JBI 2010 Program

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- Global Program

- Invited Speakers

- Special Sessions and Tutorials

- Detailed program

- Poster Sessions Agenda

Global program

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Tracks
Session 1.1	Analysis of HT-NGS data	1:30 h
Session 1.2	Genomics projects design: success cases	2:00 h
Session 1.3	Highlights of the year 1	1:30 h
Session 1.4	Open discussion on the bioinformatics challenges in personalized medicine	2:00 h
Session 2.1	Tools and technologies for computational biology	1:30 h
Session 2.2	Highlights of the year 2	1:30 h
Session 2.3	Short Oral Presentations 1	1:30 h
Session 2.4	Options and Priorities in hands on training in Spain and Portugal	1:30 h
Session 3.1	Short Oral Presentations 2	1:30 h

Tuesday 26th October

8:30 – 10:30. Registration and information desk
11:00 – 14:30. National Institute of Bioinformatics, Internal session: INB-technicians
13:00 – 19:30. I Spain, Portugal and North Africa Bioinformatics Student Symposium (NPS3Bio)
15:00 – 17:30. Registration and information desk

Wednesday 27th October

08:00 – 09:00. Registration and information desk
08:30 – 09:00. Welcome and Opening
09:00 – 10:00. Main lecture: Ivo Gut
10:00 – 10:30. Coffee break
10:30 – 12:00. Session 1.1: Analysis of HT-NGS data 
12:00 – 14:00. Session 1.2: Genomic projects design: success cases 
14:00 – 15:00. Lunch 
15:00 – 16:30. Session 1.3: Highlights of the year 1
16:30 – 17:00.Coffee break
17:00 – 18:30. Session 1.4 Open discussion on the Bioinformatics challenges in personalized Medicine.
18:30 – 20:00. Poster Session 1
20:00 – 23:00. Social event (TBC)

Parallel Sessions:
15:00 – 17:00. Bioinformatics Software Developments in Spain and beyond
19:00 – 20:00. Status of the Elixir Project

Thursday 28th October 

08:00 – 09:00. Registration and information desk
09:00 – 10:00. Main lecture: Sarah Hunter
10:00 – 10:30. Coffee break
10:30 – 12:00. Sessión 2.1: Tools and technologies for Computational Biology 
12:00 – 14:00. Session 2.2: Highlights of the year 2
14:00 – 15:00. Lunch
15:00 – 16:30. Session 2.3: Short Oral Presentations (2)
16:30 – 17:00. Coffee break
17:00 – 18:30. Session 2.4: Options and Priorities in hands-on training in Spain and Portugal (Round table)
18:30 – 19:30. Poster Session 2
20:30 – 23:00. Gala Dinner

Friday 29th October

08:00 – 09:00. Registration and information desk
09:00 – 10:00. Main lecture: Julio Saez Rodriguez
10:00 – 10:30. Coffee break
10:30 – 12:00. Session 3.1: Short Oral Presentations (2)
12:00 – 12:30. Closure session

Invited Speakers

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Ivo Gut.

Director National Genome Analysis Center Barcelona . Date: Wednesday 27 October

Sara Hunter. Classification of uncharacterised sequences; challenges and considerations.

Group Leader Inter Pro Team EMBL-EBI Hinxton  Sarah has worked at EMBL-EBI since 2005, leading the InterPro team since October 2007. Prior to this Sarah worked in the Pharmaceutical industry for 7 years. She holds an MSc in Bioinformatics and a BSc in Biochemistry and Genetics. Date: Thursday 28 October More information:

Julio Saez Rodriguez. Comparative logical models of signaling networks in normal and transformed hepatocytes.

