5th International Conference on Practical Applications of Computational Biology & Bioinformatics (PACBB 2011)

1. Riskoweb: Web-Based Genetic Profiling to Complex Disease Using Genome-Wide SNP Markers
Sergio Torres-Sánchez, Rosana Montes-Soldado, Nuria Medina-Medina, Andrés R. Masegosa, María Mar Abad-Grau

2. MC64: A Web Platform to Test Bioinformatics Algorithms in a Many-Core Architecture
Francisco José Esteban, David Díaz, Pilar Hernández, Juan Antonio Caballero, Gabriel Dorado, Sergio Gálvez

3. Integrating Medical Patient Data with Family Trees to Improve the Quality of Information
Eliana Sousa, Tiago Jesus, Lina Neves, Mónica Costa, Fernando Reinaldo Ribeiro, José Carlos Metrôlho, Ricardo Cruz-Correia

4. Peptidase Detection and Classification Using Enhanced Kernel Methods with Feature Selection
Lionel Morgado, Carlos Pereira, Paula Veríssimo, António Dourado

5. An Image Processing Application for Quantification of Protein Aggregates in Caenorhabditis Elegans

Andreia Teixeira-Castro, Nuno Dias, Pedro Rodrigues, João Filipe Oliveira, Nuno F. Rodrigues, Patrícia Maciel, João L. Vilaça

6. Workflows with Model Selection: A Multilocus Approach to Phylogenetic Analysis
Jorge Álvarez, Roberto Blanco, Elvira Mayordomo

7. Baiacu: A Tool for the Visual Analysis of the Saccharomyces Cerevisiae Regulatory Network
Ricardo S. Aires, João A. Carriço, Alexandre P. Francisco, Sara C. Madeira

8. BBMS + +  – Basic Bioinformatics Meta-searcher
Márcio S. Carocho, Sérgio Deusdado

9. Effective Parallelization of Non-bonded Interactions Kernel for Virtual Screening on GPUs
Ginés D. Guerrero, Horacio Pérez-Sánchez, Wolfgang Wenzel, José M. Cecilia, José M. García

10. Tracking B Cells from Two-Photon Microscopy Images Using Sequential Monte Carlo
David Olivieri, Ivan Gomez Conde, Jose Faro

11. Experiments on Computer Assisted Optimization of the Escherichia
Coli Fermentation Process Using Optferm
Tânia Teixeira, Sérgio Deusdado

12. An Intuitive Workflow to Retrieve Somatic Mutations in Next Generation Sequencing Studies
Daniel Glez-Peña, Miguel Reboiro-Jato, Florentino Fdez-Riverola, David G. Pisano, Gonzalo Gómez-López

13. Building a GATK-Based Tool for Methylation Analysis in Next-Generation Bisulfite Sequencing Experiments
Daniel Glez-Peña, Osvaldo Graña, Florentino Fdez-Riverola, David G. Pisano

14. EPIQuest: A Multiuser and Multiproject Web Tool to Build Online Forms for Biomedical Studies
M. Márquez-Cid, G. Comesaña, R. Milne, G. Andrés, N. Malats, D. Pisano

15. Building Proteomics Applications with the AIBench Application Framework
Miguel Reboiro-Jato, Daniel Glez-Peña, José R. Méndez-Reboredo, Hugo M. Santos, Ricardo J. Carreira, José L. Capelo, Florentino Fdez-Riverola

16. Neurohand Solving the Inverse Cinematic of an Anthropomorphic Arm
Marina Beltrán-Blanco, Javier Molina-Vilaplana, José Luis Muñoz-Lozano, Juan López-Coronado

17. An Enhancement of the Usage of the Poincare Index for the Detection and Classification of Characteristic Points in Dactylograms
Angélica González, Marco A. Ameller F.

18. Modelling of Tirapazamine Effects on Solid Tumour Morphology
N. Kazmi, M. A. Hossain, R. M. Phillips

19. MOGA-Based Multi-drug Optimisation for Cancer Chemotherapy
S. Algoul, M. S. Alam, K. Sakib, M. A. Hossain, M. A. A. Majumder

20. Multi-drug Infusion Control Using Model Reference Adaptive Algorithm
S. Enbiya, M. A. Hossain, F. Mahieddine

21. Fast and Accurate Genome Anchoring Using Fuzzy Hash Maps
John Healy, Desmond Chambers

22. A Parallel Niched Pareto Evolutionary Algorithm for Multiple Sequence Alignment
Fernando José Mateus Silva, Juan Manuel Sánchez Pérez, Juan Antonio Gómez Pulido, Miguel A. Vega Rodríguez

23. Phylogenetic Analysis Using an SMV Tool
José Ignacio Requeno, Roberto Blanco, Gregorio Miguel Casado, José Manuel Colom

24. An Efficient Motif Search Algorithm Based on a Minimal Forbidden Patterns Approach
Tarek Falah, Thierry Lecroq, Mourad Elloumi

