Publications
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2014. BlindCall: ultra-fast base-calling of high-throughput sequencing data by blind deconvolution.. Bioinformatics. 30(9):1214-9.
2012. BclAF1 restriction factor is neutralized by proteasomal degradation and microRNA repression during human cytomegalovirus infection. Proceedings of the National Academy of Sciences. 109(24):9575-9580.
2011. Accurate proteome-wide protein quantification from high-resolution 15N mass spectra. Genome Biology. 12(12):R122.
2008. Uncovering Genomic Reassortments among Influenza Strains by Enumerating Maximal Bicliques. IEEE International Conference on Bioinformatics and Biomedicine, 2008. BIBM '08.
1995. Transforming men into mice (polynomial algorithm for genomic distance problem). Foundations of Computer Science, Annual IEEE Symposium on.
1995. Transforming cabbage into turnip: polynomial algorithm for sorting signed permutations by reversals. Proceedings of the twenty-seventh annual ACM symposium on Theory of computing.
1996. To cut… or not to cut (applications of comparative physical maps in molecular evolution). Proceedings of the seventh annual ACM-SIAM symposium on Discrete algorithms.
1994. A SIMD solution to the sequence comparison problem on the MGAP. International Conference on Application Specific Array Processors, 1994. Proceedings.
2002. Sequencing the human genome. Proceedings of the sixth annual international conference on Computational biology.
1991. Parallel transitive closure computations using topological sort. Proceedings of the First International Conference on Parallel and Distributed Information Systems, 1991.
2007. Optimizing mpf queries. Proceedings of the 2007 ACM SIGMOD international conference on Management of data - SIGMOD '07.
2010. MetaPhyler: Taxonomic profiling for metagenomic sequences. 2010 IEEE International Conference on Bioinformatics and Biomedicine (BIBM).
2011. MDMap: A system for data-driven layout and exploration of molecular dynamics simulations. Biological Data Visualization (BioVis), 2011 IEEE Symposium on.
2007. Knowledge discovery using the sand spatial browser. Proceedings of the 8th annual international conference on Digital government research: bridging disciplines & domains.
2009. Inexact Local Alignment Search over Suffix Arrays. IEEE International Conference on Bioinformatics and Biomedicine, 2009. BIBM '09.
2007. A graph-based approach to vehicle tracking in traffic camera video streams. Proceedings of the 4th workshop on Data management for sensor networks: in conjunction with 33rd International Conference on Very Large Data Bases.
2010. Exploring Biological Network Dynamics with Ensembles of Graph Partitions. Proceedings of the PSB Pacific Symposium on Biocomputing. 15
2002. Experimental Construction of Very Large Scale DNA Databases with Associative Search. DNA computing: 7th International Workshop on DNA-Based Computers, DNA 7, Tampa, FL, USA, June 10-13, 2001: revised papers. 7
2001. Efficient perspective-accurate silhouette computation and applications. Proceedings of the seventeenth annual symposium on Computational geometry.
1992. Efficient algorithms for computing matching and chromatic polynomials on series-parallel graphs. Fourth International Conference on Computing and Information, 1992. Proceedings. ICCI '92.
2003. Dynamic querying for pattern identification in microarray and genomic data. 2003 International Conference on Multimedia and Expo, 2003. ICME '03. Proceedings. 3
1993. A distributed algorithm for ear decomposition. Fifth International Conference on Computing and Information, 1993. Proceedings ICCI '93.
2009. A cooperative combinatorial Particle Swarm Optimization algorithm for side-chain packing. IEEE Swarm Intelligence Symposium, 2009. SIS '09.
2011. Computing the Tree of Life: Leveraging the Power of Desktop and Service Grids. Parallel and Distributed Processing Workshops and Phd Forum (IPDPSW), 2011 IEEE International Symposium on.