EMBL Outstation - Hinxton, European Bioinformatics Institute Julio Saez-Rodriguez is a group leader at the European Bioninformatics Institute (EMBL-EBI), with a joint appointment in the EMBL Genome Biology Unit in Heidelberg, and a Senior Fellow of Wolfson College in Cambridge. His group works on the computational analysis of information transfer within signalling networks implicated in disease, and he co-organizes the Reverse Engineering Initiative DREAM. He studied Chemical Engineering in the Universities of Oviedo and Stuttgart, and performed his graduate studies between 2002 and 2007 at the Max-Planck-Institute for Dynamics of Complex Technical Systems with E. D. Gilles. From 2007 to 2010 he was a postdoctoral fellow in the groups of Peter Sorger at Harvard Medical School and Doug Lauffenburger at M.I.T. Date: Friday 29 October More information:

Special Sessions and Tutorials

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*Workshop. I Spain, Portugal and North Africa Bioinformatics Student Symposium (NPS3Bio)

For the first time, the brightest young minds in bioinformatics from all over Spain, Portugal and North Africa will gather to present their work to other young people, at the inaugural NPS3Bio. Based on similar international initiatives, this event seeks to foster stronger links between students at institutions across the continent, allowing them the opportunity to present and evaluate research, explore the possibility of collaborations and career opportunities, and learn from senior scientists, who will be invited to share their experiences of the research journey. Date: Tuesday 26 October . (13.00-19.30) Place: Hotel Son Don Pablo. Sala Toledo. Chair: Pedro Lopes, Noura Chelbat, Lorena Pantano, Manuel Corpas, Allan Orozco. More information and program: http://nps3bio.tumblr.com/ Poster:

 

* Session 1.2 Genomic Projects design: success cases

Special session based on the currently and past genomics projects.The different projects' coordinators will expose the research approaches, their relation with the bioinformatics and obtained results. The different leassons learned from current and past genomic projects. Date: Wednesday 27 October . 12:00-14:00. Place: Hotel Son Don Pablo. Sala Toledo. Chair: Victoriano Valpuesta. Fernández, University of Málaga Program:

 

* Session 1.4 Bioinformatics Challenges in Personalized Medicine

Special session based on the currently and past genomics projects.The different projects' coordinators will expose the research approaches, their relation with the bioinformatics and obtained results. The different leassons learned from current and past genomic projects. Date: Wednesday 27 October . 17:00-18:30. Place: Hotel Son Don Pablo. Sala Toledo. Introduction: Alfonso Valencia, CNIO Chairs: Jose Pereira Leal, Instituto Gulbenkian de Ciência/ Fernando Martin-Sánchez, Instituto de Salud Carlos III Program:

 

* Parallel Session 1: Bioinformatics Software Developments in Spain and beyond . Special INB session.

Public Session in which the INB (Spanish National Institute of Bioinformatics) and FreeBit (Software libre para la Salud y la Vida ) members will expose the available tools for the research community. Other invited groups will expose their research lines and tools. Date: Wednesday 27 October . (15.00-17.00) Place: Hotel Son Don Pablo. Sala Segovia. Organizers: Jose María Fernández, J.R. Valverde, Victoria Martín-Requena , Max García and Allan Orozco. Chair: José María Fernández Program:

 

* Parallel Session 2: Status of the ELIXIR Project

The mission of ELIXIR is to construct and operate a sustainable infrastructure for biological information in Europe to support life science research and its translation to medicine and the environment, the bio-industries and society. In this session the current status of the project will be analyzed. Date: Wednesday 27 October . (19:00-20:00) Place: Hotel Son Don Pablo. Sala Segovia.

 

* Session 2.4. Options and Priorities in hands-on training in Spain and Portugal (round table)

Bioinformatics is present in all biomedical areas. The correct usage of the tools and data resources requires continuous training. Bench experimenters, medical professionals, industrialists are using Bioinformatics extensively, naturally, as their professions have become much more information based. As a subject, Bioinformatics is always evolving, so Bioinformaticians also need a somewhat different, tailored training to keep up. It is important that the methods are used correctly and that the results are properly judged for validity. This session is aimed at evaluating what is needed to better bridge these gaps, as provision of training is still insufficiently organized. We shall discuss what the needs are, where they come from and what need to make training available and easy to reach. Date: Thursday 28 October. (17:00-18:30) Place: Hotel Son Don Pablo. Sala Toledo. Chair: Pedro Fernandes, Instituto Gulbenkian de Ciência Program:

 

* Curso de genómica aplicada a la medicina Clínica. (Bioinformática y NanoMedicina).

