We have the pleasure to announce the 1° Bioinformatics, Computational Biology and System Biology Lombardy Day (BioLom 2013).

The Meeting is a forum to discuss interesting experiences and various research projects and their results from research groups working in the Bioinformatics, Computational Biology and System Biology fields in Lombardy.
Its aim is also to divulgate Bioinformatics and Computational Biology among students and interested people.

You are invited to participate!

When and where

The event will be held on Wednesday, Novemberthe 27th, 2013 at Politecnico di Milano, in room 'De Donato'.
Here you can find the detailed information on how to reach the location.

How to contribute

People who would like to present their work can send a proposal to Marco Masseroli (Politecnico di Milano) and Luciano Milanesi (Istituto di Tecnologie Biomediche, CNR)
(please, indicate [BioLom] in the email subject).

Registration

Attendance is free of charge.
To organize the meeting at best, we kindly ask you to register by filling the following form
(provided data will be used only to send you information about this event).

Scientific and Organizing Committee

Marco Masseroli, Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan - Italy
Luciano Milanesi, Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

Useful information

Location map

List of nearby restaurants

WiFi Internet access will be available only for people with an Eduroam account.
Such accounts will not be provided by the BioLom 2013 Organizing Committee: you need to contact your Institution to get an Eduroam account.

Program

9.00 - 9.10

Opening

Marco Masseroli¹, Luciano Milanesi²

¹ Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy

² Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

I Session (9.10-10.30) - Computational Bioinformatics I

9.10 - 9.30

ASPicDB-next: an NGS development of a database of alternative splicing events

Stefano Beretta, Paola Bonizzoni, Gianluca Della Vedova, Yuri Pirola, Marco Previtali, Raffaella Rizzi

Department of Informatics, Systems and Communication, University of Milan-Bicocca, Milan, Italy

9.30 - 9.50

New software for NGS data analysis

Ivan Merelli, Stefano Beretta, Ivan Kel, Luciano Milanesi

Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

10.10 - 10.30

Latent Semantic Analysis to predict novel Gene Ontology annotations

Pietro Pinoli, Marco Masseroli

Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy

Coffe break (10.30-11.00)

II Session (11.00-12.40) - Computational Bioinformatics II

11.00 - 11.20

Bio-SeCo & GPDW: Bio Search Computing & Genomic and Proteomic Data Warehouse

Fernando Palluzzi, Arif Canakoglu, Davide Chicco, Stefano Ceri, Marco Masseroli

Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy

11.20 - 11.40

Enabling analytical approaches in modern genome browsers: A plugin for mapping and visualizing mutations in protein-protein interaction structures

Arnaud Ceol, Heiko Muller

Center for Genomic Science of IIT@SEMM, Istituto Italiano di Tecnologia (IIT), Milan, Italy

11.40 - 12.00

A Web Portal for Hepatocellular Carcinoma study data management

Roberta Alfieri, Matteo Gnocchi, Marco Moscatelli, Ettore Mosca, Luciano Milanesi

Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

12.00 - 12.20

DOTS-Finder: a new functional and statistical method for assessing driver genes in cancer genomes

Giorgio EM Melloni¹, Alessandro GE Ogier², Luca Mazzarella², Pier Giuseppe Pelicci², Laura Riva¹

¹ Center for Genomic Science of IIT@SEMM, Istituto Italiano di Tecnologia, Milan, Italy

² Department of Experimental Oncology, European Institute of Oncology, Milan, Italy

12.20 - 12.40

Long Molecular Dynamics on GPUs infrastructure establish key residues and the binding mode of the inhibitors of the phosphodiesterase superfamily

Pasqualina D’Ursi, Alessandro Orro, Gabriele Trombetti, Luciano Milanesi

Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

Lunch (12.40-14.00) - On your own, around Piazza Leonardo da Vinci

III Session 14.00-15.40 - Computational Bioinformatics and System Biology

14.00 - 14.20

Inferring causal models of cancer progression with a shrinkage estimator and probability raising

Loes Olde Loohuis¹, Giulio Caravagna², Alex Graudenzi², Daniele Ramazzotti², Giancarlo Mauri (2), Marco Antoniotti (2), Bud Mishra (3)

¹ Department of Computer Science City University New York, The Graduate Center New York, USA

² Department of Informatics, Systems and Communication, University of Milan-Bicocca, Milan, Italy

³ Courant Institute of Mathematical Sciences New York University New York, USA

14.20 - 14.40

Investigating the relation between stochastic differentiation and homeostasis in intestinal crypts via multi-scale modeling

Alex Graudenzi¹, Giulio Caravagna (1), Giovanni De Matteis², Marco Antoniotti¹

¹ Department of Informatics, Systems and Communication, University of Milan-Bicocca, Milan, Italy

² Department of Mathematics and Information Sciences, Northumbria University, Newcastle, UK

14.40 - 15.00

An ensemble evolutionary constrained-based approach to understand the emergence of metabolic phenotypes

Chiara Damiani, Riccardo Colombo, Sara Molinari, Dario Pescini, Marco Vanoni, Lilia Alberghina, Giancarlo Mauri

Dipartimento di Statistica e Metodi Quantitativi, Università degli Studi di Milano-Bicocca, Milan, Italy

15.00 - 15.20

System biology of cell cycle progression in yeast

Lilia Alberghina, Pasquale Palumbo, Elena Sacco, Stefania Brocca, Marco Vanoni

SYSBIO Centre for Systems Biology, Milan, Italy

Dipartimento di Biotecnologie e Bioscienze, Università di Milano-Bicocca, Milan, Italy

IASI-CNR, Viale Manzoni 30, Rome, Italy

15.20 - 15.40

Integrating Genetic Variants within the i2b2 Framework: the NoSQL way

Matteo Gabetta¹, Ivan Limongelli¹, Ettore Rizzo¹, Daniele Segagni², Riccardo Bellazzi¹

¹ Biomedical Informatics Labs 'Mario Stefanelli', Department of Electrical, Computer and Biomedical Engineering, University of Pavia, Italy

² IRCCS Fondazione Salvatore Maugeri Hospital, Lab of Computer and Systems engineering for Clinical Research, Pavia, Italy

Coffe break (15.40-16.10)

IV Session 16.10-17.50 - Group activities and Panel discussion

Bioinformatics regional perspectives

Luciano Milanesi

Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

Marco Masseroli

Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy

Riccardo Bellazzi

Dipartimento di Ingegneria Industriale e dell'Informazione, University of Pavia, Pavia, Italy

Giorgio Valentini

Dipartimento di Informatica, Universita' degli Studi di Milano, Milan, Italy

Heiko Muller

Center for Genomic Science of IIT@SEMM, Istituto Italiano di Tecnologia (IIT), Milan, Italy

Giancarlo Mauri

Dipartimento di Informatica, Sistemistica e Comunicazione, Università degli Studi di Milano-Bicocca, Milan, Italy

17.50 - 18.00

Closing

Luciano Milanesi¹, Marco Masseroli²

¹ Istituto di Tecnologie Biomediche, CNR, Segrate (Milan), Italy

² Dipartimento di Elettronica, Informazione e Bioingegneria, Politecnico di Milano, Milan, Italy

© Marco Masseroli, PhD masseroli@elet.polimi.it