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

DocumentsDate added

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file icon Therapy-selected mutations at RT position 215 counteract selection of K65R in HIV-2-infected patienthot!
JC Silva, AC Miranda, MF Gonçalves, E Valadas, K Mansinho, K Van Laethem, A-M Vandamme, P Gomes and RJ Camacho on behalf of the Portuguese HIV-2 Study Group. Therapy-selected mutations at RT position 215 counteract selection of K65R in HIV-2-infected patients. Presented at the International Drug Resistance Workshop, abstract 88, 9-13 June 2009, Fort Meyers, USA. Antiviral Therapy 2009; 14 Suppl 1:A105.
file icon The rise and fall of K65R in a Portuguese HIV-1 Drug Resistance database, despite continuously (...)hot!
Theys K., J. Vercauteren, A Abecasis, P. Libin, K. Deforche, AM Vandamme and R. Camacho. The rise and fall of K65R in a Portuguese HIV-1 Drug Resistance database, despite continuously increasing use of Tenofovir. Infection, Genetics and Evolution 2009 Jul;9(4):683-8.
file icon The magnitude of interferon-gamma responses to human cytomegalovirus is predictive for HIV-1 (...)hot!
Darwich L, Cabrera C, Romeu J, Martinez-Picado J, Esté JA, Tural C, Bellido R, Clotet B, Angulo A, Ruiz L, Bofill M. The magnitude of interferon-gamma responses to human cytomegalovirus is predictive for HIV-1 disease progression. J Acquir Immune Defic Syndr. 2008 Dec 15;49(5):507-12.
file icon The convenience of flow cytometry for HLA-B*5701 screening to prevent abacavir hypersensitivity(...)hot!
Airo P, Scarsi M, Malagoli A, Carella G, Izzo I, Carosi G, Torti C. The convenience of flow cytometry for HLA-B*5701 screening to prevent abacavir hypersensitivity reactions. J Acquir Immune Defic Syndr. 2009 Jul 1;51(3):361-2.
file icon The calculated genetic barrier for antiretroviral drug resistance substitutions... hot!
van de Vijver DA, Wensing AM, Angarano G, Asjö B, Balotta C, Boeri E, Camacho R, Chaix ML, Costagliola D, De Luca A, Derdelinckx I, Grossman Z, Hamouda O, Hatzakis A, Hemmer R, Hoepelman A, Horban A, Korn K, Kücherer C, Leitner T, Loveday C, MacRae E, Maljkovic I, de Mendoza C, Meyer L, Nielsen C, Op de Coul EL, Ormaasen V, Paraskevis D, Perrin L, Puchhammer-Stöckl E, Ruiz L, Salminen M, Schmit JC, Schneider F, Schuurman R, Soriano V, Stanczak G, Stanojevic M, Vandamme AM, Van Laethem K, Violin M, Wilbe K, Yerly S, Zazzi M, Boucher CA. The calculated genetic barrier for antiretroviral drug resistance substitutions is largely similar for different HIV-1 subtypes. J Acquir Immune Defic Syndr. 2006 Mar;41(3):352-60.
file icon Stochastic simulation of HIV population dynamics through complex network modellinghot!
P.M.A. Sloot; S.V. Ivanov; A.V. Boukhanovsky; D.A.M.C. van de Vijver and C.A.B. Boucher: Stochastic simulation of HIV population dynamics through complex network modelling, International Journal of Computer Mathematics, vol. 85, nr 8 pp. 1175-1187. Taylor & Francis, 2008. (DOI: 10.1080/00207160701750583)
file icon Simulating Individual-Based Models of Epidemics in Hierarchical Networkshot!
R. Quax; D.A. Bader and P.M.A. Sloot: Simulating Individual-Based Models of Epidemics in Hierarchical Networks, in G. Allen; J. Nabrzyski; E. Seidel; G.D. van Albada; J.J. Dongarra and P.M.A. Sloot, editors, Computational Science - ICCS 2009: 9th International Conference, Baton Rouge, LA, USA, Proceedings, Part I, in series Lecture Notes in Computer Science, vol. 5544, pp. 725-734. Springer, Berlin, Heidelberg, May 2009.
file icon Sequence alignment in HIV computational analysishot!
Abecasis AB, Vandamme A-M, Lemey P. Sequence alignment in HIV computational analysis. pp. 12-16 in HIV Sequence Compendium 2006/2007. Edited by: Leitner T, Foley B, Hahn B, Marx P, McCutchan F, Mellors J, Wolinsky S, Korber B. Published by: Theoretical Biology and Biophysics Group, Los Alamos National Laboratory, Los Alamos, 2007.