Hospital Universitario Virgen de la Victoria. 27-28 octubre 2010. Date: Wednesday 27 October- Thursday 28 October 2010. Place: Hospital Universitario Virgen de la Victoria. More information: http://genomicaobn.webfactional.com/cursogenomica IMPORTANT: Inscripción Curso de Genómica Aplicada a la Medicina Clínica 2010 Málaga program: Coordinator: Allan Orozco

Complementary activities

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* INB Internal Session

Private session. INB members (technicians and coordinators) will discuss about the progress of the INB tasks and projects. Date: Tuesday 26 October . (11.00-14.30) Place: Hotel Son Don Pablo. Sala Segovia. Organizers: Allan Orozco, Jose María Fernández, Victoria Martín-Requena and Max García. Chair: Allan Orozco Program:

 

Detailed program (updated 15/10/2010)

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DAY before- Tuesday 26 October 2010

08:30 - 10:30	Registration and information desk
11:00 - 14:30	National Institute of Bioinformatics, Spain Internal session: INB-technicians Chairs: Allan Orozco, José María Fernández, Victoria Martín-Requena and Max García
13:00 - 19:30	I Spain, Portugal and North Africa Bioinformatics Student Symposium (NPS3Bio) Chairs: Pedro Lopez, Noura Chelbat, Lorena Pantano, Manuel Corpas, Allan Orozco
15:00 - 17:30	Registration and information desk

DAY 1- Wednesday 27 October 2010

08:00 - 09:00	Registration and information desk
08:30 - 09:00	Welcome and Opening Dra. Adelaida de la calle Martín Chancellor of the University of Malaga Sr. D. Francisco de la Torre Major of Málaga, Spain Sr. D. Pedro Fernández Montes Major of Torremolinos, Spain Dr. Alfonso Valencia  INB Director
09:00 - 10:00	Main lecture: Ivo GUT. Director National Genome Analysis Center Barcelona  Presentation: Dr. Alfonso Valencia. CNIO.
10:00 - 10:30	Coffee break
10:30 - 12:00	Session 1.1: Analysis of HT-NGS data Chair:Ana Conesa. Centro de Investigacion Principe Felipe. 10:30 Multivariate Methods for Genomic Data Integration and Visualization. Alex Sánchez, Ferrán Reverter, José Fernández-Real, Esteban Vegas, Francesc Carmona, Jacques Amar, Remy Burcelin, Matteo Serino, Francisco Tinahones, Eduardo García Fuentes, Antonio Miñarro and M. Carmen Ruíz de Villa. 10:50 Pyicos: A flexible tool library for analyzing Protein-Nucleotide interactions with mapped reads from deep sequencing. Juan González-Vallinas, Sonja Althammer and Eduardo Eyras 11:10 Genome-wide Association Studies Pipeline (GWASpi): a desktop application for genome-wide SNP analysis and management. Fernando Muñiz Fernández, Ángel Carreño Torres, Carlos Morcillo-Suarez and Arcadi Navarro 11:30 Differential expression in RNA-seq: a matter of depth. Sonia Tarazona, Fernando García-Alcalde, Joaquín Dopazo and Ana Conesa.
12:00 - 14:00	Session 1.2: Genomic projects design: success cases Chair: Victoriano Valpuesta. University of Málaga. The need of going fast in a complex genome Carmen Beuzón Getting Deeper into Primate Genomes. Tomás Marqués One stop shop for tomato genomics: the value of centralization. Toni Granell Brazilian Genomics activities in a nutshell Ana Tereza Vasconcelos How to sequence a plant genome with next generation sequencing technologies: the melon genome project Jordi García Mas Genomes and Genomics in Aquaculture Antonio Figueras International Cancer Genome Consortium Ivo Gut
14:00 - 15:00	Lunch
15:00 - 16:30	Session 1.3: Highlights of the year 1 Chair: Alberto Pascual. National Center for Biotechnology-CSIC. 15:00 Quantifying the relationship between sequence and three-dimensional structure conservation in RNA. Emidio Capriotti and Marc A. Marti-Renom 15:25 3D-footprint: a database for the structural analysis of protein-DNA complexes Bruno Contreras-Moreira 15:50 Optimization of multi-classifiers for computational biology: application to gene finding and expression Rocio Romero-Zaliz, Cristina Rubio-Escudero, Coral del Val Muñoz and Igor Zwir
16:30 - 17:00	Coffee break
17:00 - 18:30	Session 1.4: Open discussion on the bioinformatics challenges in personalized medicine Presentation: Alfonso Valencia. CNIO. Chairs: Jose Pereira-Instituto Gulbenkian de Ciencia, Fernando Martín- National Institute of Health "Carlos III".
18:30 - 20:00	Poster Session (1)
15:00 - 17:30	Parallel Session 1: Bioinformatics Software Developments in Spain and beyond Chairs: Jose María Fernández, J.R. Valverde, Victoria Martín-Requena , Max García and Allan Orozco.
19:00 - 19:30	Parallel Session 2: Status of the ELIXIR project Chairs: Alfonso Valencia and José Leal
20:00 - 23:00	Social event (TBC)

