Journal Article Single-Cell Genetic Analysis of Ductal Carcinoma <i>in Situ</i> and Invasive Breast Cancer Reveals Enormous Tumor Heterogeneity yet Conserved Genomic Imbalances and Gain of <i>MYC</i> during Progression 2012 • American Journal of Pathology • 181(5):1807-1822 Heselmeyer-Haddad K, Garcia LYB, Bradley A, Ortiz-Melendez C, Lee W-J, Christensen R, Prindiville SA, Calzone KA, Soballe PW, Hu Y, Chowdhury SA, Schwartz R, Schaeffer AA, Ried T
Journal Article Stochastic steady state gain in a gene expression process with mRNA degradation control 2012 • Journal of the Royal Society Interface • 9(72):1589-1598 Kuwahara H, Schwartz R
Journal Article Surveying Capsid Assembly Pathways through Simulation-Based Data Fitting 2012 • Biophysical Journal • 103(7):1545-1554 Xie L, Smith GR, Feng X, Schwartz R
Journal Article Three-Dimensional Stochastic Off-Lattice Model of Binding Chemistry in Crowded Environments 2012 • PLoS ONE • 7(1): Lee B, LeDuc PR, Schwartz R
Conference Translating Bulk Measures of Capsid Assembly Progress into Insights on Fine-Scale Kinetics and Pathways 2012 • Biophysical Journal • 102(3):640A-640A Smith GR, Xie L, Feng X, Lee B, Schwartz R
Conference A coarse-Grained Monte Carlo Model of Cytoskeletal Actin Filament Alignment under Cyclic Stretch 2011 • Biophysical Journal • 100(3):34-34 Kang J, Steward RL, Kim Y, Schwartz RS, LeDuc PR, Puskar KM
Journal Article A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure 2011 • IEEE/ACM Transactions on Computational Biology and Bioinformatics • 8(4):918-928 Tsai M-C, Blelloch G, Ravi R, Schwartz R
Journal Article An Optimization-Based Sampling Scheme for Phylogenetic Trees 2011 • Journal of Computational Biology • 18(11):1599-1609 Misra N, Blelloch G, Ravi R, Schwartz R
Conference An Optimization-Based Sampling Scheme for Phylogenetic Trees 2011 • Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) • 6577:252-+ Misra N, Blelloch G, Ravi R, Schwartz R
Conference Approximate Dynamic Programming using Halfspace Queries and Multiscale Monge Decomposition 2011 • PROCEEDINGS OF THE TWENTY-SECOND ANNUAL ACM-SIAM SYMPOSIUM ON DISCRETE ALGORITHMS • 1675-1682 Miller GL, Peng R, Schwartz R, Tsourakakis C
Journal Article Approximation algorithms for speeding up dynamic programming and denoising aCGH data 2011 • Journal of Experimental Algorithmics • 16:1.1-1.27 Tsourakakis CE, Peng R, Tsiarli MA, Miller GL, Schwartz R
Journal Article Generalized Buneman Pruning for Inferring the Most Parsimonious Multi-State Phylogeny 2011 • Journal of Computational Biology • 18(3):445-457 Misra N, Blelloch G, Ravi R, Schwartz R
Conference Inference of tumor phylogenies from genomic assays on heterogeneous samples 2011 172-181 Subramanian A, Shackney S, Schwartz R
Conference Phylogenetics of Heterogeneous Samples 2011 • Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) • 6674:1-1 Schwartz R
Journal Article Response of an actin filament network model under cyclic stretching through a coarse grained Monte Carlo approach 2011 • Journal of Theoretical Biology • 274(1):109-119 Kang J, Steward RL, Kim Y, Schwartz RS, LeDuc PR, Puskar KM
Journal Article Toward a Unified Model of Molecular Crowding: A Regression Approach to Predict Equilibria and Kinetics of Assembly Systems in Crowded Environments 2011 • Biophysical Journal • 100(3):613a Lee B, LeDuc PR, Schwartz R
Journal Article Towards novel marker discovery from phylogenetic analysis of heterogeneous tumor samples 2011 • Cancer Research • 71: Subramanian A, Shackney S, Schwartz R
Journal Article Unified regression model of binding equilibria in crowded environments 2011 • Scientific Reports • 1: Lee B, LeDuc PR, Schwartz R
Conference A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure 2010 • Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) • 6053:167-+ Tsai M-C, Blelloch G, Ravi R, Schwartz R
Journal Article A parameter estimation technique for stochastic self-assembly systems and its application to human papillomavirus self-assembly 2010 • Physical Biology • 7(4): Kumar MS, Schwartz R
Journal Article Applying unmixing to gene expression data for tumor phylogeny inference 2010 • BMC Bioinformatics • 11: Schwartz R, Shackney SE
Preprint Approximate Dynamic Programming using Halfspace Queries and Multiscale Monge decomposition 2010 Miller GL, Peng R, Schwartz R, Tsourakakis CE
Preprint CGHTRIMMER: Discretizing noisy Array CGH Data 2010 Tsourakakis CE, Tolliver D, Tsiarli MA, Shackney S, Schwartz R
Journal Article Discrete, continuous, and stochastic models of protein sorting in the Golgi apparatus 2010 • Physical Review E: Statistical, Nonlinear, and Soft Matter Physics • 81(1): Gong H, Guo Y, Linstedt A, Schwartz R
Conference Generalized Buneman Pruning for Inferring the Most Parsimonious Multi-state Phylogeny 2010 • Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics) • 6044:369-+ Misra N, Blelloch G, Ravi R, Schwartz R
