Phone: (814) 466-2049
Email: jkarro at acm dot org
Office: 506B Wartik
Current research projects:
Peifer, M., Karro, J.E. and von Gruenberg, H.H., "Evidence againt the acceleration of the CpG transition rate during the mammalian radiaton", Molecular Biology and Evolution (in review)
Karro, J., Yan, Y., Zheng, D., Zhaolei, Z., Carriero, N., Harrison, P. and Gerstein, M., " Pseudogene.org: A comparison platform and comprehensive resource for pseudogene annorations", Nucleic Acids Research, v. 35(Database issue), Jan. 2007, pp.D55-60
Zheng, Z., Carriero, N., Zhang, D., Karro, J., Harrison, P. and Gerstein, M., "PseudoPipe: an automated pseudogene identification pipeline", Bioinformatics , v. 22(1), June 2006, pp. 1437-9
Bertone, P, Trifonov, V., Rozowsky, J., Schubert, F., Emanuelsson, O., Karro, J. , Kao, M.Y., Snyder, M. and Gerstein, M., "Design optimization methods for genomic DNA tiling arrays ", Genome Research, v. 16(2), Feb. 2006, pp. 271-81
Zheng, D., Zhang, Z., Harrison, P.M., Karro, J., Carriero, N. and Gerstein, M., "Integrated pseudogene annotation for human chromosome 22: evidence for transcription", Journal of Molecular Biology , v. 349(1), May 2005, pp. 27-45
Yu, H., Zhu, Xiaowei, Greenbaum, D., Karro, J., and Gerstein, M., " TopNet: a tool for comparing biological sub-networks, correlating protein properties with topological statistics ", Nucleic Acids Research , v. 32(1), 2004, pp. 328-337
J. Cohoon, J. Karro and J. Lienig, "Evolutionary Algorithms for the Physical Design of VLSI Circuits: A Survey," Theory and Applications of Evolutionary Computation: Recent Trends, Ghosh, A. and Tsturi, S., Springer-Verlag, to be published.
J. Karro and J. Cohoon, "Gambit: A Tool for the Simultaneous Placement and Detailed Routing of Gate-Arrays," 11th International Conference on Field Programmable Logic and Applications, Belfast, Northern Ireland, Aug. 2001, pp. 243-253.
J. Karro and J. Cohoon., An Approach to the Physical Design Problems of 3D-FPGAs," International Symposium on Circuits and Systems, Iasi, Rumania, July 1999, pp. 69-72.
J. Karro and J. Cohoon, "A Spiffy Tool for the Simultaneous Placement and Global Routing for Three-Dimensional Field Programmable Gate Arrays," Ninth Great Lakes Symposium on VLSI, Ann Arbor, Michigan, March 1999, pp. 226-227
J. Cohoon, J. Karro, W. Martin, K. Nagel, and W. Neible, "Perturbation method for probabilistic search for the Traveling Salesperson Problem," (invited paper) Application and Science of Neural Networks, SPIE 1998, pp. 118-127.
J.L. Pfaltz, J. Karro and S. McCulloch, "Distance in Anti-Matroids," Congressus Numerantium, 1997, pp. 5-22.
J. Karro and C.K. Li," A Unified Elementary Approach to Cononical Forms of Matricies," SIAM Review, 39:2, June 1997, pp. 305-309.
M. Alexander, J.P. Cohoon, J. Karro, E.L. Peters, and G. Robins, "Placement and Routing for Three-Dimensional FPGAs", Fourth Canadian Workshop on Field-Programmable Devices, Toronto, Canada, May 1996, pp. 11-18.
M. Alexander, J.P. Cohoon, J. Karro, E.L. Peters, and G. Robins, "Physical Layout for Three-Dimensional FPGAs," ACM/SIGDA Physical Design Workshop, Reston, VA, April 1996, pp. 142-149.
"The goal of Computer Science is to build something that will last at least until we have finished building it."