Research Topics
| Paolo MagniSummaryAffiliation: University of Pavia Country: Italy Publications
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Detail Information
Publications
Inferring gene expression networks via static and dynamic data integrationFulvia Ferrazzi
Dipartimento di Informatica e Sistemistica, , Italy
Stud Health Technol Inform 124:119-24. 2006..The proposed approach was able to reconstruct known relationships among genes and to provide meaningful biological results...
A minimal model of tumor growth inhibition in combination regimens under the hypothesis of no interaction between drugsP Magni
Dipartimento di Ingegneria Industriale edell Informazione, Universita degli Studi di Pavia, Pavia, Italy
IEEE Trans Biomed Eng 59:2161-70. 2012..Under suitable assumptions on the cell death process, the model reduces to a lumped parameter model that represents the extension of the very popular Simeoni TGI model to the combined administration of noninteracting drugs...
The two tryptophans of β2-microglobulin have distinct roles in function and folding and might represent two independent responses to evolutionary pressureSara Raimondi
Department of Biochemistry, University of Pavia, via Taramelli 3b, 27100 Pavia, Italy
BMC Evol Biol 11:159. 2011..Therefore, based on the peculiar differences of the two tryptophans, we have analysed the evolution of β2-microglobulin with respect to these residues...- A hierarchical Naïve Bayes Model for handling sample heterogeneity in classification problems: an application to tissue microarraysFrancesca Demichelis
Bionformatics, SRA, ITC irst and Dept of Information and Communication Technology, University of Trento, Trento, Italy
BMC Bioinformatics 7:514. 2006..The aim of this paper is to provide and validate a classification model taking into consideration the uncertainty associated with measuring replicate samples... - A stochastic model to assess the variability of blood glucose time series in diabetic patients self-monitoringPaolo Magni
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Italy
IEEE Trans Biomed Eng 53:977-85. 2006..The method here proposed has been validated on two simulated data sets and tested with success in the retrospective analysis of three patients' data sets... - A mathematical model to study the effects of drugs administration on tumor growth dynamicsP Magni
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, I 27100 Pavia, Italy
Math Biosci 200:127-51. 2006..The model has already been employed in several drug discovery projects. Its application on a data set coming from one of these projects is discussed in this paper... - TimeClust: a clustering tool for gene expression time seriesPaolo Magni
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, Pavia, Italy
Bioinformatics 24:430-2. 2008..AVAILABILITY: TimeClust executable files for Windows and LINUX platforms can be downloaded free of charge for non-profit institutions from the following web site: http://aimed11.unipv.it/TimeClust... - A minimal model of tumor growth inhibitionPaolo Magni
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, I 27100 Pavia, Italy
IEEE Trans Biomed Eng 55:2683-90. 2008..The tumor growth inhibition model, which is a lumped parameter model that in the last few years has been successfully applied to several antitumor drugs, is shown to be a special case of the minimal model presented here... - Characterization of a synthetic bacterial self-destruction device for programmed cell death and for recombinant proteins releaseLorenzo Pasotti
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, Pavia, Italy
J Biol Eng 5:8. 2011..abstract:.. - Summarizing probe intensities of affymetrix GeneChip 3' expression arrays taking into account day-to-day variabilityPaolo Magni
Universita degli Studi di Pavia, Pavia
IEEE/ACM Trans Comput Biol Bioinform 8:1425-30. 2011.... - TA-clustering: cluster analysis of gene expression profiles through Temporal AbstractionsLucia Sacchi
Dipartimento di Informatica e Sistemistica, Universita di Pavia, Via Ferrata 1, 27100 Pavia, Italy
Int J Med Inform 74:505-17. 2005..We demonstrate the utility of the proposed algorithm on a set of two simulated data sets and on a study of gene expression data from S. cerevisiae... - Inferring gene regulatory networks by integrating static and dynamic dataFulvia Ferrazzi
