Department of Bioinformatics and Computational Biology  George Mason University

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Publications 1997-2001


Blackwell K.T. (2001). Propagation of calcium waves in the Hermissenda type B photoreceptor. Neurocomputing, 38-40: 1-7.

Blackwell K.T., Plenz D. (2001). Amplitude distribution and frequency of post-synaptic events in striatal neurons during the down-state. Soc. Neurosci Abs. 27:67.13.

Kinser J.M. (2001). Development of a Web Image Browser Through Image Signatures, Proc. of the 5th IASTED Intl. Conf. on Software Engineering and Applications, 32-36.

Kinser J.M. (2001). Image Signatures: Classification and Ontology, Proc. of the 4th IASTED Intl. Conf. on Computer Graphics and Imaging.

Mazumder R., Kolaskar A., Seto D (2001). Gene Order: Comparing the order of genes in small genomes. Bioinformatics 17: 162-166.

Nash H., Blair D., Grefenstette J. (2001). Comparing algorithms for large-scale sequence analysis. Proc. 2nd IEEE Int. Symp. on Bioinformatics and Biomedical Engineering (BIBE 2001), Rockville MD., 89-96.

Yang K.H., Kotaleski J.H., Blackwell K.T. (2001). The role of protein kinase C in the biochemical pathways of classical conditioning. Neurocomputing, 38-40:79-85.

Zafar N., Mazumder R., Seto D. (2001). Comparisons of gene co-linearity in genomes using GeneOrder2.0.Trends in Biochemical Sciences 26: 514-516.


Amaral Zettler L.A., Nerad T.A., O'Kelly C. J., Peglar M.T., Gillevet P.M., Silberman J.D., Sogin M.L. (2000) A molecular Reassessment of the Leptomyxid Amoebae. Protist 151, 275-282

Blackwell K.T. (2000) Characteristics of the light induced currents in Hermissenda. Neurocomputing. 32-33:45-49.

Blackwell K.T. (2000) Evidence for a distinct light-induced calcium-dependent potassium current in Hermissenda crassicornis. J. Computational Neuroscience 9:149-170 Abstract.

Blackwell K.T. (2000) Light-induced currents of the Hermissenda type B photoreceptor. Soc. Neurosci Abs. 26: 2032

Ellsworth R.E., Jamison D.C., Touchman J.W., Chissoe S.L., Braden Maduro V.V., Bouffard G.G., Dietrich N.L., Beckstrom-Sternberg S.M., Iyer L.M., Weintraub L.A., Cotton M., Courtney L., Edwards J., Maupin R., Ozersky P., Rohlfing T., Wohldmann P., Miner T., Kemp K., Kramer J., Korf I., Pepin K., Antonacci-Fulton L., Fulton R.S., Minx P., Hillier L.W., Wilson R.K., Waterston R.H., Miller W., Green D. (2000) Comparative genomic sequence analysis of the human and mouse cystic fibrosis transmembrane conductance regulator genes. Proc Natl Acad Sci USA. 97(3):1172-7.

Jamison DC, Thomas JW, Green ED (2000). ComboScreen facilitates the multipex hybridization-based screening of high-density clone arrays. Bioinformatics 16(8):678-84. PMID: 11099254

Kinser J.M. (2000) Composite fractional power wavelets, Proc. SPIE, 4056, 443-441.

Kinser J.M. (2000) Minimum number of hidden neurons does not necessarily provide the best generalization, Proc. SPIE, 4055, 11-17.

Kinser J.M. (2000) Mining DNA Data in an Efficient 2D Optical Architecture, Proc. SPIE, Optical Computing, Quebec, 4089, 104-110.

Kinser J.M. (2000) Parameter estimation using dual fractional power filters, Proc. SPIE, 4044, 29-36.

Kinser J.M., Nguyen C. (2000) Image object signatures from centripetal autowaves, Pattern Recognition Letters, 21(3), 221-225.

Kinser J.M., Nguyen C. (2000) Pulse image processing using centripetal autowaves, Proc. SPIE, 4052, 278-284.

Kinser J. M., Waldemark K., Lindblad T., Jacobsson S.P. (2000) Multidimensional Pulse Image Processing of Chemical Structure Data, Chemom. Intell. Lab. Syst., 51 115-124.

Kotaleski J.H, Yang K.-H., Blackwell K.T. (2000) The role of PKC in temporal specificity of classical conditioning of Purkinje cells. Soc. Neurosci Abs. 26:718.

Lai C.S., Fisher S.E., Hurst J.A., Levy E.R., Hodgson S., Fox M., Jeremiah S., Povey S., Jamison D.C., Green E.D., Vargha-Khadem F., Monaco A.P. (2000) The SPCH1 region on human 7q31: genomic characterization of the critical interval and localization of translocations associated with speech and language disorder. Am J Hum Genet.67(2):357-68.

Rughooputh H.C., Rughooputh S.D., Kinser J.M. (2000) Automatic inspection of road surfaces, Proc. SPIE, 3966, 349-357.

