LM

Linar Mikeev

Former Member

PhD Student

Modeling and Simulation Group, Saarland University

    About Me

    I am a former PhD student at the group of Modeling and Simulation.

    Publications

    • A. Andreychenko, L. Mikeev, V. Wolf: Model Reconstruction for Moment-Based Stochastic Chemical Kinetics. ACM Trans. Model. Comput. Simul. 25(2): 12:1-12:19 (2015)
    • C. Bock, L. Bortolussi, T. Krüger, L. Mikeev, V. Wolf: Model-Based Whole-Genome Analysis of DNA Methylation Fidelity. HSB 2015: 141-155 2013
    • L. Mikeev, Martin R. Neuhäußer, D. Spieler, V. Wolf: On-the-fly verification and optimization of DTA-properties for large Markov chains. Formal Methods in System Design 43(2): 313-337 (2013)
    • L. Mikeev, W. Sandmann, V. Wolf: Numerical Approximation of Rare Event Probabilities in Biochemically Reacting Systems. CMSB 2013: 5-18 2012
    • A. Andreychenko, L. Mikeev, D. Spieler, V. Wolf: Approximate maximum likelihood estimation for stochastic chemical kinetics. EURASIP J. Bioinformatics and Systems Biology 2012: 9 (2012)
    • L. Mikeev, V. Wolf: Parameter estimation for stochastic hybrid models of biochemical reaction networks. HSCC 2012: 155-166 2011
    • A. Andreychenko, L. Mikeev, D. Spieler, V. Wolf: Parameter Identification for Markov Models of Biochemical Reactions. CAV 2011: 83-98
    • M. Lapin, L. Mikeev, V. Wolf: SHAVE: stochastic hybrid analysis of markov population models. HSCC 2011: 311-312
    • L. Mikeev, W. Sandmann, V. Wolf: Efficient calculation of rare event probabilities in Markovian queueing networks. VALUETOOLS 2011: 186-196
    • A. Andreychenko, L. Mikeev, D. Spieler, V. Wolf: Parameter Identification for Markov Models of Biochemical Reactions. CoRR abs/1102.2819 (2011) 2010
    • T. A. Henzinger, L. Mikeev, M. Mateescu, V. Wolf: Hybrid numerical solution of the chemical master equation. CMSB 2010: 55-65
    • T. Dayar, L. Mikeev, V. Wolf: On the Numerical Analysis of Stochastic Lotka-Volterra Models. IMCSIT 2010: 289-296
    • T. A. Henzinger, M. Mateescu, L. Mikeev, V. Wolf: Hybrid Numerical Solution of the Chemical Master Equation. CoRR abs/1005.0747 (2010)

    Interests

    • Numerical analysis of large structured Markov chains
    • Computation of rare event probabilities
    • Fokker-Planck approximation of the chemical master equation

    Publications (10)

    2015

    2 papers

    Model-Based Whole-Genome Analysis of DNA Methylation Fidelity

    2015 — Hybrid Systems Biology - Fourth International Workshop. Revised Selected Papers. International Conference on Hybrid Systems Biology (HSB-2015), September 4-5, Madrid, Spain

    @inproceedings{bockModelBasedWholeGenomeAnalysisOf2015,
     author = {Christoph Bock and Luca Bortolussi and Thilo Krüger and Linar Mikeev and Verena Wolf},
     booktitle = {Hybrid Systems Biology - Fourth International Workshop. Revised Selected Papers. International Conference on Hybrid Systems Biology (HSB-2015), September 4-5, Madrid, Spain},
     doi = {10.1007/978-3-319-26916-0_8},
     editor = {Alessandro Abate and David Šafránek},
     isbn = {9783319269160},
     month = {9},
     pages = {141-155},
     publisher = {Springer International Publishing, Switzerland},
     series = {Lecture Notes in Computer Science, LNCS},
     title = {Model-Based Whole-Genome Analysis of DNA Methylation Fidelity},
     volume = {9271},
     year = {2015}
    }
    
    DOI

    Model Reconstruction for Moment-Based Stochastic Chemical Kinetics

    2015 — ACM Transactions on Modeling and Computer Simulation (TOMACS)