DAY 2- Thursday 28 October 2010

08:00 - 09:00	Registration and information desk (3)
09:00 - 10:00	Main lecture: Sarah Hunter. Group Leader Inter Pro Team; EMBL-EBI Hinxton Classification of uncharacterised sequences; challenges and considerations. Presentation: Dr. José María Carazo. Centro Nacional de Biotecnología.
10:00 - 10:30	Coffee break
10:30 - 12:00	Session 2.1: Tools and technologies for computational biology Chair: Joao Carriço. Faculdade de Medicina de Lisboa and INESC-ID. 10:30.A Holistic Approach for Integrating Genomic Variation Information Pedro Lopes and José Luis Oliveira 10:50. Toward an efficient integration of Yeast Data Abdelaali Briache, Kamar Marrakchi, Amine Kerzazi, Ismael Navas-Delgado, José F. Aldana Montes, Badr Din Rossi Hassani and Khalid Lairini  11:10. Anatomic Gene Expression Mapping, a Data Integration Platform Natalia Jiménez-Lozano, Joan Segura, José Ramón Macías, Juanjo Vega and José María Carazo 11.30. Understanding the plasticity of c-Src tyrosine kinase through mutagenesis and atomically detailed large-scale molecular dynamics simulations. Ralitza Boubeva, Andrea Cristiani, Lucile Pernot, Remo Perozzo, Ludovico Sutto, Leonardo Scapozza and Francesco Luigi Gervasio
12:00 - 14:00	Session 2.2: Highlights of the year 2 Chair: Ana Tereza Vasconcelos.  National Laboratory of Scientfic Computation. 12:00. "Dark Matter" Assessment in Protein Network Prediction and Modelling. JAG Ranea, Ian Morilla, Jon G Lees, Adam Reid, Corin Yeats,Andrew B Clegg, Francisca Sanchez-Jiménez and Christine Orengo 12:25. Torsional Network Model:Normal modes in torsion angle space better correlate with conformation changes in proteins Ugo Bastolla and Raul Mendez 12:50. jORCA and Magallanes sailing together towards Web Services Integration Victoria Martin-Requena, Javier Ríos and Oswaldo Trelles 13.15. Babelomics: an integrative platform for the analysis of transcriptomics, proteomics and genomic data with advanced functional profiling Ignacio Medina, Jose Carbonell, Luis Pulido, Sara Madeira, Stefan Goetz, Ana Conesa, Joaquin Tárraga, Alberto Pascual-Montano, Ruben Nogales-Cadenas, Javier Santoyo, Francisco García, Martina Marbà, David Montaner and Joaquin Dopazo
14:00 - 15:00	Lunch
15:00 - 16:45	Session 2.3: Short Oral Presentations (1) Chair: Sergio Deusdado. ESA Polytechnic Institute of Bragança. 15.00 GeNOTE: a web tool for annotation of non-model, eukaryotic, unfinished sequences Noé Fernández, Darío Guerrero, Rocio Bautista and M. Gonzalo Claros 15.15  Usefulness and applications of whole genome, single cytosine resolution methylation maps Michael Hackenberg, Pedro Bernaola, Pedro Carpena, Guillermo Barturen and José L. Oliver 15.30 A Structural Bioinformatics Platform for the Characterization of G Protein-Coupled Receptors David Rodríguez, Xabier Bello and Hugo Gutierrez de Teran 15.45 Combined use of gene networks and classifiers to characterize disease states Sara Aibar, Celia Fontanillo and Javier de las Rivas 16.00 Benchmarking for 3D Electron Microscopy Adrián Quintana, Carlos Oscar Sánchez Sorzano, Roberto Marabini and Jose María Carazo 16.15 iHOP web services family José María Fernández González, Robert Hoffmann and Alfonso Valencia Herrera
16:45 - 17:15	Coffee break
17:15 -18:45	Session 2.4: Options and Priorities in hands-on training in Spain and Portugal (Round Table) Chair: Pedro Fernándes. Instituto Gulbenkian de Ciência.
18:45 - 20:15	Poster Session 2
21:00 - 23:00	Gala Dinner

