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Pirooz Vakili - Publications

Affiliations: 
Boston University, Boston, MA, United States 
Area:
System Science Engineering, Operations Research, Mathematics
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27 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2016 Mamonov AB, Moghadasi M, Mirzaei H, Zarbafian S, Grove LE, Bohnuud T, Vakili P, Ch Paschalidis I, Vajda S, Kozakov D. Focused grid-based resampling for protein docking and mapping. Journal of Computational Chemistry. PMID 26837000 DOI: 10.1002/Jcc.24273  0.543
2015 Mirzaei H, Zarbafian S, Villar E, Mottarella S, Beglov D, Vajda S, Paschalidis IC, Vakili P, Kozakov D. Energy minimization on manifolds for docking flexible molecules. Journal of Chemical Theory and Computation. 11: 1063-1076. PMID 26478722 DOI: 10.1021/Ct500155T  0.585
2015 Moghadasi M, Mirzaei H, Mamonov A, Vakili P, Vajda S, Paschalidis ICh, Kozakov D. The impact of side-chain packing on protein docking refinement. Journal of Chemical Information and Modeling. 55: 872-81. PMID 25714358 DOI: 10.1021/Ci500380A  0.57
2014 Vakili P, Mirzaei H, Zarbafian S, Paschalidis IC, Kozakov D, Vajda S. Optimization on the space of rigid and flexible motions: an alternative manifold optimization approach. Proceedings of the ... Ieee Conference On Decision & Control / Ieee Control Systems Society. Ieee Conference On Decision & Control. 2014: 5825-5830. PMID 25774073 DOI: 10.1109/CDC.2014.7040301  0.542
2014 Chowdhury R, Beglov D, Moghadasi M, Paschalidis IC, Vakili P, Vajda S, Bajaj C, Kozakov D. Efficient Maintenance and Update of Nonbonded Lists in Macromolecular Simulations. Journal of Chemical Theory and Computation. 10: 4449-4454. PMID 25328494 DOI: 10.1021/Ct400474W  0.302
2014 Kulatilaka N, Santiago L, Vakili P. Reallocating risks and returns to scale up adoption of distributed electricity resources Energy Policy. 69: 566-574. DOI: 10.1016/J.Enpol.2014.02.005  0.656
2013 Mirzaei H, Villar E, Mottarella S, Beglov D, Paschalidis IC, Vajda S, Kozakov D, Vakili P. Flexible Refinement of Protein-Ligand Docking on Manifolds. Proceedings of the ... Ieee Conference On Decision & Control / Ieee Control Systems Society. Ieee Conference On Decision & Control. 1392-1397. PMID 24830567 DOI: 10.1109/CDC.2013.6760077  0.545
2013 Moghadasi M, Kozakov D, Vakili P, Vajda S, Paschalidis IC. A new distributed algorithm for side-chain repacking in protein-protein association F1000research. 4. DOI: 10.7490/F1000Research.1093112.1  0.309
2012 Mirzaei H, Kozakov D, Beglov D, Paschalidis IC, Vajda S, Vakili P. A New Approach to Rigid Body Minimization with Application to Molecular Docking. Proceedings of the ... Ieee Conference On Decision & Control / Ieee Control Systems Society. Ieee Conference On Decision & Control. 2983-2988. PMID 24763338 DOI: 10.1109/CDC.2012.6426267  0.559
2012 Mirzaei H, Beglov D, Paschalidis IC, Vajda S, Vakili P, Kozakov D. Rigid Body Energy Minimization on Manifolds for Molecular Docking. Journal of Chemical Theory and Computation. 8: 4374-4380. PMID 23382659 DOI: 10.1021/Ct300272J  0.582
2010 Kozakov D, Hall DR, Beglov D, Brenke R, Comeau SR, Shen Y, Li K, Zheng J, Vakili P, Paschalidis ICh, Vajda S. Achieving reliability and high accuracy in automated protein docking: ClusPro, PIPER, SDU, and stability analysis in CAPRI rounds 13-19. Proteins. 78: 3124-30. PMID 20818657 DOI: 10.1002/Prot.22835  0.335
2010 Borogovac T, Sun N, Vakili P. Control variates for sensitivity estimation Proceedings - Winter Simulation Conference. 2629-2641. DOI: 10.1109/WSC.2010.5678959  0.72
2008 Shen Y, Paschalidis ICh, Vakili P, Vajda S. Protein docking by the underestimation of free energy funnels in the space of encounter complexes. Plos Computational Biology. 4: e1000191. PMID 18846200 DOI: 10.1371/Journal.Pcbi.1000191  0.344
2008 Borogovac T, Vakili P. Control variate technique: A constructive approach Proceedings - Winter Simulation Conference. 320-327. DOI: 10.1109/WSC.2008.4736084  0.709
2007 Paschalidis IC, Shen Y, Vakili P, Vajda S. SDU: A Semidefinite Programming-Based Underestimation Method for Stochastic Global Optimization in Protein Docking. Ieee Transactions On Automatic Control. 52: 664-676. PMID 19759849 DOI: 10.1109/Tac.2007.894518  0.357
2007 Zhao G, Borogovac T, Vakili P. Efficient estimation of option price and price sensitivities via Structured Database Monte Carlo (SDMC) Proceedings - Winter Simulation Conference. 984-991. DOI: 10.1109/WSC.2007.4419695  0.72
2005 Santiago LP, Vakili P. On the value of flexibility in R&D projects Management Science. 51: 1206-1218. DOI: 10.1287/Mnsc.1050.0387  0.648
2005 Santiago LP, Vakili P. Optimal project selection and budget allocation for R&D portfolios Portland International Conference On Management of Engineering and Technology. 2005: 275-281. DOI: 10.1109/PICMET.2005.1509701  0.662
1999 Castanon D, Streltsov S, Vakili P. Optimality of index policies for a sequential sampling problem Ieee Transactions On Automatic Control. 44: 145-148. DOI: 10.1109/9.739105  0.325
1999 Streltsov S, Vakili P. Journal of Global Optimization. 14: 283-298. DOI: 10.1023/A:1008284229931  0.367
1996 Streltsov S, Vakili P. Variance reduction algorithms for parallel replicated simulation of uniformized Markov chains Discrete Event Dynamic Systems. 6: 159-180. DOI: 10.1007/Bf01797237  0.381
1994 Glasserman P, Vakili P. Comparing Markov Chains Simulated in Parallel Probability in the Engineering and Informational Sciences. 8: 309-326. DOI: 10.1017/S0269964800003430  0.306
1994 Vakili P, Yu G. Uniformization based sensitivity estimation for a class of discrete-event systems Discrete Event Dynamic Systems: Theory and Applications. 4: 171-195. DOI: 10.1007/Bf01441210  0.373
1992 Vakili P. Massively parallel and distributed simulation of a class of discrete event systems Acm Transactions On Modeling and Computer Simulation (Tomacs). 2: 214-238. DOI: 10.1145/146382.146389  0.376
1992 Ho YC, Sreenivas RS, Vakili P. Ordinal optimization of DEDS Discrete Event Dynamic Systems. 2: 61-88. DOI: 10.1007/Bf01797280  0.363
1991 Vakili P. Using a standard clock technique for efficient simulation Operations Research Letters. 10: 445-452. DOI: 10.1016/0167-6377(91)90021-G  0.323
1988 Ho Y, Li S, Vakili P. On the efficient generation of discrete event sample paths under different system parameter values Mathematics and Computers in Simulation. 30: 347-370. DOI: 10.1016/S0378-4754(98)90005-2  0.313
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