    @article{andreychenkoModelReconstructionForMomentBased2015,
     author = {Alexander Andreychenko and Linar Mikeev and Verena Wolf},
     doi = {10.1145/2699712},
     journal = {ACM Transactions on Modeling and Computer Simulation (TOMACS)},
     number = {2},
     pages = {1-19},
     publisher = {Association for Computing Machinery},
     title = {Model Reconstruction for Moment-Based Stochastic Chemical Kinetics},
     url = {https://dl.acm.org/doi/10.1145/2699712},
     volume = {25},
     year = {2015}
    }
    
    DOI URL

    2013

    2 papers

    On-the-fly verification and optimization of DTA-properties for large Markov chains

    2013 — Formal Methods in System Design

    @article{mikeevOnTheFlyVerificationAndOptimization2013,
     author = {Linar Mikeev and Martin R. Neuhäußer and David Spieler and Verena Wolf},
     doi = {10.1007/s10703-012-0165-1},
     editor = {Nicht bekannt},
     journal = {Formal Methods in System Design},
     month = {10},
     number = {2},
     pages = {313-337},
     publisher = {Springer US, USA},
     title = {On-the-fly verification and optimization of DTA-properties for large Markov chains},
     volume = {43},
     year = {2013}
    }
    
    DOI

    Numerical Approximation of Rare Event Probabilities in Biochemically Reacting Systems

    2013 — Computational Methods in Systems Biology. International Conference on Computational Methods in Systems Biology (CMSB-2013), 11th International Conference, CMSB 2013, September 22-24, Klosterneuburg, Austria

    @inproceedings{mikeevNumericalApproximationOfRare2013,
     author = {Linar Mikeev and Werner Sandmann and Verena Wolf},
     booktitle = {Computational Methods in Systems Biology. International Conference on Computational Methods in Systems Biology (CMSB-2013), 11th International Conference, CMSB 2013, September 22-24, Klosterneuburg, Austria},
     doi = {10.1007/978-3-642-40708-6_2},
     edition = {1st},
     editor = {Ashutosh Gupta and Thomas A. Henzinger},
     isbn = {9783642407086},
     month = {9},
     pages = {5-18},
     publisher = {Springer, Berlin, Heidelberg},
     title = {Numerical Approximation of Rare Event Probabilities in Biochemically Reacting Systems},
     volume = {8130},
     year = {2013}
    }
    
    DOI

    2012

    2 papers

    Parameter estimation for stochastic hybrid models of biochemical reaction networks

    2012 — HSCC ‘12: Proceedings of the 15th ACM international conference on Hybrid Systems: Computation and Control. ACM International Conference on Hybrid Systems: Computation and Control (HSCC-2012), April 17-19, Beijing, China

    @inproceedings{mikeevParameterEstimationForStochastic2012,
     author = {Linar Mikeev and Verena Wolf},
     booktitle = {HSCC '12: Proceedings of the 15th ACM international conference on Hybrid Systems: Computation and Control. ACM International Conference on Hybrid Systems: Computation and Control (HSCC-2012), April 17-19, Beijing, China},
     doi = {10.1145/2185632.2185657},
     isbn = {9781450312202},
     month = {4},
     pages = {155-166},
     publisher = {ACM, New York, NY},
     title = {Parameter estimation for stochastic hybrid models of biochemical reaction networks},
     year = {2012}
    }
    
    DOI

    Approximate maximum likelihood estimation for stochastic chemical kinetics

    2012 — EURASIP Journal on Bioinformatics and Systems Biology

    @article{andreychenkoApproximateMaximumLikelihoodEstimation2012,
     author = {Aleksander Andreychenko and Linar Mikeev and David Spieler and Verena Wolf},
     doi = {10.1186/1687-4153-2012-9},
     journal = {EURASIP Journal on Bioinformatics and Systems Biology},
     number = {1},
     pages = {1-14},
     publisher = {Springer Nature},
     title = {Approximate maximum likelihood estimation for stochastic chemical kinetics},
     url = {https://doi.org/10.1186/1687-4153-2012-9},
     volume = {2012},
     year = {2012}
    }
    
