Victor Olman

		Dr. Victor Olman Department of Biochemistry and Molecular Biology University of Georgia 120 Green Street Athens, GA 30602-7229 Phone: 706-542-4267 Fax: 706-542-9751 E-Mail: olman@csbl.bmb.uga.edu

POSITION

Computational System Biology Lab

RESEARCH INTERESTS

Cluster analysis: Graph Theory approach with suprisingly interesting results in theory and applications.
Gene Expression Data Analysis and Biological Pathway Construction: Developing novel computational techniques for information extraction from large-scale gene expression data and applying them to biological pathway studies.
Computational Methods for Mass Spectrometry Data Analysis: Trying to develop highly effective computational methods for identification of proteins and protein-protein interactions through analysis of mass spectrometry data and chemical cross-linking data.
And I still love Mathematical Statistics : my first long term engagement and a basis for solutions in many application areas.

SELECTED PUBLICATIONS IN THE PAST FIVE YEARS

F Zhou, V Olman, Ying Xu, "Barcodes for genomes", submitted, 2008.
Qi Liu, V Olman, H Liu, X Ye, Ying Xu, "RNACluster : an integrated tool for RNA secondary structure comparison and clustering", Journal of Computational Chemistry, 2008 Jul 15;29(9):1517-26.
H. Wu, F. Mao, V Olman, Ying Xu, "Hierarchical Classification of Functionally Equivalent Genes in Prokaryotes", Nucleic Acids Research, 35, 2125 - 2140, 2007.
G. Li, J Lu, V. Olman, Ying Xu, "A Highly Sensitive Algorithm for Identification of cis Regulatory Elements: from cliques to high information content analysis", Journal of Bioinformatics and Computational Biology, 2007, 5(4), 817-838.
Z. Su, V Olman and Ying Xu, "Computational prediction of Pho Regulons in Cyanobacteria", BMC Genomics, vol 8, 156 - 167, 2007.
P. Dam, V Olman, K. Harris, Z. Su, Ying Xu, "Operon prediction using both genome-specific and general genome information", Nucleic Acids Research, 35:288 - 298, 2007.
V Olman, F. Mao, H Wu, Ying Xu, "A parallel clustering algorithm for very large data sets", IEEE/ACM Transaction on Computational Biology and Bioinformatics, Volume 5 :2, 2007.
F. Mao, H. Wu, V Olman, Ying Xu, "HCG: a database for hierarchical classification of functionally equivalent genes in prokaryotes",Nucleic Acids Research, doi:10.1093/nar/gkl1114i, 2006.
V. Olman, C. Hicks, P. Wang and Ying Xu, Gene expression data analysis in subtypes of ovarian cancer using maximum covariance analysis, Journal of Bioinformatics and Computational Biology, 4(5), 999 - 1014, 2006.
F. Mao, Z. Su, V. Olman, P. Dam, Z. Liu, Ying Xu, "Mapping of orthologous genes in the context of biological pathways: an application of integer programming", Proc Natl Acad Sci USA, 103 (1): 129-134, 2006.
Z. Su, P. Dam, F. Mao, V. Olman, I. Paulsen, B. Palenik and Ying Xu, Computational inference and experimental validation of nitrogen assimilation regulatory networks in cyanobacterium Synechococcus sp. WH8102, Nucleic Acids Research 34(3), 1050 - 1065, 2006.
H. Wu, F. Mao, Z. Su, V Olman, Ying Xu, Prediction of functional modules based on gene distributions in microbial genomes, Genome Informatics , vol 16, pp. 247 - 259, 2005.
Z. Su, F. Mao, V. Olman and Ying Xu, Comparative genomics analyses of ntcA regulons in cyanobacteria: regulation of nitrogen assimilation and its coupling to photosynthesis, Nucleic Acids Research, vol 33(16): 5156 - 5171, 2005.
B. Yan, C. Pan, V. Olman, R. Hettich, Ying Xu, A graph-theoretic approach to separation of b- and y- ions in tandem mass spectra, Bioinformatics, Vol 21: 563-574, 2005.
