Under Review

1. Ravi Vijaya Satya and Amar Mukherjee. The Undirected Incomplete Perfect Phylogeny Problem. CS-TR-05-11. Technical Report, December 12^th, 2005. School of Computer Science, University of Central Florida. Under review by IEEE transactions on Bioinformatics and Computational Biology.

Journal Publications

1. Ravi Vijaya Satya, Amar Mukherjee, Gabriela Alexe, Laxmi Parida and Gyan Bhanot. Constructing Near-Perfect Phylogenies with Multiple Homoplasy Events. ISMB 2006 (Special issue of Bioinformatics), 22 (14), pp e514-522. 2006. pdf link

2. Ravi Vijaya Satya and Amar Mukherjee. An Optimal Algorithm for Perfect Phylogeny Haplotyping. Journal of Computational Biology, 13(4), 897-928. 2006. pdf

3. V. Shaoulov, R. V. Satya, G. Schiavone, E. Clarkson, and J. Rolland. Model of Wide-angle Optical Field Propagation Using Scalar Diffraction Theory. Special Issue of Optical Engineering on Illumination Optics (2004). pdf

4. Donald A. Washburn, Lauriann M. Jones, Ravi Vijaya Satya, Clint A. Bowers, and Art Cortes. Olfactory Use in Virtual Environment Training. Modeling and Simulation, vol. 2, no. 3, 2003. pp. 19-25. link

Conference Publications

5. Ravi Vijaya Satya and Amar Mukherjee. An Efficient Algorithm for Perfect Phylogeny Haplotyping. Proceeding of CSB 2005, Aug 8-11. 2005. Stanford, CA. pdf

6. Ravi Vijaya Satya and Amar Mukherjee. New Algorithms for Finding Monad Patterns in DNA Sequences. Proceedings of SPIRE 2004, Oct 5-8, 2004 Padova, Italy. pdf

7. Ravi Vijaya Satya, Amar Mukherjee and UdayKumar Ranga. A Pattern matching algorithm for codon optimization and CpG-motif engineering in DNA expression vectors. Proceeding of CSB 2003, Aug 11-14 2003, Stanford, CA. pdf

8. Tao Tao, Amar Mukherjee and Ravi Vijaya Satya. A search-aware JPEG-LS Variation for Compressed Image Retrieval. International Symposium on Intelligent Multimedia, Video & Speech Processing. October 20-22, 2004

9. Nan Zhang, Tao Tao, Ravi Vijaya Satya, and Amar Mukherjee. Modified LZW algorithm for efficient compressed text retrieval. International conference on information technology: coding and computing, Las Vegas, Nevada. 2004.

Book Chapter

10. Amar Mukherjee, Nan Zhang, Tao Tao, Ravi Vijaya Satya, and Weifeng Sun. Search and retrieval of compressed text. In Advances in Computers, Vol. 63. Edited by Ali R. Hurson, Elsevier Academic Press, 2005.

Grant Proposal

Played a major role in the submission of an NSF grant proposal titled – “Algorithms for Haplotype Inference and Block Partitioning”. The proposal is based on my dissertation work.

Posters

· Gyan Bhanot, Gabriela Alexe, Daniel Platt, Ravi Vijaya Satya, Laxmi Parida, Saharon Rosset and Ajay Royyuru “Clustering, Patterns, Trees and Common Origins:  An Analysis of Complete mtDNA Sequences”. Recomb 2006.

· Ravi Vijaya Satya and Amar Mukherjee “Pruner: Algorithms for finding monad patterns in DNA sequences”. Proceeding of CSB 2004, Aug 16-19. 2004. Stanford, CA.