DAY 3- Friday 29 October 2010

08:00 - 09:00	Registration and information desk
09:00 - 10:00	Main lecture: Julio Saez Rodriguez.EMBL Outstation-Hinxton. European Bioinformatics Institute. Comparative logical models of signaling networks in normal and transformed hepatocytes. Presentation: Dra. Ana Teresa Freitas INESC-ID/IST Portugal.
10:00 - 10:30	Coffee break
10:30 - 12:00	Session 3.1: Short Oral Presentations 2 Chair: Toni Gabaldón. Center for Genomic Regulation (CRG). 10:30 PromoterSweep: a tool for identification of transcription factor binding sites Coral del Val, Oliver Pelz, Karl Heinz Glatting, Endre Barta and Agnes Hotz-Wagenblatt 10:45 Statistical significance for NGS reads similarities Antonio Muñoz, Javier Ríos, Hicham Benzekri and Oswaldo Trelles 11:00 Generation of Biopax Instances from Integrated Data María Jesús García-Godoy, Amine Kerzazi, Ismael Navas-Delgado and José F. Aldana-Montes. 11:15 An Ontology and a REST API for Sequenced Based Microbial Typing Data information Joao Almeida, Joao Tiple, Mário Ramirez, José Melo-Cristino, Cátia Vaz, Alexandre P. Francisco and Joao A. Carriço
12:00 - 12:30	Closure session

 

Detailed Posters Agenda (updated 21/10/2010)

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Poster Session 1. Wednesday 27th October, 18:00 - 19:30

Algorithms for computational biology and HPC

- Beyond sequencing and Future Trends. #57
Saadia Karbou

- Search and Validation of Microsatellite Markers in Olive Tree for the Analysis of Agronomical Traits. #78
Antonio Muñoz-Mérida, Juan J. González-Plaza, Inmaculada Ortiz-Martín, María C. Domínguez-García, Nieves Martín-Urdiroz, Conchi Díez-Muñoz, José F. Sánchez-Sevilla, Luis Rallo, Angjelina Belaj, Raúl De la Rosa, Oswaldo Trelles,Victoriano Valpuesta, Carmen R Beuzón.

- A genome browser for NGSmethDB, a database for high throughput, single cytosine resolution methylation data. #29
Guillermo Barturen, Michael Hackenberg and José L. Oliver

Sequence analysis, phylogenetics and evolution

- An evolutionary view of the DNA Damage Response. #23
Aida Arcas, Ildefonso Cases and Ana M Rojas

- HTML5 highly interactive web application for dynamic representation of results of alignments. #87
Ángela Paolino, Juan Falgueras

- Cis-HOUND: a tool for searching conserved regulatory sequences. #94
Antonio J. Pérez Pulido, Carla Sofia Lopes, Fernando Casares

- Strand bias in the clustering of DNA words in the human genome. #31
Antonio Rueda, Francisco Dios, Ricardo Lebrón, Michael Hackenberg and José L. Oliver

- An Evolutionary Conserved Membrane Receptor Notch-4 is Expressed in Estrogen Receptor Negative but not in Estrogen Receptor Positive Breast Cancer Cells. #1
Ayten Sever, Ayse Kevser Ozden-Piskin , Emine Kilic and Duygu Uckan

- Bioinformatic analysis of survival motor neuron (SMN) gene isoforms. #79
Carlos M. Guevara, Manuel M. Corredera, Pablo Mier Muñoz and Antonio J. Perez Pulido