    DOI URL

    2011

    2 papers

    Efficient Calculation of Rare Event Probabilities in Markovian Queueing Networks

    2011 — VALUETOOLS ‘11: Proceedings of the 5th International ICST Conference on Performance Evaluation Methodologies and Tools. International ICST Conference on Performance Evaluation Methodologies and Tools (VALUETOOLS-2011), May 16-20, Paris, France

    @inproceedings{mikeevEfficientCalculationOfRare2011,
     author = {Linar Mikeev and Werner Sandmann and Verena Wolf},
     booktitle = {VALUETOOLS '11: Proceedings of the 5th International ICST Conference on Performance Evaluation Methodologies and Tools. International ICST Conference on Performance Evaluation Methodologies and Tools (VALUETOOLS-2011), May 16-20, Paris, France},
     doi = {10.4108/icst.valuetools.2011.245597},
     editor = {Samson Lasaulce and Dieter Fiems and Pete Harrison and Luc Vandendorpe},
     isbn = {978-1-936968-09-1},
     month = {5},
     pages = {186-196},
     publisher = {ACM},
     title = {Efficient Calculation of Rare Event Probabilities in Markovian Queueing Networks},
     year = {2011}
    }
    
    DOI

    SHAVE: stochastic hybrid analysis of markov population models

    2011 — HSCC ‘11: Proceedings of the 14th international conference on Hybrid systems: computation and control. ACM International Conference on Hybrid Systems: Computation and Control (HSCC-2011), April 12-14, Chicago,, IL, USA

    @inproceedings{lapinSHAVEStochasticHybridAnalysis2011,
     author = {Maksim Lapin and Linar Mikeev and Verena Wolf},
     booktitle = {HSCC '11: Proceedings of the 14th international conference on Hybrid systems: computation and control. ACM International Conference on Hybrid Systems: Computation and Control (HSCC-2011), April 12-14, Chicago,, IL, USA},
     doi = {10.1145/1967701.1967746},
     isbn = {978-1-4503-0629-4},
     month = {4},
     pages = {311-312},
     publisher = {ACM},
     title = {SHAVE: stochastic hybrid analysis of markov population models},
     year = {2011}
    }
    
    DOI

    2010

    2 papers

    On the numerical analysis of stochastic Lotka-Volterra models

    2010 — Proceedings of the International Multiconference on Computer Science and Information Technology. Computer Aspects of Numerical Algorithms (CANA-2010), located at IMCSIT 2010, October 18-20, Wisla, Poland

    @inproceedings{dayarOnTheNumericalAnalysis2010,
     author = {Tuğrul Dayar and Linar Mikeev and Verena Wolf},
     booktitle = {Proceedings of the International Multiconference on Computer Science and Information Technology. Computer Aspects of Numerical Algorithms (CANA-2010), located at IMCSIT 2010, October 18-20, Wisla, Poland},
     doi = {10.1109/IMCSIT.2010.5680059},
     editor = {M. Ganzha and M. Paprzycki},
     isbn = {978-83-60810-27-9},
     month = {10},
     pages = {289-296},
     publisher = {IEEE},
     title = {On the numerical analysis of stochastic Lotka-Volterra models},
     volume = {5},
     year = {2010}
    }
    
    DOI

    Hybrid numerical solution of the chemical master equation

    2010 — Proceedings of the 8th International Conference on Computational Methods in Systems Biology. International Conference on Computational Methods in Systems Biology (CMSB-2010), Proceedings of the 8th International Conference on Computational Methods in Systems Biology, September 29 - October 1, Trento, Italy

    @inproceedings{henzingerHybridNumericalSolutionOf2010,
     author = {Thomas A. Henzinger and Linar Mikeev and Maria Mateescu and Verena Wolf},
     booktitle = {Proceedings of the 8th International Conference on Computational Methods in Systems Biology. International Conference on Computational Methods in Systems Biology (CMSB-2010), Proceedings of the 8th International Conference on Computational Methods in Systems Biology, September 29 - October 1, Trento, Italy},
     doi = {10.1145/1839764.1839772},
     isbn = {9781450300681},
     month = {9},
     pages = {55-65},
     publisher = {ACM, USA},
     title = {Hybrid numerical solution of the chemical master equation},
     year = {2010}
    }
    
    DOI