T. Guballa; M.T. Bubak and P.M.A. Sloot: Chapter XXVI: Semantic Integration for Research Environments, in M. Cannataro, editor, Handbook of Research on Computational Grid Technologies for Life Sciences, Biomedicine and Healthcare, . IGI Publishing, Medical Information Science Reference, may 2009. ISBN: 978-1-60566-374-6.
file icon Robust supervised and unsupervised statistical learning for HIV type 1 coreceptor usage analysishot!
Prosperi MC, Fanti I, Ulivi G, Micarelli A, De Luca A, Zazzi M. Robust supervised and unsupervised statistical learning for HIV type 1 coreceptor usage analysis. AIDS Res Hum Retroviruses. 2009 Mar;25(3):305-14.
file icon Risk of early virological failure of once-daily tenofovir-emtricitabine plus twice-daily (...) hot!
Lapadula G, Costarelli S, Quiros-Roldan E, Calabresi A, Izzo I, Carosi G, Torti C. Risk of early virological failure of once-daily tenofovir-emtricitabine plus twice-daily nevirapine in antiretroviral therapy-naive HIV-infected patients. Clin Infect Dis. 2008 Apr 1;46(7):1127-9.
file icon Resistance to newly approved and investigational protease inhibitorshot!
Resistance to newly approved and investigational protease inhibitors. De Luca A. Curr Opin HIV AIDS. 2007 Mar;2(2):130-6.
file icon Remote execution of delegated operations with support for automatic selection among (...)hot!
Remote execution of delegated operations with support for automatic selection among multiple communication protocols Tomasz Bartynski:, Master of Science Thesis supervised by Marian Bubak; AGH University of Science and Technology, February 2008, Krakow, Poland;
file icon Remote execution of delegated operations with support for automatic selection among (...)hot!
Remote execution of delegated operations with support for automatic selection among multiple communication protocols Tomasz Bartynski; Master of Science Thesis supervised by Marian Bubak; AGH University of Science and Technology, February 2008, Krakow, Poland
file icon Recombination confounds the early evolutionary history of human immunodeficiency virus type 1hot!
Abecasis AB, Lemey P, Vidal N, de Oliveira T, Peeters M, Camacho R, Shapiro B, Rambaut A, Vandamme AM. Recombination confounds the early evolutionary history of human immunodeficiency virus type 1: subtype G is a circulating recombinant form. J Virol. 2007 Aug;81(16):8543-51.
file icon Rapid and Accurate Prediction of Binding Free Energies for Saquinavir-Bound HIV-1 Proteaseshot!
Rapid and Accurate Prediction of Binding Free Energies for Saquinavir-Bound HIV-1 Proteases Stoica et al. JACS, 2008, 130, 2639-2648
file icon Raltegravir susceptibility and fitness progression of HIV type-1 integrase in patients (...)hot!
Buzón MJ, Marfil S, Puertas MC, Garcia E, Clotet B, Ruiz L, Blanco J, Martinez-Picado J, Cabrera C. Raltegravir susceptibility and fitness progression of HIV type-1 integrase in patients on long-term antiretroviral therapy. Antivir Ther. 2008;13(7):881-93.
file icon Quality of Service on the Grid with User Level Schedulinghot!
J. Mos\'cicki; M.T. Bubak; H.C. Lee; A. Muraru and P.M.A. Sloot: Quality of Service on the Grid with User Level Scheduling, in M.T. Bubak; M.Turala and K. Wiatr, editors, CGW\'06 Proceedings, pp. 119-129. Cracow, Poland, July 2007. ISBN 83-915141-7-X.
Provenance Tracking in the Virolab Virtual Laboratory. In Parallel Processing and Applied Mathematics. B. Balis, M. Bubak, and J. Wach.: 7th International Conference, PPAM 2007. Gdansk, Poland, September 9-12, 2007, volume 4967 of Lecture Notes in Computer Science. Springer, 2008. In Print.
file icon Provenance Tracking and Querying in ViroLabhot!
B. Balis, M. Bubak, M. Pelczar, J. Wach; Provenance Tracking and Querying in ViroLab, in Cracow Grid Workshop 2007 Workshop Proceedings, pp.71-76, ACC CYFRONET AGH 2008.
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