Mattia Cf Prosperi

Summary

Country: Italy

Publications

  1. pmc Empirical validation of viral quasispecies assembly algorithms: state-of-the-art and challenges
    Mattia C F Prosperi
    1 University of Manchester, Faculty of Medical and Human Sciences, Northwest Institute of Bio Health Informatics, Centre for Health Informatics, Institute of Population Health, Manchester, UK 2 University of Florida, College of Medicine, Department of Pathology, Immunology and Laboratory Medicine, Gainesville, Florida, USA
    Sci Rep 3:2837. 2013
  2. pmc The threshold bootstrap clustering: a new approach to find families or transmission clusters within molecular quasispecies
    Mattia C F Prosperi
    Infectious Diseases Clinic, Catholic University of the Sacred Heart, Rome, Italy
    PLoS ONE 5:e13619. 2010
  3. pmc Predictors of first-line antiretroviral therapy discontinuation due to drug-related adverse events in HIV-infected patients: a retrospective cohort study
    Mattia C F Prosperi
    Viral Immunodeficiency Unit, National Institute for Infectious Diseases Lazzaro Spallanzani, Rome, Italy
    BMC Infect Dis 12:296. 2012
  4. pmc Massively parallel pyrosequencing highlights minority variants in the HIV-1 env quasispecies deriving from lymphomonocyte sub-populations
    Gabriella Rozera
    Laboratory of Virology, INMI L, Spallanzani, Rome, Italy
    Retrovirology 6:15. 2009
  5. pmc A prognostic model for estimating the time to virologic failure in HIV-1 infected patients undergoing a new combination antiretroviral therapy regimen
    Mattia C F Prosperi
    Infectious Diseases Clinic, Catholic University of the Sacred Heart, Rome, Italy
    BMC Med Inform Decis Mak 11:40. 2011
  6. doi request reprint Detection of drug resistance mutations at low plasma HIV-1 RNA load in a European multicentre cohort study
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    J Antimicrob Chemother 66:1886-96. 2011
  7. pmc Combinatorial analysis and algorithms for quasispecies reconstruction using next-generation sequencing
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    BMC Bioinformatics 12:5. 2011
  8. pmc Antiretroviral therapy optimisation without genotype resistance testing: a perspective on treatment history based models
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    PLoS ONE 5:e13753. 2010
  9. doi request reprint Robust supervised and unsupervised statistical learning for HIV type 1 coreceptor usage analysis
    Mattia C F Prosperi
    Department of Virology, National Institute for Infectious Diseases L Spallanzani, 00149 Rome, Italy
    AIDS Res Hum Retroviruses 25:305-14. 2009
  10. doi request reprint Low rate of virological failure and maintenance of susceptibility to HIV-1 protease inhibitors with first-line lopinavir/ritonavir-based antiretroviral treatment in clinical practice
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    J Med Virol 82:1996-2003. 2010