25. Emerging Methodologies in Multiple Sequence Alignment Using High Throughput Data
Francisco M. Ortuño Guzman, I. Rojas, H. Pomares, J. M. Urquiza, J. P. Florido

26. DNA Sequence Search Using Content-Based Image Search Approach
Heri Ramampiaro, Aleksander Grande

27. Integrative Analysis of the Regulatory Region of the FGFR3 Oncogene
Josep Bau, Marta Cullell, Jordi Solé-Casals

28. Distances between Dinucleotides in the Human Genome
Carlos A. C. Bastos, Vera Afreixo, Armando J. Pinho, Sara P. Garcia, João M. O. S. Rodrigues, Paulo J. S. G. Ferreira

29. Compressing the Human Genome Using Exclusively Markov Models
Diogo Pratas, Armando J. Pinho

30. Highlighting Differential Gene Expression between Two Condition Microarrays through Multidimensional Scaling Comparison of Lesihmania
Infantum Genomic Data Similarity Matrices
Víctor Andrés Vera-Ruiz, Liliana López-Kleine

31. Biclustering-Based Classification of Clinical Expression Time Series: A Case Study in Patients with Multiple Sclerosis
André V. Carreiro, Orlando Anunciação, João A. Carriço, Sara C. Madeira

32. A Simulation Study on the Impact of Strong Dependence in High-Dimensional Multiple-Testing I: The Case without Effects
Antonio Carvajal-Rodríguez, Jacobo Uña-Álvarez

33. Bioinformatics as a Tool to Help Characterise Perkinsus Olseni Up-Regulated Genes in Response to Its Host
Rita M. T. Ascenso

34. Hybridization Dynamics Compensation in Microarray Experiments
Raul Malutan, Pedro Gómez Vilda, Ioana Berindan Neagoe, Monica Borda

35. Identification of Peptides with Deviating Regulation Factors Using a Robust Clustering Scheme
Natalia Novoselova, Frank Klawonn, Thorsten Johl, Tobias Reinl, Lothar Jänsch

36. Prediction of Protein Distance Maps by Assembling Fragments According to Physicochemical Similarities
Gualberto Asencio Cortés, Jesús S. Aguilar-Ruiz, Alfonso E. Márquez Chamorro

37. Residue-Residue Contact Prediction Based on Evolutionary Computation
Alfonso E. Márquez Chamorro, Federico Divina, Jesús S. Aguilar-Ruiz, Gualberto Asencio Cortés

38. NcPred for Accurate Nuclear Protein Prediction Using n-mer Statistics with Various Classification Algorithms
Md. Saiful Islam, Alaol Kabir, Kazi Sakib, Md. Alamgir Hossain

39. Relating Formalisms for the Qualitative Modelling of Regulatory Networks
Beatriz Luna, Claudine Chaouiya

40. Interpreting the Regulatory Interplay in E. coli Metabolic Pathways
Anália Lourenço, Sónia Carneiro, José P. Pinto, Miguel Rocha, Eugénio C. Ferreira, Isabel Rocha

41. A Systematic Modeling Approach to Elucidate the Triggering of the Stringent Response in Recombinant E. coli Systems
Sónia Carneiro, Eugénio C. Ferreira, Isabel Rocha

42. Modeling Cellular Signaling Systems: An Abstraction-Refinement Approach
Diana Hermith, Carlos Olarte, Camilo Rueda, Frank D. Valencia

43. A Study on the Robustness of Strain Optimization Algorithms
Paulo Vilaça, Paulo Maia, Miguel Rocha

44. Assessing the Suitability of MeSH Ontology for Classifying Medline Documents
Rosalía Laza, Reyes Pavón, Miguel Reboiro-Jato, Florentino Fdez-Riverola

45. Assessing the Impact of Class-Imbalanced Data for Classifying Relevant/Irrelevant Medline Documents
Reyes Pavón, Rosalía Laza, Miguel Reboiro-Jato, Florentino Fdez-Riverola

46. Assessing the Effect of 2D Fingerprint Filtering on ILP-Based Structure-Activity Relationships Toxicity Studies in Drug Design
Rui Camacho, Max Pereira, Vítor Santos Costa, Nuno A. Fonseca, Carlos J. V. Simões, Rui M. M. Brito

47. Using Dictionaries for Biomedical Text Classification
R. Romero, E. L. Iglesias, L. Borrajo, C. M. Redondo Marey

48. Using Machine Learning Techniques and Genomic/Proteomic Information from Known Databases for PPI Prediction
J. M. Urquiza, I. Rojas, H. Pomares, L. J. Herrera, J. P. Florido, F. Ortuño

49. Prioritizing Literature Search Results Using a Training Set of Classified Documents
Sérgio Matos, José Luis Oliveira

50. Improving Reproducibility on Tree Based Multimarker Methods: TreeDTh
José Javier Moreno-Ortega, Nuria Medina-Medina, Rosana Montes-Soldado, María Mar Abad-Grau

Avainsanat: Engineering, Computational Intelligence, Artificial Intelligence (incl. Robotics), Bioinformatics