Preprint Efficient stochastic sampling of first-passage times with applications to self-assembly simulations 2008 Misra N, Schwartz R
Journal Article Exploring the parameter space of complex self-assembly through virus capsid models 2008 • Biophysical Journal • 94(3):772-783 Sweeney B, Zhang T, Schwartz R
Journal Article Mixed integer linear programming for maximum-parsimony phylogeny inference 2008 • IEEE/ACM Transactions on Computational Biology and Bioinformatics • 5(3):323-331 Sridhar S, Lam F, Blelloch GE, Ravi R, Schwartz R
Conference Network-based inference of cancer progression from microarray data 2008 • Lecture Notes in Computer Science • 4983:268-+ Park Y, Shackney S, Schwartz R
Journal Article Pathway complexity of model virus capsid assembly systems 2008 • Computational and Mathematical Methods in Medicine • 9(3-4):277-293 Misra N, Lees D, Zhang T, Schwartz R
Journal Article Simulated de novo assembly of Golgi compartments by selective cargo capture during vesicle budding and targeted vesicle fusion 2008 • Biophysical Journal • 95(4):1674-1688 Gong H, Sengupta D, Linstedt AD, Schwartz R
Journal Article Stochastic off-lattice modeling of molecular self-assembly in crowded environments by Green's function reaction dynamics 2008 • Physical Review E: Statistical, Nonlinear, and Soft Matter Physics • 78(3): Lee B, LeDuc PR, Schwartz R
Journal Article A comparative genomics approach to identifying the plasticity transcriptome 2007 • BMC Neuroscience • 8: Pfenning AR, Schwartz R, Barth AL
Conference Algorithms for efficient near-perfect phylogenetic tree reconstruction in theory and practice 2007 • IEEE/ACM Transactions on Computational Biology and Bioinformatics • 4(4):561-571 Sridhar S, Dhamdhere K, Blelloch GE, Halperin E, Ravi R, Schwartz R
Conference Characterizing the parameter space of complex self-assembly reactions through quantitative discrete event simulations 2007 • Biophysical Journal • 533A-534A Zhang T, Sweeney B, Kim H, Lee B, Schwartz R
Journal Article Computational models of molecular self-organization in cellular environments 2007 • Cell Biochemistry and Biophysics • 48(1):16-31 LeDuc P, Schwartz R
Journal Article Direct maximum parsimony phylogeny reconstruction from genotype data 2007 • BMC Bioinformatics • 8: Sridhar S, Lam F, Blelloch GE, Ravi R, Schwartz R
Conference Efficiently finding the most parsimonious phylogenetic tree via linear programming 2007 • Lecture Notes in Computer Science • 4463:37-+ Sridhar S, Lam F, Blelloch GE, Ravi R, Schwartz R
Journal Article Evolution of genes and genomes on the <i>Drosophila</i> phylogeny 2007 • Nature • 450(7167):203-218 Schwartz R, and others
Journal Article Investigating scaling effects on virus capsid-like self-assembly using discrete event simulations 2007 • IEEE Transactions on Nanobioscience • 6(3):235-241 Zhang T, Kim WT, Schwartz R
Journal Article Modeling molecular interactions to understand spatial crowding effects on heterodimer formations 2007 • Physical Review E: Statistical, Nonlinear, and Soft Matter Physics • 76(4): Puskar KM, Parisi-Amon A, Ta'asan S, Schwartz R, LeDuc PR
Conference Reconstructing tumor phylogenies from heterogeneous single-cell data 2007 • Journal of Bioinformatics and Computational Biology • 5(2 A):407-427 Pennington G, Smith CA, Shackney S, Schwartz R
Journal Article RECONSTRUCTING TUMOR PHYLOGENIES FROM HETEROGENEOUS SINGLE-CELL DATA 2007 • Journal of Bioinformatics and Computational Biology • 5(02a):407-427 PENNINGTON G, SMITH CA, SHACKNEY S, SCHWARTZ R
Journal Article Stochastic Modelling for Systems Biology.Darren J. Wilkinson 2007 • Briefings in Bioinformatics • 8(3):204-205 Schwartz R
Journal Article Evaluating spatial constraints in cellular assembly processes using a Monte Carlo approach 2006 • Cell Biochemistry and Biophysics • 45(2):195-201 Puskar K, Ta'asan S, Schwartz R, LeDuc PR
Conference EXPECTATION-MAXIMIZATION METHOD FOR RECONSTRUCTING TUMOR PHYLOGENIES FROM SINGLE-CELL DATA 2006 371-380 Pennington G, Smith CA, Shackney S, Schwartz R
Journal Article Expectation-maximization method for reconstructing tumor phylogenies from single-cell data. 2006 • Computational systems bioinformatics / Life Sciences Society. Computational Systems Bioinformatics Conference • 371-380 Pennington G, Smith CA, Shackney S, Schwartz R
Conference Fixed parameter tractability of binary near-perfect phylogenetic tree reconstruction 2006 • Lecture Notes in Computer Science • 4051:667-678 Blelloch GE, Dhamdhere K, Halperin E, Ravi R, Schwartz R, Sridhar S
Journal Article Frequencies of hydrophobic and hydrophilic runs and alternations in proteins of known structure 2006 • Protein Science • 15(1):102-112 Schwartz R, King J
Journal Article HER2 expression as a potential marker for response to therapy targeted to the EGFR 2006 • British Journal of Cancer • 94(8):1144-1153 Emlet DR, Schwartz R, Brown KA, Pollice AA, Smith CA, Shackney SE
