Project Management Software

Michael L. Blinov

Theoretical Biology and Biophysics Group (T-10),

Los Alamos National Laboratory,

Los Alamos, NM 87544, USA

Phone: 505-***-**** (w), 505-***-**** (h)

Fax: 505-***-****

e-mail: *******@****.*** (w)

URR: http://cellsignaling.lanl.gov/mblinov

HIGHLIGHTSDevelopment of algorithms and software tools for modeling and analysis of biomolecular interactions.

Modeling of complex signal-transduction systems (EGF receptor system, FceRI receptor system for the IgE antibody, MAPK cascade).

Extensive database, Perl and web programming experience.

Extensive research experience with ODE and dynamical systems. Extensive math background.

Project management skills (coordinator of several programming and educational projects).

EMPLOYMENT2003- present Post Doctoral Research Associate,,, USA

2001- 2003 Graduate Research Assistant,,, USA

1999-2001 Co-founder and programming team leader of NetGliding.com, Israel: development of e-commerce web sites.

EDUCATIONPh.D., 2003,, Math./Comp. Sci. (Yosef Yomdin) GPA: 96.87/100.00

M.Sc., 1997, Math./Comp. Sci. (Yosef Yomdin) GPA: 95.44/100.00

B.Sc., 1995, Math., GPA: 5/5

PUBLICATIONSM.L. Blinov, J. Yang, J.R. Faeder, and W.S. Hlavacek

(in press)

Graph Theory for Rule-based Modeling of Biochemical Networks, Lect. Notes Comp. Sc. Trans. Syst. Biol. []

M.L. Blinov, J. Yang, J.R. Faeder and W.S. Hlavacek (2006) Depicting signaling cascades Nat. Biotech.24.

M.L. Blinov, J.R. Faeder, J. Yang, B. Goldstein and W.S. Hlavacek (2005) 'On-the-fly' or 'generate-first' modeling? Nat. Biotech.23, 1344-45.[]

M.L. Blinov, J.R. Faeder, B. Goldstein &amp W.S. Hlavacek (2005) A network model of early events in epidermal growth factor receptor signaling that accounts for combinatorial complexity. BioSystems[]

J.R. Faeder, M.L. Blinov &amp W.S. Hlavacek (2005) Graphical rule-based representation of signal-transduction networks. Proc. ACM Symp. Appl. Computing, 133-140. SAC'05 [ doi.acm.org/10.1145/1066677.1066712]

J.R. Faeder*, M.L. Blinov*, B. Goldstein &amp W.S. Hlavacek (2005) "Rule-based modeling of biochemical networks." Complexity10, 22-41. []

* These two authors contributed equally to the manuscript

J.R. Faeder, M.L. Blinov, B. Goldstein &amp W.S. Hlavacek (2005) "Combinatorial complexity and dynamical restriction of network flows in signal transduction." Syst. Biol.2, 5-15 [Reprint (pdf)]

M. Blinov, M. Briskin, Y. Yomdin. (2004) "Local Center Conditions for Abel Equation and Cyclicity of it Zero Solution." J. d'Anal. Math. (in press, )

M. L. Blinov, J. R. Faeder, B. Goldstein, W. S. Hlavacek. (2004) "BioNetGen: software for rule-based modeling of signal transduction based on the interactions of molecular domains." 20, 3289-3291. W. S. Hlavacek, J. R.

Faeder, M. L. Blinov, A. S. Perelson, B. Goldstein. (2003) "The complexity of

complexes in signal transduction.&quot Biotechnol. Bioeng. 84: 783-794. M. Blinov, N. Roytvarf, Y. Yomdin. (2003) "Center and Moment Conditions for Rational Abel Equation." Funct. Diff. Equations,

10: 95-106 J. R. Faeder, W. S. Hlavacek, I. Reischl, M. L. Blinov, H. Metzger, A. Redondo, C. Wofsy, and B. Goldstein. (2003) "Investigation of early

events in FceRI-mediated signaling using a detailed mathematical model." J. Immunol.170: 3769-81 M. Blinov, N. Zehavi, S. Black. (2003) "A Computer Motivated Study of Problems in Number Theory." The International Journal of Computer Algebra in Mathematics Education9: 315-330 .