B. Yan, Y. Qu, F. Mao, V Olman, Ying Xu, PRIME: A Mass Spectrum Data Mining Tool for De Novo Sequencing and PTMs Identification, Journal of Computer Science and Technology (by invitation) 20(4); 483 - 490, 2005.
P. Dam, Z. Su, V Olman, Ying Xu, In silico construction of the carbon fixation pathway in Synechococcus sp. WH8102, Journal of Biological Systems, vol. 12, pp.97-125, 2004.
Y. Qu, JT. Guo, V. Olman, and Ying Xu, "Protein fold recognition using residual dipolar coupling data, Nucleic Acids Research 32(2), 551-561, 2004.
V. Olman, D. Xu, and Ying Xu, "Solving data clustering problem as a string search problem", Proceedings of Conference on Statistical Data Mining and Knowledge Discovery (ed by Hamparsum Bozdogan), Chapman & Hall/CRC, 417-434, 2003.
Jane Razumovskaya, Victor Olman, Dong Xu, Ed Uberbacher, Ying Xu, A Computational Method for Assessing Peptide-Identification Reliability in Tandem Mass Spectrometry Analysis with SEQUEST, Proteomics. 2004 Apr;4(4):961-9..
C. Pan, B. Yan, V. Olman, R. Hettich, Ying Xu, A graph-theoretic approach to the problem of mass spec. data interpretation,Separation of ion types in tandem mass spectrometry data interpretation - a graph-theoretic approach, Computational Systems Bioinformatics Conference, 2004. Proceedings. 2004 IEEE,236-244
D. Xu, V. Olman, L. Wang, and Ying Xu, "EXCAVATOR: a computer program for gene expression data analysis", Nucleic Acid Research, 31(19), 5582-5589, 2003.
Z. Su, A. Dam, X. Chen, V Olman, T. Jiang, B. Palenik, and Ying Xu, Computational Inference of Regulatory Pathways in Microbes: an application to the construction of phosphorus assimilation pathways in Synechococcus WH8102, Proceedings of 14th International Conference on Genome Informatics (in press), 2003.
V.Olman, D. Xu, and Y. Xu, "CUBIC : Identification of Regulatory Binding Sites Through Data Clustering", Journal of Bioinformatics and Computational Biology, Vol. 1. No1 (Aprill 2003), 21-40.
V. Olman, D. Xu and Ying Xu, "Identification of Regulatory Binding-sites using Minimum Spanning Trees", Proceedings of the 7th Pacific Symposium on Biocomputing (PSB), in press, 2002.
Ying Xu, V. Olman, and D. Xu, Clustering Gene Expression Data Using a Graph-Theoretic Approach: An Application of Minimum Spanning Tree, Bioinformatics, Vol 18 (4), 526 - 535, 2002.
Ying Xu, D. Xu, D. Kim, V. Olman, J. Razumovskaya, and T. Jiang, Automated Assignment of Backbone NMR Peaks using Constrained Bipartite Matching, IEEE Computing in Science and Engineering vol 4 (1), pp 50-62, Jan. 2002.
Ying Xu, D. Xu and V. Olman, "A practical method for interpretation of threading scores: an application of neural networks", Statistica Sinica Special issue on Bioinformatics, 12, 159 - 177, 2002.
Ying Xu, V. Olman and E. C. Uberbacher, "A Segmentation Algorithm for Noisy Images: Design and Evaluation", Pattern Recognition Letters, 19 (13), 1213 - 1224, 1998.
Uberbacher, E. C., Ying Xu, M. B. Shah, V. Olman, M. Parang, R. J. Mural, "An Editing Environment for DNA Sequence Analysis and Annotation", Proceedings of The Pacific Symposium on Biocomputing, 217 - 227, 1998.
Ying Xu, V. Olman, and E. C. Uberbacher, "Optimal Reconstruction of A Surface Using A Reference Library", Proceedings of International Conference on Imaging Science, Systems and Technology, 464 - 470, CSREA Publisher, 1997.
Ying Xu, V. Olman and E. C. Uberbacher, "A Segmentation Algorithm for Noisy Images", Proceedings of IEEE International Joint Symposia on Intelligence and Systems, 220 - 226, IEEE Press, 1996.