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, 27100 Pavia, Italy
Int J Med Inform 76:S462-75. 2007..We exploited data from deletion mutant experiments (static data), gene expression time series (dynamic data) and the knowledge encoded in the Gene Ontology... - Predictive pharmacokinetic-pharmacodynamic modeling of tumor growth kinetics in xenograft models after administration of anticancer agentsMonica Simeoni
Dipartimento di Informatica e Sistemistica, University of Pavia, Pavia, and Pharmacia Italia S.p.A, Nerviano. Milan, Italy
Cancer Res 64:1094-101. 2004..It is, thus, possible to use the model prospectively, optimizing the design of new experiments... - Precedence Temporal Networks to represent temporal relationships in gene expression dataLucia Sacchi
Dipartimento di Informatica e Sistemistica, University of Pavia, Via Ferrata n o 1, 27100 Pavia, Italy
J Biomed Inform 40:761-74. 2007..The extracted networks reflect the capability of the algorithm to clearly reconstruct the timing of the considered gene sets, highlighting different stages in Dictyostelium development and in the cell cycle, respectively... - Bottom-up engineering of biological systems through standard bricks: a modularity study on basic parts and devicesLorenzo Pasotti
Dipartimento di Ingegneria Industriale e dell Informazione, Universita degli Studi di Pavia, Pavia, Italy
PLoS ONE 7:e39407. 2012..The success of the bottom-up approach strictly depends on the clear definition of the limits in which biological functions can be predictable... - Characterization of an inducible promoter in different DNA copy number conditionsSusanna Zucca
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, I 27100 Pavia, Italy
BMC Bioinformatics 13:S11. 2012..It is important to disclose the linearity working boundaries of engineered biological systems when dealing with such phenomena... - TGI-Simulator: a visual tool to support the preclinical phase of the drug discovery process by assessing in silico the effect of an anticancer drugNadia Terranova
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, I 27100 Pavia, Italy
Comput Methods Programs Biomed 105:162-74. 2012..The availability of a movie with a temporal varying 2-D iconographic representation is an original instrument to communicate results and learn Simeoni TGI model and its potential application in preclinical studies... - Accurate peak list extraction from proteomic mass spectra for identification and profiling studiesNicola Barbarini
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Pavia, Italy
BMC Bioinformatics 11:518. 2010..The main steps of the peak list extraction procedure are usually preprocessing, peak detection, peak selection, charge determination and monoisotoping operation... - A Perl procedure for protein identification by Peptide Mass FingerprintingAlessandra Tiengo
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, Pavia, Italy
BMC Bioinformatics 10:S11. 2009..To this aim, several algorithms and software tools have been proposed. However, the scoring methods and mainly the statistical evaluation of the results can be significantly improved... - Insulin minimal model indexes and secretion: proper handling of uncertainty by a Bayesian approachPaolo Magni
Dipartimento di Informatica e Sistemistica, , Pavia, Italy
Ann Biomed Eng 32:1027-37. 2004.... - Temporal data mining for the quality assessment of hemodialysis servicesRiccardo Bellazzi
Dipartimento di Informatica e Sistemistica, Universita di Pavia, Via Ferrata 1, 27100 Pavia, Italy
Artif Intell Med 34:25-39. 2005.... - Multiplexing and demultiplexing logic functions for computing signal processing tasks in synthetic biologyLorenzo Pasotti
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Pavia, Italy
Biotechnol J 6:784-95. 2011..According to both the experimental and simulated results, guidelines for future finalization of mux and demux are provided... - Mouse embryonic stem cells that survive γ-rays exposure maintain pluripotent differentiation potential and genome stabilityPaola Rebuzzini
Laboratorio di Biologia dello Sviluppo, Dipartimento di Biologia Animale, Universita degli Studi di Pavia, Pavia, Italy
J Cell Physiol 227:1242-9. 2012..Overall, these results indicate a commitment of mESCs to maintain pluripotency and genome stability... - Analysing Italian voluntary abortion data using a Bayesian approach to the time series decompositionPaolo Magni