B. Goldstein, J. R. Faeder, W. S. Hlavacek, M. L. Blinov, A. Redondo, and C. Wofsy.

(2002) "Modeling the early signaling events mediated by aggregation of FceRI." Mol Immunol38: 1213-1219. M. Blinov, Y. Yomdin. (2001) "Center and Composition Conditions for Abel Differential Equation, and rational curves.",

Qualitative Theory of Dynamical Systems2: 111-127 M. Blinov, Y. Yomdin. (1999) "Generalized center conditions and multiplicities for polynomial Abel

equations of small degrees." Nonlinearity, 12: 1013-1028. .

PATENTSBlinov M, Faeder J, Hlavacek W, Software and procedures for creating mathematical/computational models of cellular signaling. US Patent Application 200******** (2005), available at http://uspto.gov.

Patent application in preparation

PROPOSALSM.L. Blinov, J.R. Faeder, B. Goldstein, A. Finney &amp W.S. Hlavacek (2004) "Rule-based modeling of multi-component species." A proposal for SBML Level 3 presented at the . []

Reviwer forBioinformatics

BioSystems

TALKS"Graph Theory for Rule-based Modeling of Biochemical Networks", San Francisco, CA, August 27th, 2005

"BioNetGen: Current State and further development" Third International Symposium on Computational

Cell Biology, Lenox, MA, March 19-23, 2005

"A Model of Epidermal Growth Factor Receptor Signaling: accounting for

combinatorial complexity", Philadelphia, February 10th, 2005

"Rule-based modeling of multi-component species." 9th SBML Forum, Heidelberg, Germany, October 14-15, 2004

"Modeling and analysis of signal transduction without ignoring combinatorial complexity." 4th International Conference of Systems Biology, Heidelberg, Germany, October 8-13, 2004

"Modeling and analysis of combinatorial complexity in signal transduction." Understanding Complex Systems Symposium, Urbana-Champaign, IL, May 17-20, 2004

"Center and moment conditions for rational Abel equations on a closed curve. ",

Conference on "Bifurcations de syst mes diff rentiels, applications la biologie."

Marseiile, France, December 16-20, 2002

Abel Differential Equations on Rational Curves." Summer School on Dynamics Systems, CIME, Cetraro, Italy, June

18-26, 2000

"Center and Composition Conditions for Abel equation, and Rational Curves."

Conference on "Geometrie des equations differentielles",

Marseille, France, October 3-10, 1999

SELECTED PUBLISHED ABSTRACTSM. L. Blinov, J. R. Faeder, B. Goldstein, W. S. Hlavacek. "BIONETGEN: a modeling tool that handles combinatorial complexity", Mathematical Models in Signaling Systems, Nashville, TN, June 16-18, 2004

M. L. Blinov, J. R. Faeder, B. Goldstein, W. S. Hlavacek. "Modeling and analysis of combinatorial complexity in signal transduction", International Conference on Complex Systems (ICCS2004), Boston, MA, May 19-21, 2004

W. S. Hlavacek, M. L. Blinov, M. A. Savageau, M. E. Wall "The EcoTFs Database: Escherichia Coli Transcription Factors and Signals", RECOMB 2004, San Diego, CA, March 27-31, 2004

M. L. Blinov, J. R. Faeder, W. S. Hlavacek, B. Goldstein

"Network model for early events in EGFR signaling that accounts for hundreds of protein complexes and phosphoforms", Proceedings of the Fourth International Conference on Systems Biology, St Louis, USA, 2003, p. 89-90 J. R. Faeder, M. L. Blinov, W. S. Hlavacek, B. Goldstein. "Networks that govern Complex Formation during Signal Transduction Exibit Narrow Flows", Proceedings of the 4th International Conference on Systems Biology, St Louis, USA, November 5-9, 2003, p. 115-116

