References of "Vujasinovic, Todor"
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See detailIn Silico Dynamic Molecular Interaction Networks for the Discovery of New Therapeutic Targets
Vujasinovic, Todor; Zampera, André Sinisa; Jackers, Pascale ULg et al

in Current Pharmaceutical Design (2010), 16(20), 2241-2251

Systems biology has emerged as a major trend in biological research during the past decade. As living organisms are described in more and more detail, it aims at filling the gap between understanding ... [more ▼]

Systems biology has emerged as a major trend in biological research during the past decade. As living organisms are described in more and more detail, it aims at filling the gap between understanding basic molecular processes and complex biological systems in which new properties often emerge from the combination of these elementary processes. This approach culminates in the development of computer-based mathematical models of physiological and pathophysiological processes. We review the state of the art in dynamic modelling, with emphasis on two complementary approaches: the modelling of small systems that is mostly developed by academic teams and aims at understanding generic biological properties, and the modelling of large systems that is mostly implemented by industrial companies and aims at the generation of new therapeutic strategies. We also provide an example of such large-scale modelling applied to the identification of drug targets for neurodegeneration. [less ▲]

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See detailDeveloping predictive dynamic models of complex intracellular networks for neurological disease
Vafiadaki, Elizabeth; Depaulis, Antoine; Jackers, Pascale ULg et al

in FEBS Journal (2008, June 28), 275(Issue s1), 206

Introduction: VALAPODYN, a European Commission funded research network, is an original systems biology approach for the development of an innovative model on the dynamics of molecular interaction networks ... [more ▼]

Introduction: VALAPODYN, a European Commission funded research network, is an original systems biology approach for the development of an innovative model on the dynamics of molecular interaction networks (MIN) in relation to cell death and survival for the detection of new therapeutic targets for human neurological diseases. To this end, a comprehensive multidisciplinary strategy has been established combining functional genomics, proteomics and bioinformatics. Methods and Results: Using a mouse model of induced hippocampal sclerosis associated with focal epilepsy, dynamic expression analyses are conducted at different time points. Proteomic databases are being used along with advanced microarray and proteomics platform systems to investigate protein-protein interactions and regulation networks, identify and validate biological targets in complex intracellular pathways. The first phase involves whole genome and proteome analysis, integrating biological and statistical data in order to functionally annotate genes and proteins. Using Affymetrix microarrays, 2D-DIGE and MALDI/TOF-TOF, we are evaluating whole genome and proteome expression profiles bringing to light critical new pathways and molecular targets implicated in neurodegeneration. Discussion: VALAPODYN develops a dynamic and quantitative analysis method for new therapeutic targets through MIN dynamic models and specifically addresses the systems biology of complex cellular pathways and transcriptional networks. Novel predictive dynamic models will be validated by testing the selected drug targets on innovative in vivo and in vitro models of CNS pathologies. VALAPODYN will provide a cutting-edge highly accurate in silico tool for identifying novel and effective therapeutic targets in a faster, more efficient and more economical way than it is possible today. [less ▲]

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See detailVALAPODYN: Validated Predictive Dynamic Model of Complex Intracellular Pathways Related to Cell Death and Survival
Depaulis, Antoine; Vafiadaki, Elizabeth; Jackers, Pascale ULg et al

in European Journal of Human Genetics (2007, June 16), 15(Supp 1), 307

VALAPODYN is a research network funded by the European Commission (6th Framework Program) which is developing an original systems biology approach focused on the development of multidisciplinary ... [more ▼]

VALAPODYN is a research network funded by the European Commission (6th Framework Program) which is developing an original systems biology approach focused on the development of multidisciplinary functional genomics related to complex biological processes and cellular networks. The aim is to generate an innovative approach to model the dynamics of molecular interaction networks (MIN) in relation to cell death and survival to detect new therapeutic targets to treat human brain diseases. The project consists of fundamental genomics research which is integrating statistical data analysis with real biological data in order to functionally annotate genes and proteins. Specialized genomics and proteomics databases for MIN modeling are being used along with leading microarray and proteomics platform systems to investigate protein-protein interactions and regulation networks. This will help to identify and validate biological targets in complex intracellular pathways to cure multifactorial diseases. Dynamic modeling specifically addresses the systems biology of complex cellular pathways and transcriptional networks. The novel dynamic models will be validated by testing the selected drug targets on innovative in vivo and in vitro models of CNS pathologies. As opposed to most current biological data analysis methods, VALAPODYN develops a dynamic and quantitative analysis method for new therapeutic targets through MIN dynamic models. It will provide a cutting-edge highly accurate in silico tool for identifying novel and effective therapeutic targets in a much faster, more efficient and more economical way than it is possible today. (www.valapodyn.eu). [less ▲]

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