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Trevor M. Cickovski, Ph.D. - Publications

Affiliations: 
2008 University of Notre Dame, Notre Dame, IN, United States 
Area:
Computer Science, Cell Biology, Molecular Physics
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12 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
2019 Cickovski T, Aguiar-Pulido V, Narasimhan G. MATria: a unified centrality algorithm. Bmc Bioinformatics. 20: 278. PMID 31167635 DOI: 10.1186/S12859-019-2820-7  0.305
2018 Cickovski T, Narasimhan G. Constructing Lightweight And Flexible Pipelines Using Plugin-Based Microbiome Analysis (PluMA). Bioinformatics (Oxford, England). PMID 29618009 DOI: 10.1093/Bioinformatics/Bty198  0.357
2015 Cickovski T, Flor T, Irving-Sachs G, Novikov P, Parda J, Narasimhan G. GPUDePiCt: A Parallel Implementation of a Clustering Algorithm for Computing Degenerate Primers on Graphics Processing Units. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 12: 445-54. PMID 26357230 DOI: 10.1109/Tcbb.2014.2355231  0.305
2013 Sweet JC, Nowling RJ, Cickovski T, Sweet CR, Pande VS, Izaguirre JA. Long Timestep Molecular Dynamics on the Graphical Processing Unit. Journal of Chemical Theory and Computation. 9: 3267-3281. PMID 24436689 DOI: 10.1021/Ct400331R  0.681
2012 Margolin G, Gregoretti IV, Cickovski TM, Li C, Shi W, Alber MS, Goodson HV. The mechanisms of microtubule catastrophe and rescue: implications from analysis of a dimer-scale computational model. Molecular Biology of the Cell. 23: 642-56. PMID 22190741 DOI: 10.1091/Mbc.E11-08-0688  0.338
2010 Cickovski T, Chatterjee S, Wenger J, Sweet CR, Izaguirre JA. MDLab: a molecular dynamics simulation prototyping environment. Journal of Computational Chemistry. 31: 1345-56. PMID 19882726 DOI: 10.1002/Jcc.21418  0.694
2007 Cickovski T, Aras K, Alber MS, Izaguirre JA, Swat M, Glazier JA, Merks RM, Glimm T, Hentschel HG, Newman SA. From Genes to Organisms Via the Cell A Problem-Solving Environment for Multicellular Development. Computing in Science & Engineering. 9: 50-60. PMID 19526065 DOI: 10.1109/Mcse.2007.74  0.638
2007 Cickovski T, Sweet C, Izaguirre JA. MDL, A domain-specific language for molecular dynamics Proceedings - Simulation Symposium. 256-264. DOI: 10.1109/ANSS.2007.26  0.636
2005 Cickovski TM, Huang C, Chaturvedi R, Glimm T, Hentschel HG, Alber MS, Glazier JA, Newman SA, Izaguirre JA. A framework for three-dimensional simulation of morphogenesis. Ieee/Acm Transactions On Computational Biology and Bioinformatics / Ieee, Acm. 2: 273-88. PMID 17044166 DOI: 10.1109/Tcbb.2005.46  0.702
2004 Izaguirre JA, Chaturvedi R, Huang C, Cickovski T, Coffland J, Thomas G, Forgacs G, Alber M, Hentschel G, Newman SA, Glazier JA. CompuCell, a multi-model framework for simulation of morphogenesis. Bioinformatics (Oxford, England). 20: 1129-37. PMID 14764549 DOI: 10.1093/Bioinformatics/Bth050  0.688
2004 Matthey T, Cickovski T, Hampton S, Ko A, Ma Q, Nyerges M, Raeder T, Slabach T, Izaguirre JA. ProtoMol, an object-oriented framework for prototyping novel algorithms for molecular dynamics Acm Transactions On Mathematical Software. 30: 237-265. DOI: 10.1145/1024074.1024075  0.681
2003 Chaturvedi R, Izaguirre JA, Huang C, Cickovski T, Virtue P, Thomas G, Forgacs G, Alber M, Hentschel G, Newman SA, Glazier JA. Multi-model simulations of chicken limb morphogenesis Lecture Notes in Computer Science (Including Subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). 2659: 39-49.  0.689
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