COMPUTATIONAL AND SYSTEMS BIOLOGY
Progetto Bandiera Nanomax: "Nanotechnology-based Diagnostics In Neurological diseases and Experimental oncology" (NADINE)
Activity time range: 2012
Project leader: Giovanni Felici
Source of funding: Ministry of Reserach

The present proposal covers key topics in innovative diagnostic tools for neurodegenerative diseases and oncology. In particular, the project will entails the development of a novel generation of diagnostic nanoparticles based on symmetrical polymeric proteins of the ferritin family (Ft-NPs) that have been genetically engineered in order to bear selective N-terminal peptide sequences (Short Linear Motifs, SLiMs). The platform of Ft-NPs will be exploited for the development of diagnostic/prognostic tests for neoplastic diseases comprising breast cancer, neuroblastoma, lung cancers, melanoma, hepatocellular carcinoma (HCC) and other malignant pathologies. Discovery, validation and technological application of easily accessible biomarkers for the diagnosis of neurological and neurodegenerative diseases will also be applied to Alzheimer’s, amyotrophic lateral sclerosis (ALS), spinocerebellar/episodic ataxia (SCA/EA), glioblastoma (GBM) and obesity. MicroRNAs, in particular, will be considered as novel diagnostic molecules in view of their central role in cell physiology and pathology. Likewise, analysis of cDNA derived from coding and non-coding RNAs obtained from blood plasma/serum and cells could be extremely useful to spot mutations and SNPs of expressed genes, avoiding the much more expensive whole genome sequencing.  


Study of determinants of secondary and primary resistance to antiretrovirals to support control strategies of HIV-1 transmission
Activity time range: 2014
Project leader: Giovanni Felici
Source of funding: CNR

This project will obtain data from the nationwide ARCA (Antiretroviral Resistance Cohort Analysis) database, presently including 27,445 patients of whom 4,416 subjects naïve for therapy. The collaboration of 7 different Units nationwide will address the following issues: i) the evaluation of HIV-1 resistance to antiretrovirals of all available classes, both in naive and treated infected individuals (primary and secondary resistance, respectively) in a retrospective (2003-2012) and prospective (2013-2015) study; ii) the estimate of the proportion of failing patients as potential transmitters of infection and resistant strains. Mathematical models will be used to predict the future scenarios of HIV-1 resistance, to design interventions, evidence-based and tailored on the epidemiological situation, conceived to control the epidemic in Italy


SysBioNet - infrastruttura di ricerca per la System Biology
Activity time range: 2012
Project leader: Pasquale Palumbo
Source of funding: Ministry of Reserach

SYSBIO.IT – Centro di Systems Biology”, è un’Infrastruttura di Ricerca (IR) “open access” distribuita sul territorio italiano e focalizzata sulla ricerca nell’ambito della Systems Biology, il nuovo paradigma per lo studio delle Scienze della Vita, che incrocia analisi molecolare, anche genome-wide, con la modelizzazione matematica ed analisi di simulazione. SYSBIO.IT è finanziato dal MIUR nell’ambito della roadmap italiana per le IR, ed opera grazie all’accordo tra CNR e l’Università di Milano-Bicocca.

SYSBIO.IT è focalizzata sulla Systems Biology del metabolismo del mitocondrio, e le sue connessioni con i processi di crescita e ciclo cellulare, ovvero di morte cellulare, meccanismi molecolari implicati nel cancro e nella neurodegenerazione.

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Progetto Bandiera EPIGEN
Activity time range: 2015 - 2018
Project leader: Paola Paci
Source of funding: Ministry of Reserach

Questa nuova proposta, oggetto di un ri-finanziamento, nasce come complemento delle ricerche originariamente proposte dall’unità IASI-CNR e attualmente in corso  di svolgimento nell’ambito del progetto EPIGEN (SP2-WP5) il cui finanziamento riguarda gli anni 2012-2015. In particolare, due ulteriori obiettivi si aggiungono a integrare quelli originariamente prefissati: i. lo sviluppo di un software per l’identificazione di una speciale sotto-categoria di geni differenzialmente espressi tra due condizioni cellulari a confronto che sono stati per la prima volta caratterizzati in [Palumbo et al. 2014] in Vitis Vinifera; ii. lo sviluppo di una piattaforma di servizi e soluzioni analitiche integrate per la gestione e il trattamento di ``Big Data” genomici di interesse bio-clinico. 

Palumbo, MC, Zenoni S, Fasoli M, Massonnet M, Farina L, Castiglione F, Pezzotti M, and Paci P (2014) The Plant Cell, 26(12), 4617-4635.

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InterOmics
Activity time range: 2012 - 2015
Project leader: Paola Bertolazzi
Source of funding: Ministry of Reserach

 

Development of an integrated platform for the application of "omic" sciences to biomarker definition and theranostic, predictive and diagnostic profiles. The project will develop expertise for the whole supply chain of "omic" sciences, with particular focus on genomics, proteomics, bioinformatics and systems biology. 

The project aims at developing applications focusing on:
• bioinformatics and systems biology;
• virology;
• medical clinic and oncology;
• dynamics of bacterial, yeast and protozoan infections;
• identification of novel molecular biomarkers

"Omic" sciences, including genomics, epigenomics, proteomics, bioinformatics and systems biology, are the paradigm biomedical and life sciences research revolves around.
The project aims at developing:
• novel bioinformatics methods for the integration and management of 'omics' data and for the innovation of knowledge in medical clinic and biotechnology.
• novel methods and models for the integration of genomics data (human, eukaryotic, bacterial and viral) with biochemical, physiological and clinical data

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