Publications

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Mastronardi N, O'Leary DP.  2007.  Fast Robust Regression Algorithms for Problems with Toeplitz Structure. Computational Statistics and Data Analysis. 52:2:1119-1131.
O'Leary DP.  1987.  Fine and Medium Grained Parallel Algorithms for Matrix QR Factorization. Algorithms and Applications on Vector and Parallel ComputersAlgorithms and Applications on Vector and Parallel Computers. :347-349.
Liao HS, Osada M, Shneiderman B.  1992.  A formative evaluation of three interfaces for browsing directories using dynamic queries.
Katz J, Ostrovsky R, Yung M.  2003.  Forward secrecy in password-only key exchange protocols. Proceedings of the 3rd international conference on Security in communication networks. :29-44.
Mendonca MG, Maldonado JC, de Oliveira MCF, Carver J, Fabbri CPF, Shull F, Travassos GH, Hohn EN, Basili VR.  2008.  A Framework for Software Engineering Experimental Replications. Engineering of Complex Computer Systems, 2008. ICECCS 2008. 13th IEEE International Conference on. :203-212.
O'Leary DP, Stewart G.W.  1987.  From Determinacy to Systaltic Arrays. Computers, IEEE Transactions on. C-36(11):1355-1359.
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O'Leary DP.  1980.  A generalized conjugate gradient algorithm for solving a class of quadratic programming problems. Linear Algebra and its Applications. 34:371-399.
Concus P, Golub GH, O'Leary DP.  1976.  A Generalized Conjugate Gradient Method for the Numerical Solution of Elliptic Partial Differential Equations. Sparse Matrix ComputationsSparse Matrix Computations. :309-332.
Cummings MP, Otto SP, Wakeley J.  1999.  Genes and other samples of DNA sequence data for phylogenetic inference. The Biological Bulletin. 196(3):345-350.
Clayton C, Adams M, Almeida R, Baltz T, Barrett M, Bastien P, Belli S, Beverley S, Biteau N, Blackwell J et al..  1998.  Genetic nomenclature for Trypanosoma and Leishmania.. Molecular and biochemical parasitology. 97(1-2):221-221.
Salzberg SL, Kingsford C, Cattoli G, Spiro DJ, Janies DA, Aly M M, Brown IH, Couacy-Hymann E, De Mia G M, Dung D H et al..  2007.  Genome Analysis Linking Recent European and African Influenza (H5N1) Viruses. Emerging Infectious DiseasesEmerg Infect Dis. 13(5):713-718.
Berriman M, Ghedin E, Hertz-Fowler C, Blandin G, Renauld H, Bartholomeu DC, Lennard NJ, Caler E, Hamlin NE, Haas B et al..  2005.  The genome of the African trypanosome Trypanosoma brucei. Science. 309(5733):416-416.
Loftus B, Anderson I, Davies R, Alsmark UCM, Samuelson J, Amedeo P, Roncaglia P, Berriman M, Hirt RP, Mann BJ et al..  2005.  The genome of the protist parasite Entamoeba histolytica. Nature. 433(7028):865-868.
Adams MD, Celniker SE, Holt RA, Evans CA, Gocayne JD, Amanatides PG, Scherer SE, Li PW, Hoskins RA, Galle RF et al..  2000.  The genome sequence of Drosophila melanogaster. Science. 287(5461):2185-2185.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma Cruzi, Etiologic Agent of Chagas Disease. ScienceScience. 309(5733):409-415.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease. Science. 309(5733):409-415.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma Cruzi, Etiologic Agent of Chagas Disease. ScienceScience. 309(5733):409-415.
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran AN, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The genome sequence of Trypanosoma cruzi, etiologic agent of Chagas disease. Science. 309(5733)
El-Sayed NM, Myler PJ, Bartholomeu DC, Nilsson D, Aggarwal G, Tran A-N, Ghedin E, Worthey EA, Delcher AL, Blandin G et al..  2005.  The Genome Sequence of Trypanosoma cruzi, Etiologic Agent of Chagas Disease. Science. 309(5733):409-415.
Chen PE, Cook C, Stewart AC, Nagarajan N, Sommer DD, Pop M, Thomason B, Thomason MPK, Lentz S, Nolan N et al..  2010.  Genomic characterization of the Yersinia genus. Genome biology. 11(1)
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Bhatia M, Chi P, Chong W, Josyula DP, Okamoto Y, Perlis D, Purang K.  2001.  Handling uncertainty with active logic. In Proceedings, AAAI Fall Symposium on Uncertainty in Computation.
Ceaparu I, Druin A, Guimbretiere F, Manipulation D, Shneiderman B, Westerlurid B, Keogh E, Hochheiser H, Shrieidemian B, Shneidemiari B et al..  2003.  HCIL Technical Report Listing (1993-2002). The craft of information visualization: readings and reflections. 27(29):393-393.
Owens RM, JaJa JF.  1985.  A High-Level Interactive System for Designing VLSI Signal Processors. ISR-TR-1985-7
Anderson ML, Schmill M, Oates T, Perlis D, Josyula D, Wright D, Human SWTDN, Metacognition L, Fults S, Josyula DP.  2007.  Hood College, Master of Business Administration, 2005 Hood College, Master of Science (Computer Science), 2001 Hood College, Bachelor of Science (Computer Science), 1998 Frederick Community College, Associate in Arts (Business Administration), 1993. Proceedings of the Workshop on Metareasoning in Agent-Based Systems.
Dunlavy DM, O'Leary DP, Klimov D, Thirumalai D.  2005.  HOPE: A Homotopy Optimization Method for Protein Structure Prediction. Journal of Computational Biology. 12(10):1275-1288.

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