Russell Schwartz

Daniele Catanzaro, Ramamoorthi Ravi, Russell Schwartz: A mixed integer linear programming model to reconstruct phylogenies from single nucleotide polymorphism haplotypes under the maximum parsimony criterion. Algorithms for Molecular Biology 8: 3 (2013)

Lonnie R. Welch, Russell Schwartz, Fran Lewitter: A Report of the Curriculum Task Force of the ISCB Education Committee. PLoS Computational Biology 8(6) (2012)

Ming-Chi Tsai, Guy E. Blelloch, Russell Schwartz, R. Ravi: Coalescent-based method for learning parameters of admixture events from large-scale genetic variation data. BCB 2012: 90-97

Ayshwarya Subramanian, Stanley Shackney, Russell Schwartz: Novel Multi-sample Scheme for Inferring Phylogenetic Markers from Whole Genome Tumor Profiles. ISBRA 2012: 250-262

Leonidas G. Bleris, Ion I. Mandoiu, Russell Schwartz, Jianxin Wang (Eds.): Bioinformatics Research and Applications - 8th International Symposium, ISBRA 2012, Dallas, TX, USA, May 21-23, 2012. Proceedings. Lecture Notes in Computer Science 7292, Springer 2012, isbn 978-3-642-30190-2

Navodit Misra, Guy E. Blelloch, R. Ravi, Russell Schwartz: Generalized Buneman Pruning for Inferring the Most Parsimonious Multi-State Phylogeny. Journal of Computational Biology 18(3): 445-457 (2011)

Navodit Misra, Guy E. Blelloch, R. Ravi, Russell Schwartz: An Optimization-Based Sampling Scheme for Phylogenetic Trees. Journal of Computational Biology 18(11): 1599-1609 (2011)

Charalampos E. Tsourakakis, Richard Peng, Maria A. Tsiarli, Gary L. Miller, Russell Schwartz: Approximation algorithms for speeding up dynamic programming and denoising aCGH data. ACM Journal of Experimental Algorithmics 16 (2011)

Ming-Chi Tsai, Guy E. Blelloch, R. Ravi, Russell Schwartz: A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure. IEEE/ACM Trans. Comput. Biology Bioinform. 8(4): 918-928 (2011)

Ayshwarya Subramanian, Stanley Shackney, Russell Schwartz: Inference of tumor phylogenies from genomic assays on heterogeneous samples. BCB 2011: 172-181

Russell Schwartz: Phylogenetics of Heterogeneous Samples - (Keynote Talk). ISBRA 2011: 1

Navodit Misra, Guy E. Blelloch, R. Ravi, Russell Schwartz: An Optimization-Based Sampling Scheme for Phylogenetic Trees. RECOMB 2011: 252-266

Gary L. Miller, Richard Peng, Russell Schwartz, Charalampos E. Tsourakakis: Approximate Dynamic Programming using Halfspace Queries and Multiscale Monge Decomposition. SODA 2011: 1675-1682

David Tolliver, Charalampos E. Tsourakakis, Ayshwarya Subramanian, Stanley Shackney, Russell Schwartz: Robust unmixing of tumor states in array comparative genomic hybridization data. Bioinformatics [ISMB] 26(12): 106-114 (2010)

Russell Schwartz, Stanley Shackney: Applying unmixing to gene expression data for tumor phylogeny inference. BMC Bioinformatics 11: 42 (2010)

Ming-Chi Tsai, Guy E. Blelloch, R. Ravi, Russell Schwartz: A Consensus Tree Approach for Reconstructing Human Evolutionary History and Detecting Population Substructure. ISBRA 2010: 167-178

Navodit Misra, Guy E. Blelloch, R. Ravi, Russell Schwartz: Generalized Buneman Pruning for Inferring the Most Parsimonious Multi-state Phylogeny. RECOMB 2010: 369-383

Giuseppe Lancia, Romeo Rizzi, Russell Schwartz: Tiling Binary Matrices in Haplotyping: Complexity, Models and Algorithms. Stringology 2010: 89-102

Gary L. Miller, Richard Peng, Russell Schwartz, Charalampos E. Tsourakakis: Approximate Dynamic Programming for Fast Denoising of aCGH Data. CoRR abs/1003.4942 (2010)

Yongjin Park, Stanley Shackney, Russell Schwartz: Network-Based Inference of Cancer Progression from Microarray Data. IEEE/ACM Trans. Comput. Biology Bioinform. 6(2): 200-212 (2009)

Srinath Sridhar, Fumei Lam, Guy E. Blelloch, R. Ravi, Russell Schwartz: Mixed Integer Linear Programming for Maximum-Parsimony Phylogeny Inference. IEEE/ACM Trans. Comput. Biology Bioinform. 5(3): 323-331 (2008)

Steven Gray, Cindy E. Hmelo-Silver, Lei Liu, Rebecca Jordan, Heisawn Jeong, Russell Schwartz, Heather Finkelstein, Daniel Wolsten, Marylee Demeter, Suparna Sinha: Learning with ecosystem models: a tale of two classrooms. ICLS (1) 2008: 289-296