M. L. Blinov, J. R. Faeder, W. S. Hlavacek, "Combinatorial complexity in immunoreceptor signaling", Proceedings of the Third International Conference on Systems Biology, Stockholm, Sweden, December 10-15, 2002, p. 58 M. L. Blinov, W. S. Hlavacek, J. R. Faeder, B. Goldstein

"Database of Models for Ligand-Receptor Binding in XML-based formats", Proceedings of the Second International Conference on Systems Biology, Pasadena, USA, November 4-7, 2001, p. 125 J. R. Faeder, W. S. Hlavacek, A. Redondo, C. Wofsy, M. L. Blinov, and Byron Goldstein. "A detailed kinetic model of immuno-receptor signaling", Proceedings of the 2nd International Conference on Systems Biology, Pasadena, USA, November 4-7, 2001, p. 17

M. L. Blinov, W. S. Hlavacek, J. R. Faeder, B. Goldstein. "Analysis of Cell-Signaling Networks: Which Reactions in the Network are Important?" Bridging the Canyon: Biology at LANL", Santa Fe, NM, September 12-13, 2001

THESISES "Center and Composition Conditions for Abel Equation", Ph.D. Thesis, Weizmann Institute

of Science, 2002 .

"Some computations around the Center problem, related to the

algebra of univalued polynomials", M.Sc. Thesis, Weizmann Institute

of Science, 1997 .

VISITING SCIENTIST2004, October-November Weizmann Institute of Science

AWARDS "BioNetGen" software nominated by Los Alamos National Lab for 2004 R&D 100 competition.

Student Distinguished Performance Award, Los Alamos Natl Lab, 2003

Fellowships of the Weizmann Institute of Sciences, 1995-2002

The National Academy of Sciences Travel Grant, 1999

International Science Foundation Research Grant #MQO000, 1994-1995

International Science Foundation Student Grant for distinguished

successes in studies, 1994-1995

COMPUTER SKILLS Web programming: Perl, PHP, Java, MySQL.

Programming languages: Perl, PHP, JAVA, C (basic), FORTRAN (basic), Basic (basic)

Math programming: Mathematica, MatLab, Maple, Derive

Operating systems: UNIX/Sun, Linux, Irix/SGI, DOS, Windows, OS/2

Software: all the standard PC and UNIX software.

TEACHING EXPERIENCE2003 Lecturer at the Summer School on Neural Networks, Santa Fe Institute.

1999-2000 Lecturer for the course "Mathematical Modeling in Biology" (Prof. Lee Segel, WIS)

1998 Teaching assistant for the course "Computer Algebra Systems" (Dr. N. Zehavi, WIS)

1997-1998 Mentor, Summer Science Institute of the WIS, International and Israeli Camps. Supervised 2 preuniversity students working on

scientific projects.

PROJECT MANAGEMENT SKILLSProgramming Team leader, 1999-2001. Supervised stuff of 2

programmers. Duties included software and hardware purchase, projects

description and negotiations with customers.

Coordinator of Math projects, 1999-2000. Summer Science Institute of the WIS,

International Camp. Duties included hiring mentors and selecting students

(interviewing and overall assessment), training mentors, preparation of reports,

presentations, checking results and considering all the claims.

ADDITIONAL MATH SKILLSVision algorithms and image processing

Bioinformatics

Numerical methods, cryptography

Low dimensional topology, knots and links

Educational methods

REFERENCESB. Goldstein, Lab Fellow, Theor. Biol., Los Alamos National Lab,

***@****.***

Y. Yomdin, Prof., Theor. Math, Weizmann Institute of Science,

******@******.********.**.**

W.S. Hlavacek, Staff Scientist, Theor. Biol., Los Alamos National Lab,

****@****.***

J.R. Faeder, Staff Scientist, Theor. Biol., Los Alamos National Lab,

******@****.***

J.-P. Francoise, Prof.,Theor. Math, Univ. Paris 6,

***@***.*******.**

ADDITIONAL SKILLS/HOBBIESYachting (Royal Yacht Association Day Skipper Certificate)

Rafting

Catamaran Sailing

Modeling (plastic, wood and cardboard models)

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