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AlCoB 2017

Aveiro, Portugal

June 5-6, 2017

Organized by:

Center for Research & Development in Mathematics and Applications (CIDMA)

Institute of Electronics and Informatics Engineering of Aveiro (IEETA)

University of Aveiro

Research Group on Mathematical Linguistics (GRLMC)

Rovira i Virgili University



Monday, June 5

09:00 - 09:30    Registration

09:30 - 09:40    Opening

09:40 - 10:30    Michael Biehl: Biomedical Applications of Prototype Based Classifiers and Relevance Learning - Invited lecture

10:30 - 11:00    Coffee break

11:00 - 11:50

Stefano Beretta, Paola Bonizzoni, Luca Denti, Marco Previtali and Raffaella Rizzi: Mapping RNA-seq Data to a Transcript Graph via Approximate Pattern Matching to a Hypertext

Alessio Conte, Roberto Grossi, Andrea Marino, Lorenzo Tattini and Luca Versari: A Fast Algorithm for Large Common Connected Induced Subgraphs

11:50 - 12:05    Break

12:05 - 12:55

Javlon E. Isomurodov, Alexander A. Loboda and Alexey A. Sergushichev: Ranking Vertices for Active Module Recovery Problem

John L. Pfaltz: Computational Processes that Appear to Model Human Memory

12:55 - 14:25    Lunch

14:25 - 15:15

Philip J. Gerrish and Nick Hengartner: Inferring the Distribution of Fitness Effects (DFE) of Newly-arising Mutations Using Samples Taken from Evolving Populations in Real Time

Jesper Jansson, Ramesh Rajaby and Wing-Kin Sung: An Efficient Algorithm for the Rooted Triplet Distance between Galled Trees

15:15 - 15:30    Break and Group photo

15:30 - 16:20    Benedict Paten: Describing the Local Structure of Sequence Graphs - Invited lecture

16:20 - 16:35    Break

16:35 -    18:05    Poster presentations

Martin Ayling and Richard Leggett. MetaCortex: Assembling Variation in Metagenomics

Gregory Farrant, Hoebeke Mark, Frédéric Partensky, Gwendoline Andrès, Erwan Corre and Laurence Garczarek. WiseScaffolder: An Algorithm for the Semi-automatic Scaffolding of Next Generation Sequencing Data

Daniel Figueiredo and Eugénio Rocha. sDL: A Prover for Hybrid Systems

César González, Mariano Pérez-Martínez, Juan M. Orduña, Javier Chaves-Martinez and Ana Barbara Garcia-Garcia. On the Use of Bit Arrays in the Detection of DNA Regions with Methylated Cytosines

Morteza Hosseini, Diogo Pratas and Armando J. Pinho. Quantifying Inverted Repeats in DNA Sequences

Haneen Najjar, Nagam Khoury and Alexander Bolshoy. Quasi-omnipresent N-grams in M Prokaryotic Genomes

John Santerre, James Davis, Fangfang Xia and Rick Stevens. Machine Learning for the Phenotype to Genotype Problem

Antonio J. Tallón-Ballesteros and María Rodríguez-Romero. Multilayer Perceptron Based on Hyperbolic Tangent Hidden Nodes. An Experimental Study

Antonio J. Tallón-Ballesteros, Luis Rus-Pegalajar, María Rodríguez-Romero and Jonathan E. Benavides-Vallejo. Ranking-based Feature Selection in Microarray Problems

18:15 - 19:15    Touristic visit


Tuesday, June 6

09:00 - 09:50    Marie-France Sagot: Algorithmically Exploring and Exploiting Interspecific Interactions - Invited lecture

09:50 - 10:20    Coffee break

10:20 - 11:10

Alex Ozdemir, Michael Sheely, Daniel Bork, Ricson Cheng, Reyna Hulett, Jean Sung, Jincheng Wang and Ran Libeskind-Hadas: Clustering the Space of Maximum Parsimony Reconciliations in the Duplication-Transfer-Loss Model

T.M. Rezwanul Islam and Ian McQuillan: CSA-X: Modularized Constrained Multiple Sequence Alignment

11:10 - 11:25    Break

11:25 - 12:15

Ozan Kahramanogullari: Quantifying Information Flow in Chemical Reaction Networks

Gabriel H.G. Silva, Edans F.O. Sandes, George Teodoro and Alba C.M A. Melo: Parallel Biological Sequence Comparison in Linear Space with Multiple Adjustable Bands

12:15 - 12:25    Closing

12:25 -        Lunch

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