OTHER PUBLICATIONS WORTH TO MENTION HERE

V. Olman, "On the multiplication property of the mathematical expectation", Proceedings of Leningrad University, Vol.13, No. 3, 1971: 64-71.
J. Kuks, V. Olman, "Minimax linear estimation of regression's coefficients-2", Proceedings of the Estonian Academy of Sciences, Vol. 20, No. 1, 1971 : 480-482.
V. Olman, J. Kuks, "Minimax linear estimation of regressions' coefficients", Proceedings of the Estonian Academy of Sciences, Vol. 21, No. 1, 1972 : 66-72.
V. Olman, "Minimax linear estimation under nonquadratic loss functions", Proceedings of the Estonian Academy of Sciences, Vol. 23, No. 2, 1974 : 127-134.
V. Olman, "Minimax confidence estimation of linear regression model parameters under normal additive error", Proceedings of the Estonian Academy of Sciences, Vol. 23, No. 2, 1974: 120-126.
V. Olman, "On the characteristic property of the normal law", Proceedings of the Estonian Academy of Sciences, Vol. 23, No. 2, 1974:135-139.
V. Olman, "Minimax linear estimation of location parameter of stable distribution", Proceedings of the Estonian Academy of Sciences, Vol. 25, No. 3, 1976 : 316-320.
V. Olman, "Testing of the hypothesis of linear regression parameter belonging to a fixed ellipsoid", Proceedings of the Estonian Academy of Sciences, Vol. 28, No. 2, 1979 : 101-106.
V. Olman, "Minimax confidence location parameter's estimation", Proceedings of the Estonian Academy of Sciences, Vol. 28, No. 2, 1979: 161-164.
R. Lepp, V. Olman "An inequality for integrals with spherically symmetric functions and its application. to optimization", Proceedings of the Estonian Academy of Sciences, Vol. 29, No. 2, 1980: 133-139.
V. Olman, "Using of censored observations in unbiased estimation", Proceedings of the Estonian Academy of Sciences, Vol. 31, No. 3, 1982: 358-360.
V. Olman, "Estimation of linear regression coefficients as an antagonistic game", Proceedings of the Estonian Academy of Sciences, Vol. 32, No. 3, 1983: 241-245.
V. Olman, "Admissible and minimax estimators of the Binomial probability subject to restrictions on a prior distributions", Proceedings of the Estonian Academy of Sciences, Vol. 33, No. 3, 1984: 285-290.
V. Olman, "Minimax point estimation of random probability subject to restrictions on a prior distribution", Proceedings of the Estonian Academy of Sciences, Vol. 33, No. 3, 1984: 369-371.
R. Raud, V. Olman, "MPS system's simulation", Proceedings of the Latvian Academy of Sciences, Automation and Computer Science, No. 4, 1984: 25-29.
R. Raud, V. Olman, "Some criteria of completeness for MPS programs", Proceedings of the Latvian Academy of Sciences, Automation and Computer Science, No. 5, 1984: 89-92.
Minimax Bayes estimation of mean of normal law for the class of unimodal prior distributions. Proceedings of the Estonian Academy of Sciences, Vol. 34, No. 2, 1984: 148-153.
Properties of Bayes estimators of mean of normal distribution under restriction on a prior distribution (co- author A. Shmundak). Proceedings of the Estonian Academy of Sciences, Vol. 34, No. 1, 1985: 20-25.
V. Olman, "Programs for construction and analysis of empirical distributions and nonlinear regression", Eesti Raamat Publisher, Tallinn, 64 p., 1985.
V. Olman, "Bayes decisions under restriction on a prior distribution", Proceedings of 1-st World Congress. of Bernoulli Society, Tashkent, 1986: 85-89.
V. Olman, V. Joala, "Quick method of estimation of one-dimensional linear regression coefficients", Proceedings of the Estonian Academy of Sciences ,Vol. 36, No. 4, 1987: 422-424.
V. Olman, "Invariance of Bayes property for discrete measures subject to transformations", Proceedings of the Estonian Academy of Sciences , Vol. 36, No. 3, 1987: 277-280.
V. Olman, "Presarvation of Bayes property in the problem of estimating functions of normal law", Academy of Sciences of USSR, Theory of Probability and its Application, Vol. 33, No 4, 1988: 424-428.
V. Olman, "Programs for construction of robust and projective regression", Eesti Raamat Publisher, Tallinn, 58p., 1988.
R. Raud, V. Olman, A. Lepp, "Probability Based Timing Verification", Microprocessing and Microprogramming, Vol. 25, 1989: 143-148.
V. Olman, "Optimal quantization of power density function", Proceedings of the Estonian Academy of Sciences, Vol. 39, No. 4, 1990: 417-424.
L. Pesotchinsky, V. Olman, "Statistical manufacturing monitoring", Second International Congress of Bernoulli Society, Uppsala, Sweden, August, 1990: 236-238.
V. Olman, "Optimal experimental design for a choice among a finite number of competitive projects", Design of experiments, Vol. 4, No. 3, 1990: 124-136.
V. Olman, "Asymptotically minimax Taguchi's experimental designs", Design of experiments, Vol. 4, No. 4, 1990: 19-26.
V. Olman, "Minimax partition of a real interval", Academy of Pedagogical Sciences, Mathematical Notes, Vol. 36, No. 2, 1990: 196-201.
V. Olman, "Quaziconcavity of partition's effectiveness for finite measures", Academy of Sciences of Lithuania, Statistical Optimizat ion , No 2, 1991 : 38-46.
L. Salum, V. Olman, "Bound on maximum structural complexity of systems", Academy of Sciences of Ukraine, Cybernetics and System Analysis, Vol.27, No 4, 1991 : 513-519.
V. Olman, "Optimal quantization of univariate distributions with convex loss function", Academy of Sciences of USSR, Automation and Telemechanics, No 4, April, 1992 : 119-129.
A. Miljutin, V. Olman, "Experimental research of the relationships between the rat, Rattus rattus, and the Norway rat", Folia Theriologic Estonica, Fasc. #2, 1991 : 18-34.
V. Olman, "Global minimum in the problem of multidimensional partition", Proceedings of the Estonian Academy of Sciences, Vol. 40, No 3,1991 : 336-349.
V. Olman, "Optimal quantization of normal multidimensional distribution using preliminary observations", Proceedings of Estonian Academy of Sciences, Vol. 41, No 2, 1992 : 156-162.
A. Olins, D. Olins & V. Olman, "The 3-D architectire of RNA in the Balbiani Ring granule (hnRNP)", Proceedings of ICEM 13-Paris, July 1994 : 469-470.
A. Olins, D. Olins & V. Olman, "Modeling the 3-D RNA distribution in the Balbiani Ring granule", Cromosoma, Vol. 103, 1994 : 302-310.
Ying Xu, V. Olman & E. Uberbacker, "Segmentation algorithm for noisy images", Proceedings of IEEE International Joint Symposia on Intelligence and Systems, Mariland,1996 :182-192.
M. Shah, V. Olman, E. Uberbacker & R. Mann, "FaceID : Face Detection and Recognition System", Proceedings of SPIE, Vol. 2940, 1996,pp 90-99.
E. Uberbacker, Ying Xu & V. Olman, "An Editing Environment for DNA Sequence Analysis and Annotation", Pacific Symposium on Biocomputing '98, Hawaii, pp.217-227.