Detail Information

Publications14

  1. pmc Empirical validation of viral quasispecies assembly algorithms: state-of-the-art and challenges
    Mattia C F Prosperi
    1 University of Manchester, Faculty of Medical and Human Sciences, Northwest Institute of Bio Health Informatics, Centre for Health Informatics, Institute of Population Health, Manchester, UK 2 University of Florida, College of Medicine, Department of Pathology, Immunology and Laboratory Medicine, Gainesville, Florida, USA
    Sci Rep 3:2837. 2013
    ....
  2. pmc The threshold bootstrap clustering: a new approach to find families or transmission clusters within molecular quasispecies
    Mattia C F Prosperi
    Infectious Diseases Clinic, Catholic University of the Sacred Heart, Rome, Italy
    PLoS ONE 5:e13619. 2010
    ..We introduce the threshold bootstrap clustering (TBC), a new methodology for partitioning molecular sequences, that does not require a phylogenetic tree estimation...
  3. pmc Predictors of first-line antiretroviral therapy discontinuation due to drug-related adverse events in HIV-infected patients: a retrospective cohort study
    Mattia C F Prosperi
    Viral Immunodeficiency Unit, National Institute for Infectious Diseases Lazzaro Spallanzani, Rome, Italy
    BMC Infect Dis 12:296. 2012
    ..However, its determinants are not fully understood. Aim of this study was to investigate predictors of first-line antiretroviral therapy discontinuation due to adverse events and their evolution in recent years...
  4. pmc Massively parallel pyrosequencing highlights minority variants in the HIV-1 env quasispecies deriving from lymphomonocyte sub-populations
    Gabriella Rozera
    Laboratory of Virology, INMI L, Spallanzani, Rome, Italy
    Retrovirology 6:15. 2009
    ..V3 amino acid sequences were used to establish heterogeneity parameters, to build phylogenetic trees and to predict co-receptor usage...
  5. pmc A prognostic model for estimating the time to virologic failure in HIV-1 infected patients undergoing a new combination antiretroviral therapy regimen
    Mattia C F Prosperi
    Infectious Diseases Clinic, Catholic University of the Sacred Heart, Rome, Italy
    BMC Med Inform Decis Mak 11:40. 2011
    ..However, their relative-hazard for the time to virologic failure has not been thoroughly investigated, and an expert system that is able to predict how long a new cART regimen will remain effective has never been designed...
  6. doi request reprint Detection of drug resistance mutations at low plasma HIV-1 RNA load in a European multicentre cohort study
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    J Antimicrob Chemother 66:1886-96. 2011
    ....
  7. pmc Combinatorial analysis and algorithms for quasispecies reconstruction using next-generation sequencing
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    BMC Bioinformatics 12:5. 2011
    ..The reconstruction algorithm is based on combinations of multinomial distributions and is designed to minimise the reconstruction of false variants, called in-silico recombinants...
  8. pmc Antiretroviral therapy optimisation without genotype resistance testing: a perspective on treatment history based models
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    PLoS ONE 5:e13753. 2010
    ..Since treatment history (TH) impacts response to subsequent therapy, we investigated a set of statistical learning models to optimise cART in the absence of GRT information...
  9. doi request reprint Robust supervised and unsupervised statistical learning for HIV type 1 coreceptor usage analysis
    Mattia C F Prosperi
    Department of Virology, National Institute for Infectious Diseases L Spallanzani, 00149 Rome, Italy
    AIDS Res Hum Retroviruses 25:305-14. 2009
    ..A high-performing, compact, and interpretable logistic regression model was derived to infer HIV-1 coreceptor tropism for a given patient [accuracy = 92.76 (SD 3.07); AUC = 0.93 (SD 0.04)]...
  10. doi request reprint Low rate of virological failure and maintenance of susceptibility to HIV-1 protease inhibitors with first-line lopinavir/ritonavir-based antiretroviral treatment in clinical practice
    Mattia C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    J Med Virol 82:1996-2003. 2010
    ..Despite the likely differences in patient population and adherence, both the low rate of virological failure and the lack of development of LPV/rtv resistance documented in clinical trials are thus confirmed in clinical practice...
  11. doi request reprint Favourable evolution of virological and immunological profiles in treated and untreated patients in Italy in the period 1998-2008
    M C F Prosperi
    Clinic of Infectious Diseases, Catholic University of Sacred Heart, Rome, Italy
    HIV Med 12:174-82. 2011
    ....
  12. pmc Comparative determination of HIV-1 co-receptor tropism by Enhanced Sensitivity Trofile, gp120 V3-loop RNA and DNA genotyping
    Mattia C F Prosperi
    Infectious Diseases Clinic, Catholic University of Sacred Heart, Rome, Italy
    Retrovirology 7:56. 2010
    ..7% false positive rate cutoff were evaluated using viral DNA and RNA samples, compared against each other and ESTA, using Cohen's kappa, phylogenetic analysis, and area under the receiver operating characteristic (AUROC)...
  13. doi request reprint Incidence of malignancies in HIV-infected patients and prognostic role of current CD4 cell count: evidence from a large Italian cohort study
    M C F Prosperi
    Istituto di Clinica delle Malattie Infettive, Universita Cattolica del Sacro Cuore, Rome, Italy
    Clin Infect Dis 50:1316-21. 2010
    ..9-3.1 cases per 1000 person-years of follow-up), respectively. Lower current CD4 cell count was an independent predictor of developing malignancies, with the association being stronger for ADM than for NADM...
  14. ncbi request reprint Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment
    Mattia C F Prosperi
    Computer Science and Automation Department, Roma Tre University, Rome, Italy
    Antivir Ther 14:433-42. 2009
    ..Interpretation of HIV-1 genotypic drug resistance is evolving from rule-based systems guided by expert opinion to data-driven engines developed through machine learning methods...