Über dieses Buch

The growth in the Bioinformatics and Computational Biology fields over the last few years has been remarkable and the trend is to increase its pace. In fact, the need for computational techniques that can efficiently handle the huge amounts of data produced by the new experimental techniques in Biology is still increasing driven by new advances in Next Generation Sequencing, several types of the so called omics data and image acquisition, just to name a few. The analysis of the datasets that produces and its integration call for new algorithms and approaches from fields such as Databases, Statistics, Data Mining, Machine Learning, Optimization, Computer Science and Artificial Intelligence. Within this scenario of increasing data availability, Systems Biology has also been emerging as an alternative to the reductionist view that dominated biological research in the last decades. Indeed, Biology is more and more a science of information requiring tools from the computational sciences. In the last few years, we have seen the surge of a new generation of interdisciplinary scientists that have a strong background in the biological and computational sciences. In this context, the interaction of researchers from different scientific fields is, more than ever, of foremost importance boosting the research efforts in the field and contributing to the education of a new generation of Bioinformatics scientists. PACBB‘12 hopes to contribute to this effort promoting this fruitful interaction. PACBB'12 technical program included 32 papers from a submission pool of 61 papers spanning many different sub-fields in Bioinformatics and Computational Biology. Therefore, the conference will certainly have promoted the interaction of scientists from diverse research groups and with a distinct background (computer scientists, mathematicians, biologists). The scientific content will certainly be challenging and will promote the improvement of the work that is being developed by each of the participants.

Inhaltsverzeichnis

Frontmatter

2012 | OriginalPaper | Buchkapitel

Parallel Spectral Clustering for the Segmentation of cDNA Microarray Images

Sandrine Mouysset, Ronan Guivarch, Joseph Noailles, Daniel Ruiz

2012 | OriginalPaper | Buchkapitel

Prognostic Prediction Using Clinical Expression Time Series: Towards a Supervised Learning Approach Based on Meta-biclusters

André V. Carreiro, Artur J. Ferreira, Mário A. T. Figueiredo, Sara C. Madeira

2012 | OriginalPaper | Buchkapitel

Parallel e-CCC-Biclustering: Mining Approximate Temporal Patterns in Gene Expression Time Series Using Parallel Biclustering

Filipe Cristóvão, Sara C. Madeira

2012 | OriginalPaper | Buchkapitel

Identification of Regulatory Binding Sites on mRNA Using in Vivo Derived Informations and SVMs

Carmen Maria Livi, Luc Paillard, Enrico Blanzieri, Yann Audic

2012 | OriginalPaper | Buchkapitel

Parameter Influence in Genetic Algorithm Optimization of Support Vector Machines

Paulo Gaspar, Jaime Carbonell, José Luís Oliveira

2012 | OriginalPaper | Buchkapitel

Biological Knowledge Integration in DNA Microarray Gene Expression Classification Based on Rough Set Theory

D. Calvo-Dmgz, J. F. Galvez, Daniel Glez-Peña, Florentino Fdez-Riverola

2012 | OriginalPaper | Buchkapitel

Quantitative Assessment of Estimation Approaches for Mining over Incomplete Data in Complex Biomedical Spaces: A Case Study on Cerebral Aneurysms

Jesus Bisbal, Gerhard Engelbrecht, Alejandro F. Frangi

2012 | OriginalPaper | Buchkapitel

ASAP: An Automated System for Scientific Literature Search in PubMed Using Web Agents

Carlos Carvalhal, Sérgio Deusdado, Leonel Deusdado

2012 | OriginalPaper | Buchkapitel

Case-Based Reasoning to Classify Endodontic Retreatments

Livia Campo, Vicente Vera, Enrique Garcia, Juan F. De Paz, Juan M. Corchado

2012 | OriginalPaper | Buchkapitel

A Comparative Analysis of Balancing Techniques and Attribute Reduction Algorithms

R. Romero, E. L. Iglesias, L. Borrajo

2012 | OriginalPaper | Buchkapitel

Sliced Model Checking for Phylogenetic Analysis

José Ignacio Requeno, Roberto Blanco, Gregorio de Miguel Casado, José Manuel Colom

2012 | OriginalPaper | Buchkapitel

PHYSER: An Algorithm to Detect Sequencing Errors from Phylogenetic Information

Jorge Álvarez-Jarreta, Elvira Mayordomo, Eduardo Ruiz-Pesini

2012 | OriginalPaper | Buchkapitel

A Systematic Approach to the Interrogation and Sharing of Standardised Biofilm Signatures