- Highly conserved genomic regions of Lymphocytic Choriomeningitis Virus during lethal mutagenesis. #26
Daniel Aguilar, David Becerra Alonso and Ana Grande Perez

- Detection of divergent regions in aligned conserved sequences with AlignMiner. #6
Darío Guerrero, Rocío Bautista, David P. Villalobos, Francisco R. Cantón and M. Gonzalo Claros

- Comparative Genome Analysis of Mycobacterium sp(Mycobacterium Tuberculosis and other non tuberculosis Mycobacteria). #39
Fathiah Zakham, Lamiae Belayachi, Mohammed Akrim, Abdelaziz Benjouad, Dave Ussery, Rajae El Aouad and My Mustapha Ennaji

- A Plant Architecture Study in Olive Tree. #84
Juan J. González-Plaza, Inmaculada Ortiz-Martín, Antonio Muñoz-Mérida, Oswaldo Trelles, Eduardo R. Bejarano, Victoriano Valpuesta and Carmen R Beuzón.

- mtocDB: a community resource to study the evolution of microtubule organizing centers. #68
Marc R. Gouw, Zita Santos, Renato Alves, Filipe Tavares-Cadete, Joana Pinto, Neuza Matias, Juliette Azimzadeh, Keith Gull, Michel Bornens, Mónica Bettencourt-Dias and Jose B. Pereira-Leal

- Phylogenomics and the Evolution of Duplicated Genes in Drosophila species. #73
François Serra, Jaime Huerta-Cepas, Toni Gabaldón and Hernan Dopazo

- SporeDB - an evolutionary systems biology platform for functional and evolutionary studies of bacterial sporulation. #37
Renato J. Alves, Ana Abecassis, Mónica Serrano, Catarina Fernandes, Anabela L. Isidro, Adriano O. Henriques and Jose B. Pereira-Leal

- Phylogenetics in the genomics era: resources for phylome reconstruction and analysis. #89
Salvador Capella-Gutiérrez, Jaime Huerta-Cepas, Marina Marcet-Houben, Leszek P. Pryszcz, Ivan Denisov, Diego Kormes and Toni Gabaldón

- The mode of the distance between two leaves in a phylogenetic tree. #9
Arnau Mir and Francesc A. Rosselló

- MetaPhOrs: orthology and paralogy predictions from multiple phylogenetic evidence using a consistency-based confidence score. #97
Leszek P. Pryszcz, Jaime Huerta-Cepas and Toni Gabaldon

Structural Bioinformatics

- FTSZ and The Division of Prokaryotic Cells. #45
Almudena Perona, Coderch Claire, Chacón Pablo, Martín Galiano Antonio Javier, Oliva María Ángela, Schaffner Claudia, Andreu Jose Manuel, Gago Federico and Morreale Antonio

- Setting up a lipid bilayer for Molecular Dynamics simulations. #51
Almudena Pino-Ángeles, Aurelio A. Moya-García, Francisca Sánchez-Jiménez

- The relation between amino-acid substitutions in the interface of transcription factors and their recognized DNA motifs. #47
Alvaro Sebastian, Carlos P. Cantalapiedra and Bruno Contreras-Moreira

- Search for predisposed genes to breast cancer in the Moroccan population. A BRCA1 AND BRCA2 molecular genetic study. #92
Benaicha Soumia and Bouali Abderrahim

- 101DNA: a set of tools for Protein-DNA interface analysis. #48
Carlos Cantalapiedra, Álvaro Sebastián and Bruno Contreras-Moreira

- Virtual screening to discover synthetic inhibitors against Phospholipase A2 of Apis mellifera. #3
Daniel Macedo de Melo Jorge, Vinícius Barreto da Silva, Carlos Henrique Tomich de Paula da Silva, Silvana Giuliatti

- New drugs for new targets: Inhibiting the translation machinery of Plasmodium falciparum. #75
Eva Maria Novoa, Laia Cubells, Noelia Camacho, Alfred Cortés, Rob Hoen, Alba López, Miriam Royo, Lluis Ribas de Pouplana

- Docking studies for interactions of the antiangiogenic compound aeroplysinin-1 with key components of survival and proliferation biosignaling pathways. #59
María Jesús García Godoy, María Victoria Ruíz Pérez, Francisca Sánchez Jiménez, Ana R. Quesada and Miguel Ángel Medina

- An Automated Clustering Method to Detect Blocks of Amino-acid Used in the Structure of Protein Correlated by Function. #32
Milton Faria Jr.

