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Scientific Publications
You may find here a selection of some of ViroLab recent peer-reviewed published output.

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file icon Untangling Pathways to Tipranavir Resistance in Patients Infected with Various HIV-1 Sub-types (...)hot!
Kristof Theys, Raphael Z. Sangeda, Ricardo Camacho, Bonaventura Clotet, Kristel Van Laethem, Maurizio Zazzi, Anders Sönnerborg, Rolf Kaiser, Andrea De Luca, Carlo Torti, Annemarie M.J. Wensing, Grzegorz Stanczak, Marek Linka, Mario Poljak, Snjezana Zidovec Lepej, Eric Van Wijngaerden, Chris Verhofstede, Soo-Yon Rhee and Anne-Mieke Vandamme. Untangling Pathways to Tipranavir Resistance in Patients Infected with Various HIV-1 Sub-types, for the EHR, ViroLab, EuResist and BREACH projects, 12th European AIDS Conference November 11-14 2009, Cologne, Germany.
file icon Untangling Pathways to Tipranavir Resistance in HIV-1 Treatment Experienced Patients from (...)hot!
Sangeda R.Z., Theys K, Camacho R, Clotet B, Van Laethem K, Zazzi M, Sönnerborg A, Kaiser R, De Luca A, Torti C, Wensing A.M.J, Stanczak G, Linka M,Poljak M, Lepej S.Z, Van Wijngaerden E, Verhofstede C, Rhee S-Y, Vandamme A-M. Untangling Pathways to Tipranavir Resistance in HIV-1 Treatment Experienced Patients from Various Subtypes, for the EHR, ViroLab, EuResist and BARC projects. International BioInformatics Workshop on Virus Evolution and Molecular Epidemiology, 7-11 September 2009, Rotterdam, The Netherlands.
file icon Comparing the prevalence of tipranavir resistance mutations in naïve, PI experienced and (...)hot!
Pieter Libin, Stijn Imbrechts, Gertjan Beheydt, Kristof Theys, Raphael Sangeda, Kristof Theys, Ricardo Camacho, Bonaventura Clotet, Kristel Van Lae-them, Maurizio Zazzi, Anders, Sönnerborg, Rolf Kaiser, Andrea De Luca, Carlo Torti, Wensing, A.M.J., Grzegorz Stanczak, Marek Linka, Mario Poljak, Snjezana Zidovec Lepej, Eric Van Wijngaerden, Chris Verhofstede, Soo-Yon Rhee, Anne-Mieke Vandamme. Comparing the prevalence of tipranavir resistance mutations in naïve, PI experienced and ti-pranavir experienced patients, for the EHR, ViroLab, EuResist and BREACH projects. International BioInformatics Workshop on Virus Evolution and Molecular Epidemiology, 7-11 September 2009, Rotterdam, The Netherlands.
file icon Provenance Tracking and End-User Oriented Query Constructionhot!
B. Balis, M. Bubak, M. Pelczar, J. Wach. Provenance Tracking and End-User Oriented Query Construction, In: M. Cannataro (Ed.) Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine and Healthcare, Information Science Reference, 2009, IGI Global.
file icon Virtual Laboratory for Collaborative Applicationshot!
Bubak M, Malawski M, Gubala T, Kasztelnik M, Nowakowski P, Harezlak D, Bartynski T, Kocot J, Ciepiela E, Funika W, Krol D, Balis B, Assel M, Tirado-Ramos A. Virtual Laboratory for Collaborative Applications. In: Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine and Healthcare (Cannataro M ed.), IGI Global, 2009, pp. 531-551.
file icon Distinguishing epidemiological dependent from treatment (resistance) dependent HIV mutationshot!
Schietgat L, K Theys, J Ramon, H Blockeel, and AM Vandamme. Distinguishing epidemiological dependent from treatment (resistance) dependent HIV mutations: Problem Statement. Ecml, 2008.
file icon ViroLab Security and Virtual Organization Infrastructurehot!
Jan Meizner, Maciej Malawski, Eryk Ciepiela, Marek Kasztelnik, Daniel Harezlak, Piotr Nowakowski, Dariusz Krol, Tomasz Gubała, Włodzimierz Funika, Marian Bubak, Tomasz Mikołajczyk, Paweł Płaszczak, Krzysztof Wilk, and Matthias Assel: \"ViroLab Security and Virtual Organization Infrastructure\" in: Y. Dou, R. Gruber, and J. Joller (Eds.): APPT 2009, Advanced Parallel Processing Technologies 8th International Symposium, APPT 2009, Rapperswil, Switzerland, August 24-25, 2009 Proceedings, LNCS 5737, pp. 230–245, Springer-Verlag, 2009.
file icon Monitoring infrastructure for Grid scientific workflowshot!
B. Balis, M. Bubak. Monitoring infrastructure for Grid scientific workflows in 3rd Workshop on Workflows in Support of Large-Scale Science during SuperComputing 08 The International Conference for High Performance Computing, Networking, Storage and Analysis, November 2008 Austin, Texas, IEEE 2008.
file icon Environment for Collaborative Development and Execution of Virtual Laboratory Applicationshot!
