Bando FIRB 2003 Progetti strategici di ricerca per la costituzione, il potenziamento e la messa in rete di centri di alta qualificazione scientifica, pubblico-privati anche su scala internazionale (durata anni 4) Area Scientifica: 2A) BIOINFORMATICA Denominazione del laboratorio “LIBI: Laboratorio Italiano di Bioinformatica"

Tematiche del Bando Metodologie e piattaforme tecnologiche per la costruzione, il mantenimento e l’analisi di banche dati di interesse genomico e proteomico; Metodologie e piattaforme per la predizione e l’analisi di geni in genomi di vari organismi; Metodologie per lo sviluppo e il mantenimento di banche dati specializzate su: genomi di microorganismi e virus patogeni per uomo, animali e piante, geni esogeni in organismi OGM; Sviluppo e mantenimento di una banca dati sul ciclo cellulare.

Composizione del Laboratorio 8 Unità di Ricerca (UR) 4 UR tecnologiche: CINECA, INFN, SPACI/CACT-ISUFI, IBM Obiettivo: Progettare e realizzare la piattaforma tecnologica del LIBI 4 UR scientifiche: CNRBA, UNIBO, UNIMI, CBMTS Obiettivo: Indirizzare i contenuti e le funzionalità

Responsabilità e suddivisione temporale per ogni WP WP1: Analisi delle richieste e verifica dei risultati Responsabile: CNRBA Collaborano: TUTTI WP2: Realizzazione della Infrastruttura di Grid Responsabile: INFN Collaborano: CINECA, SPACI WP3: Creazione del Portale Responsabile: SPACI Collaborano: IBM, CINECA, INFN WP4: Federazione di Basi di Dati Responsabile: IMB Collaborano: SPACI, CINECA, INFN WP5: Creazione e integrazione dei Servizi Servizi Responsabile: CINECA Collaborano: SPACI, IBM

LIBI: a multi-disciplinary bioinformatic laboratory finalized on specialized scientific topics Technological transfer and dissemination to promote training and service providing in the bioinformatic domain Multidisciplinary collaboration to promote a proficient interaction among fundamental researchers, IT industry and end-users Boost the bioinformatics research at an (inter-)national level by: Maintenance and setting up of new, specialized genetic and protein databases Developing new bioinformatic algorithms Realizing and implementing new, effective, automated bioinformatic analysis processes and mechanisms High Performance Information Infrastructure to support high speed computing and high capacity storage in R&D

Specialized Tools and Middleware High Performance Infrastructure LIBI will supply a high focused research & dissemination virtual space on some bioinformatic areas consisting of several partners. These will supply their own infrastructures, will make use of the platform’s instruments and tools, will avail themselves of the other partners’ skill and competencies Scientific Board Director Academic Partners Pharma End-user Industry Clinical End-user Lab Front-end App 1 App 2 App3 App n Scientific Content Providers Tool B Tool D Tool A ToolE Tool C Knowledge & Infrastructure Specialized Tools and Middleware Genomic data Protein data Pharmacological data Biological data Document High Performance Infrastructure Laboratory Platform

Specialized IT services providers LIBI will be the better mix & match of advanced capabilities on bioinformatic area forming a true research supply-chain: from fundamental research to potential end-users A better organization and integration of fundamental researchers with pharmaceutical, clinical and IT research will address efforts toward effective pressures, will stimulate “Innovation” and will produce valuable R&D results collaboration + effective end-user targets + knowledge sharing = Increased Innovation Infrastructure Fundamental researchers CNR-ITB (BA-MI-RM) Universities (BO-MI-RM-BA) CGEB (Trieste) End-users Specialized IT services providers People People Knowledge Basic text slide

Specialized Tools and Middleware High Performance Infrastructure The LIBI platform should be a high performing infrastructure specialized on specific bioinformatic application areas End user Interface with support for: Simple query formulation Bioinformatic analyses (workflow process-enabled) Knowledge extraction Collaboration among end-users Lab Fromt-end App 1 App 2 App3 App n Tool B New and/or customized tools, mechanisms and processes to facilitate and automate R&D analyses and information extraction Tool D Tool A Tool E Tool C Service-oriented, process-oriented, integration-enabled middleware Specialized Tools and Middleware Genomic data Protein data Pharmacological data Biological data Document Customized, specialized, multi-domain data sources Scalable, secure Infrastructure High Performance Infrastructure

LIBI will supply a “center of excellence”, even at the worldwide level, on specific scientific “topics” (at most 2-3), covering the whole scientific chain Scientific Supply Chain Topics Main lab focus Tools Results Cell cycle regulation - transactivation activty of p53 gene family members Identification of p53 target genes by in silico and microarray approaches - Databases - Analysis algorithms and tools - DNA microarray Role of p53 family members target genes in physiological pathways and in human diseases 1 2