Rughooputh H.C., Rughooputh, S.D., Kinser J.M. (2000) Neural network based automated texture classification system, Proc. SPIE, 3966, 340-349.

Schultz A.C., Grefenstette J. (2000). Continuous and embedded learning in autonomous vehicles: Adapting to sensor failures. Proc. SPIE Int. Symp. On Aerospace/Defense Sensing, Simulation and Controls (AeroSense 2000), Orlando, FL.

Thomas J.W., Summers T.J., Lee-Lin S.Q., Maduro V.V., Idol J.R., Mastrian S.D., Ryan J.F., Jamison D.C., Green E.D. (2000 ) Comparative genome mapping in the sequence-based era: early experience with human chromosome 7. Genome Res. 10(5):624-33.

Yang K.-H., Blackwell K.T. (2000) Analog pattern matching in a dendritic spine model based on phosphorylation of potassium channels. Network: Computation in Neural Systems. 11:281-297


Allen F.T., Kinser J.M., Caulfield H.J. (1999). A neural bridge from syntactic to statistical pattern recognition. Neural Networks 12(3) pp.519-526.

Blackwell K.T., (1999). Dynamics of light-induced current in Hermissenda. Neurocomputing 26-27: 61-67 Abstract.

Blackwell K.T., Alkon D.L. (1999). Ryanodine receptor modulation of in vitro associative learning in Hermissenda crassicornis. Brain Research 822:114-125 Abstract.

Caulfield H.J., Kinser J.M. (1999). Finding the shortest path in the shortest time using PCNNs, IEEE Trans. on Neural Nets 10(3), 604-607.

Daley R.P., Schultz A.C., Grefenstette J. (1999). Co-evolution of robot behaviors. Proc. SPIE Int. Symp. on Intelligent Systems and Advanced Manufacturing (ISAM 99), Boston, MA.

Grefenstette J. J. (1999). Evolvability in dynamic fitness landscapes: A genetic algorithm approach. Proc. 1999 Congress on Evolutionary Computation. Washington, DC., 2031-2038.

Kinser J.M. (1999). Foveation by a Pulse-Coupled Neural Network, Proc, IEEE Trans. on Neural Nets 10(3), 621-626.

Kinser J.M. (1999). Foveation from Pulse Images, Proc. Of IEEE Conf. On Information Intelligence and Systems, 86-89.

Kinser, J.M., Lindblad Th. (1999). Implementation of the Pulse-Coupled Neural Network in a CNAPS Environment, , IEEE Trans. on Neural Nets 10(3), 591-599.

Kinser, J.M., Lindblad Th. (1999). Inherent Features of Wavelets and Pulse Coupled Neural Networks, IEEE Trans. on Neural Nets 10(3), 607-615.

Krichmar J.L., Blackwell K.T., Barbour G.S., Golovan A.B., Vogl T.P. (1999). A solution to the Feature Correspondence Problem Inspired by Visual Scanpaths. Neurocomputing 26-27: 769 778.

Moriarty D. E., Schultz A.C., Grefenstette J. J. (1999). Evolutionary algorithms for reinforcement learning. Journal of Artificial Intelligence Research 11:199-229.

Winslow R.L., Rice J.J., Jafri M.S., Marban E., O'Rourke B. (1999) Mechanisms of altered excitation-contraction coupling in canine tachycardia-induced heart failure II. model studies. Circ. Res. 84:571-586.

Yang K.-H., Blackwell K.T. (1999). The Role of IA in dendritic spike generation and calcium influx in Purkinje cells. Soc. Neurosci Abs. 25: 914.


Blackwell K.T. (1998). The effect of white and filtered noise on contrast detection thresholds. Vision Research, 38: 267-280 Abstract.

Blackwell K.T., Alkon D.L. (1998). Effect of calcium-induced calcium release on associative learning in Hermissenda crassicronis J. Neurosci (Suppl.) 24:17.

Blackwell K.T., Vogl T.P., Alkon D.L. (1998). Pattern matching in a model of dendritic spines. Network: Computation in Neural Systems. 9: 107-121 Abstract.

Blackwell K.T., Yang K.-H. (1998). Analog pattern matching in a model of dendritic spines. Presented at ICONIP'98-Kitakyushu. Abstract.

Brown M.A., Blackwell K.T., Alkon D.L., Vogl T.P. (1998). Multi-scale edge detection and feature-binding: an integrated approach. Pattern Recognition, 31:1479-1490 Abstract.

Burke D., De Jong K., Grefenstette J., Ramsey C., Wu A. (1998). Putting more genetics into genetic algorithms. Evolutionary Computation 6(4): 387-410.