- Virtual screenings and molecular properties calculations of new biologically active sulfonamide derivatives: POM as New Guide in Drug Design. #91
Zahid H. Chohan, Hazoor A. Shad, Moulay H. Youssoufi and Taibi Ben Hadda

- Synthesis of bioactive pyridazines. #85
Rafik Saddik, Zouheir Ghazi, Ouahiba Fadel and Nour-eddine Benchat

- Computational Evaluation of Experimental in vitro anti-HIV bioactivity by using a New POM Bioinformatic Model: Petra/ Osiris and Molinspiration. #83
Ibrahim El Mounsi, Mostafa Mimouni , Javed Sheikh , Ali Parvez and Taibi Ben Hadda

- Study of the involvement of GAPDH in the pathogenicity of Pseudomonas syringae: Biotechnological implications. #82
Bouchra Elkhalfi, Abdelaziz Soukri and Aurelio Serrano

- Structural and Physicochemical Peptide Properties and Dimensionality Reduction Representation in Binding Prediction. #55
Fadi A. Chakik, Ahmad M. Shahin, Walid H. Moudani and Zena Mida

Databases, Tools and technologies for computational biology

- Computational analysis and modeling of cleavage by the immunoproteasome and the constitutive proteasome. #90
Carmen M. Diez-Rivero, Esther M. Lafuente and Pedro A. Reche

 

Poster Session 2 Thursday 28th October, 18:15 - 19:45

System and synthetic biology

- Gene Regulatory Network Dynamics of Mus Musculus Mouse Eye Development Applying Hybrid Evolutionary Algorithm. #27
Daniel Aguilar, Antonio Córdoba and Ma Carmen Lemos

- A Flux Balance Approach to study the metabolic capability of endosymbiont bacteria. #80
Federico Morán, Miguel Ponce de León, Sara Vázquez, Daniela Xavier and Francisco Montero

- Synergistic effect of erythromycin on polymorphonuclear cell antibacterial activity against erythromycin-resistant phenotypes of Streptococcus pyogenes. #95
Giuliana Banche, Vivian Tullio, Valeria Allizond, Narcisa Mandras, Janira Roana, Daniela Scalas, Fadwa El Fassi, Sergio D'Antico, Anna Maria Cuffini and Nicola Carlone

- gSNOW: A set-enrichment based methodology to extract protein-protein interaction networks associated to specific phenotypes. #41
Luz Garcia-Alonso, Ignacio Medina, Alicia Amadoz, Roberto Alonso, Pablo Minguez and Joaquin Dopazo

- Dissecting signaling pathways to understand the consequences of gene expression changes. #5
Patricia Sebastian-Leon, Enrique Vidal, Ana Conesa, Sonia Tarazona, David Montaner and Joaquín Dopazo

- Effects of oxidative and nitrosative stress on the protozoan Tetrahymena thermophila. #81
Nadia. Errafiy and Abdelaziz. Soukri

Bioinformatics in Transcriptomics and proteomics

- Evolution of human transcriptome mapping and its influence in the expression signals detected by microarrays. #15
Alberto Risueño and Javier De Las Rivas

- Transcriptomic analysis of two strawberry (Fragaria x ananassa) cultivars determines key genes in response to Colletotrichum acutatum infection. #88
Amil-Ruiz F., Muñoz-Mérida A., Trelles O., Muñoz-Blanco J. and Caballero J L.