Dipartimento di Informatica e Sistemistica, Universita degli Studi di Pavia, Via Ferrata 1, Pavia, Italy
Stat Med 23:105-23. 2004..Finally, at the local level this analysis allows us to find similarities/differences between different areas in trends and/or in seasonal preferences... - Reduced sampling schedule for the glucose minimal model: importance of Bayesian estimationPaolo Magni
Dipartimento di Informatica e Sistemica, , I-35131 Padua, Italy
Am J Physiol Endocrinol Metab 290:E177-E184. 2006..g., excluding negative values) are obtained. They can be crucial for a subsequent use of the estimated MM parameters, such as in classification, clustering, regression, or risk analysis... - In vitro cell growth pharmacodynamic studies: a new nonparametric approach to determining the relative importance of drug concentration and treatment timeMassimiliano Germani
Global Drug Metabolism, Pharmacia, Via Pasteur 10, 20014, Nerviano (MI, Italy
Cancer Chemother Pharmacol 52:507-13. 2003..The use of this methodology can be easily extended to any cell-based experiment, in which the outcome can be seen as a function of two experimental variables... - Integrating model-based decision support in a multi-modal reasoning system for managing type 1 diabetic patientsStefania Montani
DiSTA, Universita del Piemonte Orientale A Avogadro, Alessandria, Italy
Artif Intell Med 29:131-51. 2003..The system has been tested both on simulated and on real patients' data... - Comprehensive two-dimensional gas chromatography using large sample volume injection for the determination of polynuclear aromatic hydrocarbons in complex matricesDaniela Cavagnino
Thermo Finnigan Italia S p A, Strada Rivoltana, Rodano, Milan 20090, Italy
J Chromatogr A 1019:211-20. 2003..A dedicated data system is presented for acquiring and managing GC x GC data: three-dimensional and color plot visualization, peaks integration, identification and quantitation are functions available with the software... - Leukemia inhibitory factor induces the chemomigration of immortalized gonadotropin-releasing hormone neurons through the independent activation of the Janus kinase/signal transducer and activator of transcription 3, mitogen-activated protein kinase/extracPaolo Magni
Department of Endocrinology, Center of Excellence on Neurodegenerative Diseases, University of Milan, via G Balzaretti, 9, 20133 Milano, Italy
Mol Endocrinol 21:1163-74. 2007..The present data, together with the observation that LIF and LIFRbeta are expressed prenatally in the mouse nasal compartment, would suggest that LIF might participate in the migration of GnRH neurons... - Cholinergic regulation of neuropeptide Y synthesis and release in human neuroblastoma cellsElena Dozio
Istituto di Endocrinologia, Center of Excellence on Neurodegenerative Diseases and Center for Endocrinological Oncology, University of Milan, Milano, Italy
Peptides 29:491-5. 2008..In conclusion, the present observations support the hypothesis that muscarinic receptor activation regulates the biosynthesis and secretion of NPY... - Modulatory actions of neuropeptide Y on prostate cancer growth: role of MAP kinase/ERK 1/2 activationMassimiliano Ruscica
Center for Endocrinological Oncology, Department of Endocrinology, University of Milan, Milan, Italy
Adv Exp Med Biol 604:96-100. 2007..The diagnostic and therapeutical value of targeting the NPY system in PCa will be evaluated in future studies... - Activation of the Y1 receptor by neuropeptide Y regulates the growth of prostate cancer cellsMassimiliano Ruscica
Istituto di Endocrinologia, via G Balzaretti, 9 20133 Milano, Italy
Endocrinology 147:1466-73. 2006..transient, and to the clone-specific involvement of other intracellular signals. These findings suggest that NPY-related mechanisms might play a relevant role in the progression of PCa, at both androgen dependent and independent stages... - Minimal model S(I)=0 problem in NIDDM subjects: nonzero Bayesian estimates with credible confidence intervalsGianluigi Pillonetto
Dipartimento di Elettronica e Informatica, , 35131 Padova, Italy
Am J Physiol Endocrinol Metab 282:E564-73. 2002..This Bayesian approach should prove useful in reanalyzing large databases of epidemiological studies...