Harasewych M.G., Adamkewicz S.L., Plassmeyer M., Gillevet P.M. (1998) Phylogenetic Relationships of the Lower Caenogastropoda (Mollusca:Gastropoda: Architaenioglossa, Campaniloidea, Cerithioidea) as Determined by Partial 18S rDNA Sequences. Zool. Scripta 27 (4) 361-372

Hilton G.C., Martinis J.M., Wollman D.A., Irvin K.D., Dulcie L.L., Gerber D., Gillevet P.M., Twerenbold D. (1998). Microcalorimeter Particle Detectors for Mass Spectrometry Nature 391(12) 672-675

Kinser J.M. (1998). Future Projects In Pulse Image Processing, Proc. Of SPIE, 3728, Stockholm, 318-327.

Kinser J.M. (1998). Hardware: Basic Requirements for Implementation, Proc. Of SPIE, 3728, Stockholm, 222-229.

Kinser J.M. (1998). Pulse-Coupled Neural Networks for Cruise Missile Guidance and Mission Planning, Proc. Of SPIE, 3728, Stockholm, 155-164.

Kinser J.M. (1998). Pulse Images for Face Recognition, in Face Recognition from Theory to Applications, H. Wechsler, et. al., eds., Springer Verlag.

Kinser J.M. (1998). Spiral Fusion Using Interchannel Autowaves, Proc. Of SPIE, 3728, Stockholm, 148-154.

Kinser J.M., Wyman C.L.; Kerstiens B.L. (1998). Spiral image fusion: a 30 parallel channel case, Optical Engineering 37(02), 492-498.

Kuo C.L., Chen M.L., Wang K., Chou C.K., Vernooij B., Seto D., Koop B.F., and Hood L. (1998). A conserved sequence block in murine and human T-cell receptor (TCR) J alpha region is a composite element that enhances TCR alpha enhancer activity and binds multiple nuclear factors. Proc. Natl. Acad. Sci., USA 95: 3839-3844.

Lindblad T., Kinser J.M. (1998). Image Processing using Pulsed Coupled Neural Networks, Springer-Verlag, London.

Ramsey C.L., De Jong K.A., Grefenstette J.J., Wu A.S., Burke D. (1998). Genome length as an evolutionary self-adaptation. In Parallel Problem Solving from Nature 5.

Rice J.J., Jafri M.S., Winslow R.L. (1998). Modeling short-term interval force relations in cardiac muscle. Ann. N. Y. Acad. Sci. 853:345-349.

Srinivasan R., Kinser J.M. (1998). A Foveating - Fuzzy Scoring Target Recognition System, Pattern Recognition 31(8) 1149-1158.

Waldemark K.E., Becanovic V., Kinser J.M., Lindblad Th., Lindesy C.S., Szekely G. (1998). Comparison of Artificial and Natural Neural Computations, an Application to Automatic Target Recognition, Proc. Of SPIE, 3728, Stockholm, 165-181.

Waldemark J. T., Becanovic V., Lindblad Th., Lindesy C. S., Waldemark K. E., Kinser J. M. (1998). Pulse-Coupled Neural Networks for Cruise Missile Guidance & Mission Planning, Proc. Of SPIE, 3728, Stockholm, 155-164.

Yang K.-H., Blackwell K.T. (1998). Analog pattern matching in a dendritic spine model with voltage dependent calcium channels. J. Neurosci (Suppl.) 24: 1911.


Bunville J., Krakowski K., Seto D. (1997). Cerium oxide removes background fluorescent contaminants, "Green Smears," from glass plates used for automated fluorescence-based DNA sequencing. BioTechniques 22: 236-238.

Grefenstette J.J. (1997). Levels of evolution for control systems. In Genetic Algorithms in Engineering Systems, P. J. Fleming and A. M. S. Zalzala (Eds.). Peter Peregrinus Press.

Grefenstette J.J. (1997). Proportional selection and sampling algorithms. In The Handbook of Evolutionary Computation, T. Baeck, D. Fogel and Z. Michalewicz (Eds.). IOP Publishing and Oxford University Press.

Grefenstette J.J. (1997). Rank-based selection. In The Handbook of Evolutionary Computation, T. Baeck, D. Fogel and Z. Michalewicz (Eds.). IOP Publishing and Oxford University Press.

Kinser J.M. (1997). Pulse-Coupled Image Fusion, Optical Eng., 36(3), 737-742.

Kinser J.M., Lindblad Th. (1997). Detection of microcalcification by cortical simulation, EANN'97 Stockholm, Neural Networks in Engineering Systems, ISBN 952-90-8667-9, p. 203-206, A. B. Bulsari and S. Kalli, eds.

Kinser J.M. (1997). Pulse Images for Face Recognition, Face Recognition: From Theory to Applications, H. Wechsler, P J. Phillips, V. Bruce, F. Fogelman Souli?, T. S. Huang, eds., NATO ASI Series, 163, 503-512.

Reddy P.H., Stockburgger E., Gillevet P.M., Tagle D.A. (1997). Oligo Capture and Characterization of Novel (CAG)n-repeat Containing cDNAs from Adult Human Brain Genomics 46 174-182

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