Scientific Programme Overview

NETTAB 2012 will include keynote lectures given by leading experts in the field, oral communications from selected contributions, open discussion, selected software demonstrations and posters, as well as tutorials.

Wednesday, November 14, 2012
09:00 - 10:45	Tutorial 1 Multi-scale data integration and virtual exploration from promoters, through networks to drug targets Alexander Kel, GeneXplain GmbH, Wolfenbüttel, Germany, and Biosoft.ru, Skolkovo Center of Bioinformatics, Novosibirsk, Russia
10:45 - 11:15	Break
11:15 - 13:00	Tutorial 2 The Taverna Workbench: Integrating and analysing biological and clinical data with computerised workflows Katy Wolstencroft, School of Computer Science, University of Manchester, United Kingdom
13:30 - 14:20	Registration and poster hang-up
14:20 - 14:30	Welcome and Introduction
14:30 - 15:10	Invited lecture Integration and analysis of multi-type high-throughput data for biomolecular knowledge discovery Erik Bongcam-Rudloff, Swedish University of Agricultural Sciences, and Uppsala University, Sweden
15:10 - 15:50	Scientific Session 1 Using graph theory to analyze gene network coherence Francisco Gómez-Vela, Norberto Díaz-Díaz, Jose Antonio Lagares, Jose Antonio Sánchez and Jesús Aguilar-Ruiz Network-based gene-disease prioritization using PROPHNET Víctor Martínez, Carlos Cano and Armando Blanco
15:50 - 16:20	Coffee break
16:20 - 18:15	Scientific Session 2 Rational design of organelle compartments in cells Claudio Angione, Giovanni Carapezza, Jole Costanza, Pietro Lio' and Giuseppe Nicosia Filtering with alignment free distances for high throughput DNA reads assembly Maria Cristina De Cola, Giovanni Felici, Daniele Santoni and Emanuel Weitschek A strategy to reduce technical variability and bias in RNA sequencing data Francesca Finotello, Enrico Lavezzo, Luisa Barzon, Paolo Mazzon, Paolo Fontana, Stefano Toppo, Barbara Di Camillo Applications of a generic model of genomic variations functional analysis Sarah N. Mapelli, Uberto Pozzoli The Biovel project: robust phylogenetic workflows running on the Grid Saverio Vicario, Bachir Balech, Giacinto Donvito, Pasquale Notarangelo, Graziano Pesole Ranking-aware integration and explorative search of distributed bio-data Marco Masseroli, Matteo Picozzi and Giorgio Ghisalberti Development of a text search engine for medicinal chemistry patents Emilie Pasche, Julien Gobeill, Fatma Oezdemir-Zaech, Therese Vachon, Christian Lovis and Patrick Ruch
Thursday, November 15, 2012
08:30 - 09:00	Registration and poster hang-up
09:00 - 09:40	Invited lecture Semantics based biomedical knowledge search, integration and discovery Barend Mons, Leiden University Medical Center, and Netherlands Bioinformatics Center, The Netherlands
09:40 - 10:20	Scientific Session 3 Answering Gene Ontology terms to proteomics questions by supervised macro reading in Medline Julien Gobeill, Emilie Pasche, Douglas Teodoro, Anne-Lise Veuthey and Patrick Ruch IntelliGenWiki: An Intelligent Semantic Wiki for Life Sciences Bahar Sateli, Marie-Jean Meurs, Gregory Butler, Justin Powlowski, Adrian Tsang and René Witte
10:20 - 12:00	Poster and Demo Session with Coffee Break
12:00 - 13:00	Industrial - Technological Session Extracting knowledge from biomedical data through Logic Learning Machines and Rulex Marco Muselli Data modeling: the key to biological data integration François Rechenmann GeneGrid: finding disease causing variants in NGS data Jochen Supper, Claudia Gugenmus, Korbinian Grote and Frederic Eyber
13:00 - 14:00	Lunch Break
14:00 - 15:30	Panel Discussion Technological and methodological challenges for Integrated Bio-Search Erik Bongcam-Rudloff, Barend Mons, Eric Neumann, Alexander Kel, François Rechenmann, and Stefano Ceri introduce the topic, then open discussion follows
15:30 - 19:30	Guided tour of Como and of the Educational Silk Museum of Como
20:30 - 23:00	Social Dinner
Friday, November 16, 2012
09:00 - 09:40	Invited lecture Clinical and genomic data integration in support of biomedical research and clinical practice Eric Neumann, PanGenX and Clinical Semantics Technologies, USA
09:40 - 10:40	Scientific Session 4 ROCK: a resource for integrative breast cancer data analysis Marketa Zvelebil, Costas Mitsopoulos and Saif Ur-Rehman QTreds: a flexible LIMS for omics laboratories Piergiorgio Palla, Gianfranco Frau, Laura Vargiu and Patricia Rodriguez-Tomé The open source ISA software suite and its international user community: knowledge management of experimental data Alejandra Gonzalez-Beltran, Eamonn Maguire, Philippe Rocca-Serra and Susanna-Assunta Sansone
10:40 - 11:10	Coffee break
11:10 - 12:30	Scientific Session 5 The ontogene system: an advanced information extraction application for biological literature Fabio Rinaldi A semantic collaborative system for the management of translational research projects Matteo Gabetta, Giuseppe Milani, Cristiana Larizza, Valentina Favalli, Eloisa Arbustini and Riccardo Bellazzi BioQuery-ASP: querying biomedical databases and ontologies using Answer Set Programming Esra Erdem and Umut Oztok DiGSNP: a web tool for Disease-Gene-SNP hierarchical prioritization Carmen Navarro, Carlos Cano, Armando Blanco and Fernando García
12:30 - 13:00	Announcement of NETTAB 2013 and Farewell

       
For detailed information, see the speakers page.

• Integration and analysis of multi-type high-throughput data for biomolecular knowledge discovery
  Erik Bongcam-Rudloff, Department of Animal Breeding and Genetics, Swedish University of Agricultural Sciences, and Department of Immunology, Genetics and Pathology, Uppsala University, Sweden
• Semantics based biomedical knowledge search, integration and discovery
  Barend Mons, Leiden University Medical Center, Leiden, The Netherlands, and Netherlands Bioinformatics Center, The Netherlands
• Clinical and genomic data integration in support of biomedical research and clinical practice
  Eric Neumann, CTO, PanGenX and CEO, Clinical Semantics Technologies, United States of America

   
For detailed information, see the tutorials page.

• Multi-scale data integration and virtual exploration from promoters, through networks to drug targets
  Alexander Kel, GeneXplain GmbH, Wolfenbüttel, Germany, and Biosoft.ru, Skolkovo Center of Bioinformatics, Novosibirsk, Russia
• The Taverna Workbench: Integrating and analysing biological and clinical data with computerised workflows
  Katy Wolstencroft, School of Computer Science, University of Manchester, United Kingdom

For detailed information, see the oral communicatons page.

For detailed information, see the posters page.

For detailed information, see the presentations page.

For detailed information, see the video recordings page.

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