Bioinformatics Summer School in Erice (Italy)

September 8-16, 2010

9.30 – 9.45      Welcome

Chair: Elia Biganzoli

9.45–10.45      Salvatore Gaglio Hybrid and Meta-Level Computational Architectures for Intelligent Systems

Chair: Roberto Tagliaferri

14.30–15.30    Elia Biganzoli Biostatistical Methods for Bioinformatics

15.30–16.30    Alfredo Ferro Exact and Inexact Subgraph Matching in Large Databases of Graphs

16.30–17.00    Coffee Break

17.00–17.10    Carlo Morabito (in honor of Maria Marinaro) Maria Marinaro: How I Remember Her

17.10–17.20    Sportelli Tecla Rossana (in honor of Vito Di Gesù) A Memory of Vito in Erice

17.20–18.10    Giosué Lo Bosco Machine Learning Methods for Nucleosome Positioning 

19.00–21.30    Dinner

Friday September 10, S. ROCCO ROOM

Chemoinformatics 

Chair: Panos Pardalos

9.00–11.00      Pierre Baldi Introduction to Chemoinformatics and Drug Discovery

11.00–11.30    Coffee Break

11.30–12.30    Irene Kouskoumvekaki Virtual Screening Methods in Drug Discovery 

12.30–14.30    Lunch 

Chair: Burkhard Rost

14.30–15.30    Pierre Baldi Compressing and Searching Data: from Molecules to Genomes

15.30–16.30    Irene Kouskoumvekaki Systems Chemical Biology

16.30–16.50    Coffee Break

16.50–17.50    Panos Pardalos Global Optimization in Biomedicine

17.50–18.50    Carlo Vercellis  Discrete Support Vector Machines and their Applications in Bioinformatics 

19.00–21.30    Dinner

Saturday September 11, S. ROCCO ROOM

Proteomics 

Chair: Pierre Baldi

9.00–11.00      Burkhard Rost Overview: Evolution Teaches Protein Prediction

11.00–11.30    Coffee Break

11.30–12.30    Gianluca Pollastri Machine Learning Methods for Protein Structure Prediction 

12.30–14.30    Lunch 

Chair: Gianluca Pollastri

14.30–15.30    Piero Fariselli  Prediction of Protein Interaction Sites from 3D Structures

15.30–16.30    Panos Pardalos Some Recent Developments in Proteomics

16.30–16.50    Coffee Break

16.50–17.50    Burkhard Rost The International Society for Computational Biology 

18.00 – 19.00  Joint Session in San Domenico Room

                      Speaker: Eilon Solan

                      Title: Game Theory: from Nash to Shapley

19.00–21.30    Dinner

Sunday September 12: Daily Trip 

Monday September 13, S. ROCCO ROOM

Genomics 

Chair: Paolo Frasconi

9.00–11.00      Gunnar Raetsch Introduction to Genomics and Predictive Sequence Analysis

11.00–11.30    Coffee Break

11.30–12.30    Pierre Baldi Mapping Regulatory Networks and Immune Responses on a Genome Wide Scale 

12.30–14.30    Lunch 

Chair: Gunnar Raetsch

14.30–15.30    Jean-Philippe Vert Segmentation and Classification of Genomic Profiles

15.30–16.30    Gianluca Pollastri Functional Genomics: Ab Initio Protein Function Prediction

16.30–16.50    Coffee Break

16.50–17.50    Paolo Frasconi Introduction to Statistical Relational Learning 

18.00–19.00    Joint Session in San Domenico Room

                      Speaker: Aldo Frediani

                      Title: New Perspective on “Variational Analysis and Aerospace Engineering”

19.00–21.30    Dinner

Tuesday September 14, S. ROCCO ROOM

Systems Biology 

Chair: Jean-Philippe Vert

9.00–11.00      Søren Brunak Systems Biology by Data Integration

11.00–11.30    Coffee Break

11.30–12.30    Gunnar Raetsch Deep Sequencing for Functional Genomics

12.30–14.30    Lunch

Chair: Michal Rozen Zvi

14.30–15.30    Jean-Philippe Vert Reconstruction of Biological Networks

15.30–16.30    Søren Brunak Phenotype-Specific Disease Gene Finding

16.30–16:50    Coffee Break

16.50–17.50    Søren Brunak Mapping Clinical Patient Record Data from the Healthcare Sector onto Systems Biology Frameworks

18.00–19.00    Joint Session in San Domenico Room

                      Speaker: Pierre Baldi

                      Title: Unsupervised Learning, Deep Architectures, and Autoencoders

20.00–23.00    Social Dinner

Wednesday September 15, S. ROCCO ROOM

Systems Biology 

Chair: Paolo Frasconi

9.00–11.00      Michal Rozen Zvi  Machine Learning Tools for Delivering Personalized, Omic-Based, Healthcare: HIV as a Case Study

11.00–11.30    Coffee Break

11.30–12.30    Jean-Philippe Vert Predictive Models in Cancer Informatics

12.30–14.30    Lunch

Chair: Pierre Baldi

14.30–15.30    Paolo Frasconi Applications of Statistical Relational Learning to the Prediction of Protein Beta Partners and Metal Binding Sites

15.30–16.00    Philipp Drewe Statistical Tests for Detecting Differential RNA-Transcript Expression from Read Counts

16.00–16.30    Susanne Balzer Machine Learning Approaches in Pyrosequencing

16.30–16:50    Coffee Break