From | 2010-10-09 |
To | 2010-10-11 |
Course | This 2-day course will introduce the basics concepts of a “network”, and how this is used to describe biological processes occurring within the cell, in the framework of Systems Biology. The course will be particularly focused on teaching participants how to use “reverse-engineering” computational algorithms to analyze large-scale experimental data, such as gene expression profiles, to identify the gene regulatory network in which a gene of interest is embedded. Participants will learn how to use state-of-the-art reverse engineering methods based on Bayesian Networks, Mutual Information and Differential Equations. The course is aimed at participants with a biological, or computational background. For biologists ,it will provide an understanding of the theory and practical application of systems biology in order to help them use these news tools in their research. For participants from engineering, physics, mathematics, informatics and related sciences, it will provide a thorough understanding of both the biological and computational aspects of reverse-engineering, with direct application to the analysis of biological data. |
Venue | Bologna (Italy) - EuroMediterranean University Centre of Ronzano |
Directors | Diego di Bernardo ( Naples, Italy) |
Speakers | D. di Bernardo ( Naples, Italy) V. Belcastro ( Naples, Italy) F. Iorio ( Naples, Italy) A. Honkela ( Helsinki, Finland) N. Lawrence ( Manchester, UK) S. Lebre ( Strasbourg, France) |
Programme | 9 October, 2010 Lectures: 14:00 – 15:00 D. di Bernardo Theory: Introduction to Biological Networks 15:00- 15:30 Coffee Break 15:30 – 16:30 D. Di Bernardo Theory: Introduction to Reverse Engineering approaches Afternoon Workshops: 16:30-18:30 V. Belcastro and R. Iorio: Computer Lab Practice: Using reverse-engineered networks to understand gene function, drug mode of action and for gene signature analysis. 10 October, 2010 Lectures : 9:30 – 10:30 S. Lebre:Reverse engineering genetic networks using dynamic Bayesian networks 10:30- 11:00 Coffee Break 11:00 – 12:00 S. Lebre : Recovering the time-varying structure of gene-regulation 12:00 – 13:00 N. Lawrence: Bayesian approaches to transcription factor target identification 13:00 – 14:30 Lunch Afternoon Workshops: 14:30- 15:30 N. Lawrence and A. Honkela Theory: Bayesian approaches to transcription factor target identification 15:30 – 18:30 N. Lawrence , S. Lebre, A. Honkela Computer Lab Practice: R packages to reverse-engineer gene networks from gene expression data using Bayesian Networks and for Transcription Factor Target identification 11 October, 2010 Lectures: 9:30 – 10:30 F. Iorio : Reverse Engineering using Differential Equations 10:30- 11:00 Coffee Break 11:00 – 12:00 V. Belcastro : Reverse Engineering using Mutual Information 12:00 – 13:00 V. Belcastro Computer Lab Practice: How to use ARACNE to reverse-engineer gene networks from gene expression data 13:00 – 14:00 Lunch Afternoon Workshop: 14:00- 15:00 F. Iorio Computer Lab Practice: How to use NIR/TSNI to reverse-engineer gene networks from gene expression data Departure
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