Yongjin Park, Stanley Shackney, Russell Schwartz: Network-Based Inference of Cancer Progression from Microarray Data. ISBRA 2008: 268-279

Russell Schwartz: Stochastic Modelling for Systems Biology: Darren J. Wilkinson. Briefings in Bioinformatics 8(3): 204-205 (2007)

Srinath Sridhar, Fumei Lam, Guy E. Blelloch, R. Ravi, Russell Schwartz: Direct maximum parsimony phylogeny reconstruction from genotype data. BMC Bioinformatics 8 (2007)

Gregory Pennington, Charles A. Smith, Stanley Shackney, Russell Schwartz: Reconstructing Tumor phylogenies from Heterogeneous Single-Cell Data. J. Bioinformatics and Computational Biology 5(2a): 407-427 (2007)

Srinath Sridhar, Kedar Dhamdhere, Guy E. Blelloch, Eran Halperin, R. Ravi, Russell Schwartz: Algorithms for Efficient Near-Perfect Phylogenetic Tree Reconstruction in Theory and Practice. IEEE/ACM Trans. Comput. Biology Bioinform. 4(4): 561-571 (2007)

Srinath Sridhar, Fumei Lam, Guy E. Blelloch, R. Ravi, Russell Schwartz: Efficiently Finding the Most Parsimonious Phylogenetic Tree Via Linear Programming. ISBRA 2007: 37-48

Guy E. Blelloch, Kedar Dhamdhere, Eran Halperin, R. Ravi, Russell Schwartz, Srinath Sridhar: Fixed Parameter Tractability of Binary Near-Perfect Phylogenetic Tree Reconstruction. ICALP (1) 2006: 667-678

Srinath Sridhar, Kedar Dhamdhere, Guy E. Blelloch, Eran Halperin, R. Ravi, Russell Schwartz: Simple Reconstruction of Binary Near-Perfect Phylogenetic Trees. International Conference on Computational Science (2) 2006: 799-806

Natalie Castellana, Kedar Dhamdhere, Srinath Sridhar, Russell Schwartz: Relaxing Haplotype Block Models for Association Testing. Pacific Symposium on Biocomputing 2006: 454-466

Tiequan Zhang, Rori Rohlfs, Russell Schwartz: Implementation of a discrete event simulator for biological self-assembly systems. Winter Simulation Conference 2005: 2223-2231

Russell Schwartz: Algorithms for Association Study Design Using a Generalized Model of Haplotype Conservation. CSB 2004: 90-97

Russell Schwartz, Bjarni V. Halldórsson, Vineet Bafna, Andrew G. Clark, Sorin Istrail: Robustness of Inference of Haplotype Block Structure. Journal of Computational Biology 10(1): 13-19 (2003)

Liliana Florea, Bjarni V. Halldórsson, Oliver Kohlbacher, Russell Schwartz, Stephen Hoffman, Sorin Istrail: Epitope Prediction Algorithms for Peptide based Vaccine Design. CSB 2003: 17-26

Russell Schwartz: Haplotype Motifs: An Algorithmic Approach to Locating Evolutionarily Conserved Patterns in Haploid Sequences. CSB 2003: 306-315

Vineet Bafna, Bjarni V. Halldórsson, Russell Schwartz, Andrew G. Clark, Sorin Istrail: Haplotypes and informative SNP selection algorithms: don't block out information. RECOMB 2003: 19-27

Ross Lippert, Russell Schwartz, Giuseppe Lancia, Sorin Istrail: Algorithmic strategies for the single nucleotide polymorphism haplotype assembly problem. Briefings in Bioinformatics 3(1): 23-31 (2002)

Russell Schwartz, Andrew G. Clark, Sorin Istrail: Inferring Piecewise Ancestral History from Haploid Sequences. Computational Methods for SNPs and Haplotype Inference 2002: 62-73

Russell Schwartz, Andrew G. Clark, Sorin Istrail: Methods for Inferring Block-Wise Ancestral History from Haploid Sequences. WABI 2002: 44-59

Giuseppe Lancia, Vineet Bafna, Sorin Istrail, Ross Lippert, Russell Schwartz: SNPs Problems, Complexity, and Algorithms. ESA 2001: 182-193

Russell J. Turner, Kabir Chaturvedi, Nathan Edwards, Daniel P. Fasulo, Aaron L. Halpern, Daniel H. Huson, Oliver Kohlbacher, Jason R. Miller, Knut Reinert, Karin A. Remington, Russell Schwartz, Brian Walenz, Shibu Yooseph, Sorin Istrail: Visualization challenges for a new cyberpharmaceutical computing paradigm. IEEE Symposium on Parallel and Large-Data Visualization and Graphics 2001: 7-18

Bonnie Berger, Jonathan A. King, Russell Schwartz, Peter W. Shor: Local rule mechanism for selecting icosahedral shell geometry. Discrete Applied Mathematics 104(1-3): 97-111 (2000)

Sorin Istrail, Russell Schwartz, Jonathan A. King: Lattice Simulations of Aggregation Funnels for Protein Folding. Journal of Computational Biology 6(2): 143-162 (1999)