Anália Lourenço, Andreia Ferreira, Maria Olivia Pereira, Nuno F. Azevedo

2012 | OriginalPaper | Buchkapitel

Visual Analysis Tool in Comparative Genomics

Juan F. De Paz, Carolina Zato, María Abáigar, Ana Rodríguez-Vicente, Rocío Benito, Jesús M. Hernández

2012 | OriginalPaper | Buchkapitel

From Networks to Trees

Marco Alves, Joãd Alves, Rui Camacho, Pedro Soares, Luísa Pereira

2012 | OriginalPaper | Buchkapitel

Procedure for Detection of Membranes in Three-Dimensional Subcellular Density Maps

A. Martinez-Sanchez, I. Garcia, J. J. Fernandez

2012 | OriginalPaper | Buchkapitel

A Cellular Automaton Model for Tumor Growth Simulation

Ángel Monteagudo, José Santos

2012 | OriginalPaper | Buchkapitel

Ectopic Foci Study on the Crest Terminalis in 3D Computer Model of Human Atrial

Carlos A. Ruiz-Villa, Andrés P. Castaño, Andrés Castillo, Elvio Heidenreich

2012 | OriginalPaper | Buchkapitel

SAD_BaSe: A Blood Bank Data Analysis Software

Augusto Ramoa, Salomé Maia, Anália Lourenço

2012 | OriginalPaper | Buchkapitel

A Rare Disease Patient Manager

Pedro Lopes, Rafael Mendonça, Hugo Rocha, Jorge Oliveira, Laura Vilarinho, Rosário Santos, José Luís Oliveira

2012 | OriginalPaper | Buchkapitel

MorphoCol: A Powerful Tool for the Clinical Profiling of Pathogenic Bacteria

Ana Margarida Sous, Anália Lourenço, Maria Olívia Pereira

2012 | OriginalPaper | Buchkapitel

Applying AIBench Framework to Develop Rich User Interfaces in NGS Studies

Hugo López-Fernández, Daniel Glez-Peña, Miguel Reboiro-Jato, Gonzalo Gómez-López, David G. Pisano, Florentino Fdez-Riverola

2012 | OriginalPaper | Buchkapitel

Comparing Bowtie and BWA to Align Short Reads from a RNA-Seq Experiment

N. Medina-Medina, A. Broka, S. Lacey, H. Lin, E. S. Klings, C. T. Baldwin, M. H. Steinberg, P. Sebastiani

2012 | OriginalPaper | Buchkapitel

SAMasGC: Sequencing Analysis with a Multiagent System and Grid Computing

Roberto González, Carolina Zato, Rocío Benito, María Hernández, Jesús M. Hernández, Juan F. De Paz

2012 | OriginalPaper | Buchkapitel

Exon: A Web-Based Software Toolkit for DNA Sequence Analysis

Diogo Pratas, Armando J. Pinho, Sara P. Garcia

2012 | OriginalPaper | Buchkapitel

On the Development of a Pipeline for the Automatic Detection of Positively Selected Sites

David Reboiro-Jato, Miguel Reboiro-Jato, Florentino Fdez-Riverola, Nuno A. Fonseca, Jorge Vieira

2012 | OriginalPaper | Buchkapitel

Compact Representation of Biological Sequences Using Set Decision Diagrams

José Ignacio Requeno, José Manuel Colom

2012 | OriginalPaper | Buchkapitel

Computational Tools for Strain Optimization by Adding Reactions

Sara Correia, Miguel Rocha

2012 | OriginalPaper | Buchkapitel

Computational Tools for Strain Optimization by Tuning the Optimal Level of Gene Expression

Emanuel Gonçalves, Isabel Rocha, Miguel Rocha

2012 | OriginalPaper | Buchkapitel

Efficient Verification for Logical Models of Regulatory Networks

Pedro T. Monteiro, Claudine Chaouiya

2012 | OriginalPaper | Buchkapitel

Tackling Misleading Peptide Regulation Fold Changes in Quantitative Proteomics

Christoph Gernert, Evelin Berger, Frank Klawonn, Lothar Jänsch

2012 | OriginalPaper | Buchkapitel

Coffee Transcriptome Visualization Based on Functional Relationships among Gene Annotations

Luis F. Castillo, Oscar Gómez-Ramírez, Narmer Galeano-Vanegas, Luis Bertel-Paternina, Gustavo Isaza, Álvaro Gaitán-Bustamante

Backmatter

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