W. Funika, D. Harezlak, D. Krol, M. Bubak. Environment for Collaborative Development and Execution of Virtual Laboratory Applications. In: Lecture Notes in Computer Science 5103 (Bubak M, van Albada D G, Dongarra J, Sloot P M A eds.), Springer-Verlag, 2008, pp. 246-458.
file icon A Security Framework for Dynamic Collaborative Working Environmentshot!
Assel M, Wesner S, Kipp A. A Security Framework for Dynamic Collaborative Working Environments. Identity in the Information Society, 2009 (accepted for publication).
file icon Complex Agent Networks explaining the HIV epidemic among homosexual men in Amsterdamhot!
A.M. Shan; P.M.A. Sloot; R. Quax; Y. Zhu and W. Wang: Complex Agent Networks explaining the HIV epidemic among homosexual men in Amsterdam, Mathematics and Computers in Simulation, (submitted). 2009.
file icon Invocation of operations from script-based grid applicationshot!
M. Malawski, T. Bartynski, and M. Bubak, \"Invocation of operations from script-based grid applications,\" Future Generation Computer Systems, vol. In Press, Accepted Manuscript, 2009.
file icon A comparison of three computational modelling methods for the prediction of virological response...hot!
Wang D, Larder B, Revell A, Montaner J, Harrigan R, De Wolf F, Lange J, Wegner S, Ruiz L, Pérez-Elías MJ, Emery S, Gatell J, D\\\'Arminio Monforte A, Torti C, Zazzi M, Lane C. A comparison of three computational modelling methods for the prediction of virological response to combination HIV therapy. Artif Intell Med. 2009 Sep;47(1):63-74.
file icon Predictive value of HIV-1 genotypic resistance test interpretation algorithms.hot!
Rhee SY, Fessel WJ, Liu TF, Marlowe NM, Rowland CM, Rode RA, Vandamme AM, Van Laethem K, Brun-Vezinet F, Calvez V, Taylor J, Hurley L, Horberg M, Shafer RW. Predictive value of HIV-1 genotypic resistance test interpretation algorithms. J Infect Dis. 2009 Aug 1;200(3):453-63.
file icon African descent is associated with slower CD4 cell count decline in treatment-naive patients of(...)hot!
Müller V, von Wyl V, Yerly S, Böni J, Klimkait T, Bürgisser P, Ledergerber B, Günthard HF, Bonhoeffer S; Swiss HIV Cohort Study. African descent is associated with slower CD4 cell count decline in treatment-naive patients of the Swiss HIV Cohort Study. AIDS. 2009 Jun 19;23(10):1269-76.
file icon Increasing clinical virulence in two decades of the Italian HIV epidemichot!
Müller V, Maggiolo F, Suter F, Ladisa N, De Luca A, Antinori A, Sighinolfi L, Quiros-Roldan E, Carosi G, Torti C. Increasing clinical virulence in two decades of the Italian HIV epidemic. PLoS Pathog. 2009 May;5(5):e1000454.
file icon Discordant genotypic interpretation and phenotypic role of protease mutations in HIV-1 subtypes B...hot!
Santos AF, Abecasis AB, Vandamme AM, Camacho RJ, Soares MA. Discordant genotypic interpretation and phenotypic role of protease mutations in HIV-1 subtypes B and G. J Antimicrob Chemother. Mar;63(3):593-9.
file icon Are mutations in HIV type-1 reverse transcriptase 245 codon predictive of abacavir (...)hot!
Bracciale L, Santangelo R, Fanti I, Prosperi M, Colafigli M, Di Giambenedetto S, Marchetti S, Di Franco A, Cauda R, De Luca A. Are mutations in HIV type-1 reverse transcriptase 245 codon predictive of abacavir hypersensitivity reaction? Antivir Ther. 2009;14(1):99-101.
file icon Investigation of expert rule bases, logistic regression, and non-linear machine learning (...)hot!
Prosperi MC, Altmann A, Rosen-Zvi M, Aharoni E, Borgulya G, Bazso F, Sànnerborg A, Schülter E, Struck D, Ulivi G, Vandamme AM, Vercauteren J, Zazzi M; EuResist and Virolab study groups. Investigation of expert rule bases, logistic regression, and non-linear machine learning techniques for predicting response to antiretroviral treatment. Antivir Ther. 2009;14(3):433-42.
file icon Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistancehot!
Bennett DE, Camacho RJ, Otelea D, Kuritzkes DR, Fleury H, Kiuchi M, Heneine W, Kantor R, Jordan MR, Schapiro JM, Vandamme AM, Sandstrom P, Boucher CA, van de Vijver D, Rhee SY, Liu TF, Pillay D, Shafer RW. Drug resistance mutations for surveillance of transmitted HIV-1 drug-resistance: 2009 update. PLoS One. 2009;4(3):e4724.
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