WORK EXPERIENCE

Senior Research Scientist, Computational Biology Systems Lab, University of Georgia, Department of Biochemistry and Molecular Biology, Athens, GA, 2003-present
Staff Scientist (research associate from 1992), Protein Informatics Group, Life Sciences Division and Computer Science and Mathematics Division, Oak Ridge National Laboratory, Oak Ridge, TN, 2001- 2003.
Adjunct Faculty Member, Graduate Program in Genome Science and Technology, Univ. of Tennessee, Knoxville, TN, 1999 - 2003.
Visiting Professor, Mathematical Department, San Jose State University, San Jose, CA, 1991.
Leading Scientific Staff, Institute of Cybernetics, Mathematical Department, Estonian Academy of Sciences, Tallinn, Estonia, 1970 - 1991.

WORKING AT ORNL AND at CSBL

Here is a photo of our leader and the inspiration Ying Xu and me, trying to get the sense from what has been said and written.

TEACHING

I co-taught a course "Computational Bioinforamtics" (Binding Sites Prediction) for graduate program in the Fall semesters of 2003-2005.

EDUCATION

Ph.D., Institute of Cybernetics of Estonian Academy of Sciences, Tallinn, (research focus: regression models, characterization of distributions)
M.S. and B.S., S. Petersburg State University, Russia, (research focus: multiplicative properties of mathematical expectation)

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