- Meta-analysis of transcriptomic profiles from mesenchymal stem cells and other related cell types. #16
Beatriz Rosón, Alberto Risueño, Consuelo del Cañizo, Fermín Sánchez-Guijo and Javier De Las Rivas

- Multidimensional Gene Set Analysis of Genomic Data. #8
David Montaner and Joaquín Dopazo

- Analysis of Microsatellites in Medicago truncatula Unigenes. #93
Fatima Gaboun, Sripada M.Udupa, Fouad Abbad Andaloussi, M. Ibriz and A. Soulaymani

- Possible sources of wrongly performing probes on Affymetrix GeneChipR Platforms. #76
Noura Chelbat, Ulrich Bodenhofer and Sepp Hochreiter

- Ranking Affymetrix microarray-based pre-processing methods. #10
J.P.Florido, M.G.Claros, H.Pomares and I.Rojas

- An extension of the Minimum Distance Probability Algorithm for Kernel-based Pattern Analysis. #44
Ferran Reverter, Esteban Vegas, Josep M. Oller and Martin Ríos

Databases, Tools and technologies for computational biology

- Integration and grouping of structural experimental data of RAS family in signaling pathways targeted in a database: SignaProt. #96
Ahmed El Amrani, Amina El Gonnouni, Amal Maurady, Jamal Brigui, Nabil Miled Faker Frikha

- BioData-SF: Step beyond integration. #13
Alfredo Martínez, Paul M.K. Gordon, Christoph W. Sensen and Oswaldo Trelles

- jsDAS: a javascript DAS client library. #62
Bernat Gel Moreno, Jose Villaveces and Rafael C. Jimenez

- Computational analysis and modeling of cleavage by the immunoproteasome and the constitutive proteasome. #90
Carmen M. Diez-Rivero, Esther M. Lafuente and Pedro A. Reche

- A Bioinformatics Platform for the Cork oak (Quercus suber) EST project. #56
Isabel Queirós Neves, Aleix Badia, Andreas Bohn, José B. Pereira-Leal

- Conceptual Study of Data Integration in Biomedicine. #58
Johan Karlsson, Maximiliano García and Oswaldo Trelles

- Friendly and extensible web platform for bioinformatics tools integration. #60
Jose Manuel Mateos, Alfredo Martínez and Oswaldo Trelles

- PseudomonasDW: an integrated database for Pseudomonas data. #71
Kamar Marrakchi, Abdelaali Briache, Amine Kerzazi, Ismael-Navas-Delgado, José F. Aldana-Montes, Khalid Lairini and Badr D. Rossi Hassani

- BBMS - Basic Bioinformatics Meta-searcher. #25
Márcio S. Carocho and Sérgio Deusdado

- Generation of Genomic Tools in Olive Tree for the Analysis of Agronomical Traits. #61
Maria C. Dominguez-García, Juan J. González-Plaza, Antonio Muñoz-Mérida, Oswaldo Trelles, Angjelina Belaj, Raúl De la Rosa, Victoriano Valpuesta and Carmen R Beuzón

- Using decision trees in the analysis of the concentration of tannins in Stryphnodendron adstringens. #38
Saulo França Amui, Ana Maria Soares Pereira and Silvana Giuliatti

- Using R in Tiki for Bioinformatics. #64
Xavier de Pedro and Alex Sánchez

- easyDAS: Automatic creation of DAS servers. #20
Bernat Gel Moreno, Andrew M. Jenkinson, Rafael C. Jimenez, Xavier Messeguer Peypoch and Henning Hermjakob

- Analizing human mutations from a disease perspective. #42
Eduard Porta, Ana Maria Rojas and Ildefonso Cases

- Multi-objective strategy for the prediction of bacterial sRNAs. #43
Javier Arnedo, Rocío Romero-Zaliz, Igor Zwir and Coral del Val Algorithms for computational biology (and HPC), 3 posters

- Collaborative action for the promotion of HPC applied to NGS. #77
Javier Ríos, Noura Chelbat, Antonio Muñoz-Mérida, Victoria Martín-Requena, Jose Manuel Mateos-Durán, Hicham Benzekri, Günter Klambauer, Ulrich Bodenhofer, Andreas Mayr, Andreas Mitterecker, Sepp Hochreiter and Oswaldo Trelles

- Defining the Plasticity of Transcription Factor Binding Sites by Deconstructing DNA Consensus Sequences: The PhoP-Binding Sites among Gamma/Enterobacteria. #50
Oscar Harari, Luis Miguel Merino and Igor Zwir

- A metric for galled networks. #22
Gabriel Cardona, Mercè Llabrès, and Francesc Rosselló