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Boyan Yordanov

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2020 – today

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2023
[j8]
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Boyan Yordanov, Sara-Jane Dunn, Colin Gravill, Himanshu Arora, Hillel Kugler, Christoph M. Wintersteiger:
The Reasoning Engine: A Satisfiability Modulo Theories-Based Framework for Reasoning About Discrete Biological Models. J. Comput. Biol. 30(9): 1046-1058 (2023)
2022
[c18]
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Boyan Yordanov, Sara-Jane Dunn, Colin Gravill, Hillel Kugler, Christoph M. Wintersteiger:
An SMT-Based Framework for Reasoning About Discrete Biological Models. ISBRA 2022: 114-125
2021
[j7]
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Sara-Jane Dunn, Hillel Kugler, Boyan Yordanov:
Formal Analysis of Network Motifs Links Structure to Function in Biological Programs. IEEE ACM Trans. Comput. Biol. Bioinform. 18(1): 261-271 (2021)
[j6]
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Annalisa Occhipinti, Youssef Hamadi, Hillel Kugler, Christoph M. Wintersteiger, Boyan Yordanov, Claudio Angione:
Discovering Essential Multiple Gene Effects Through Large Scale Optimization: An Application to Human Cancer Metabolism. IEEE ACM Trans. Comput. Biol. Bioinform. 18(6): 2339-2352 (2021)

2010 – 2019

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2019
[c17]
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Carlo Spaccasassi, Boyan Yordanov, Andrew Phillips, Neil Dalchau:
Fast Enumeration of Non-isomorphic Chemical Reaction Networks. CMSB 2019: 224-247
[p1]
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Sara-Jane Dunn, Boyan Yordanov:
Automated Reasoning for the Synthesis and Analysis of Biological Programs. Automated Reasoning for Systems Biology and Medicine 2019: 37-62
2018
[c16]
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Hillel Kugler, Sara-Jane Dunn, Boyan Yordanov:
Formal Analysis of Network Motifs. CMSB 2018: 111-128
[c15]
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Alessandro Abate, Luca Cardelli, Marta Kwiatkowska, Luca Laurenti, Boyan Yordanov:
Experimental Biological Protocols with Formal Semantics. CMSB 2018: 165-182
[d1]
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Youssef Hamadi, Claudio Angione, Hillel Kugler, Christoph M. Wintersteiger, Boyan Yordanov:
Large-scale Genetic Exploration of Genome-wide Models: an Application to Human Cancer Metabolism. IEEE DataPort, 2018
2017
[i3]
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  - journals/corr/abs-1710-08016
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Alessandro Abate, Luca Cardelli, Marta Kwiatkowska, Luca Laurenti, Boyan Yordanov:
Experimental Biological Protocols with Formal Semantics. CoRR abs/1710.08016 (2017)
2016
[j5]
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  - journals/biosystems/ShavitYDWOHLK16
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Yoli Shavit, Boyan Yordanov, Sara-Jane Dunn, Christoph M. Wintersteiger, Tomoki Otani, Youssef Hamadi, Frederick J. Livesey, Hillel Kugler:
Automated Synthesis and Analysis of Switching Gene Regulatory Networks. Biosyst. 146: 26-34 (2016)
[c14]
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  - conf/cade/BackemanWYD16
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Peter Backeman, Christoph M. Wintersteiger, Boyan Yordanov, Sara-Jane Dunn:
Algebraic Polynomial-based Synthesis for Abstract Boolean Network Analysis. SMT@IJCAR 2016: 41-50
2015
[c13]
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Neil Dalchau, Niall Murphy, Rasmus L. Petersen, Boyan Yordanov:
Synthesizing and Tuning Chemical Reaction Networks with Specified Behaviours. DNA 2015: 16-33
[c12]
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Yoli Shavit, Boyan Yordanov, Sara-Jane Dunn, Christoph M. Wintersteiger, Youssef Hamadi, Hillel Kugler:
Switching Gene Regulatory Networks. IPCAT 2015: 131-144
[i2]
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Neil Dalchau, Niall Murphy, Rasmus L. Petersen, Boyan Yordanov:
Synthesizing and tuning chemical reaction networks with specified behaviours. CoRR abs/1508.04403 (2015)
2014
[c11]
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  - conf/cav/PaolettiYHWK14
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Nicola Paoletti, Boyan Yordanov, Youssef Hamadi, Christoph M. Wintersteiger, Hillel Kugler:
Analyzing and Synthesizing Genomic Logic Functions. CAV 2014: 343-357
[c10]
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  - conf/qest/RabeWKYH14
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Markus N. Rabe, Christoph M. Wintersteiger, Hillel Kugler, Boyan Yordanov, Youssef Hamadi:
Symbolic Approximation of the Bounded Reachability Probability in Large Markov Chains. QEST 2014: 388-403
2013
[j4]
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  - journals/automatica/YordanovTCBB13
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Boyan Yordanov, Jana Tumova, Ivana Cerná, Jiri Barnat, Calin Belta:
Formal analysis of piecewise affine systems through formula-guided refinement. Autom. 49(1): 261-266 (2013)
[c9]
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Boyan Yordanov, Christoph M. Wintersteiger, Youssef Hamadi, Andrew Phillips, Hillel Kugler:
Functional Analysis of Large-Scale DNA Strand Displacement Circuits. DNA 2013: 189-203
[c8]
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Boyan Yordanov, Christoph M. Wintersteiger, Youssef Hamadi, Hillel Kugler:
SMT-Based Analysis of Biological Computation. NASA Formal Methods 2013: 78-92
2012
[j3]
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  - journals/tac/YordanovTCBB12
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Boyan Yordanov, Jana Tumova, Ivana Cerna, Jiri Barnat, Calin Belta:
Temporal Logic Control of Discrete-Time Piecewise Affine Systems. IEEE Trans. Autom. Control. 57(6): 1491-1504 (2012)
[c7]
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Boyan Yordanov, Evan Appleton, Rishi Ganguly, Ebru Aydin Gol, Swati Banerjee Carr, Swapnil Bhatia, Traci Haddock, Calin Belta, Douglas Densmore:
Experimentally driven verification of synthetic biological circuits. DATE 2012: 236-241
2011
[c6]
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  - conf/cdc/YordanovB11
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Boyan Yordanov, Calin Belta:
A formal verification approach to the design of synthetic gene networks. CDC/ECC 2011: 4873-4878
[i1]
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  - journals/corr/abs-1109-1275
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Boyan Yordanov, Calin Belta:
A Formal Verification Approach to the Design of Synthetic Gene Networks. CoRR abs/1109.1275 (2011)
2010
[j2]
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  - journals/tac/YordanovB10
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Boyan Yordanov, Calin Belta:
Formal Analysis of Discrete-Time Piecewise Affine Systems. IEEE Trans. Autom. Control. 55(12): 2834-2840 (2010)
[c5]
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  - conf/cdc/TumovaYBCB10
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Jana Tumova, Boyan Yordanov, Calin Belta, Ivana Cerna, Jiri Barnat:
A symbolic approach to controlling piecewise affine systems. CDC 2010: 4230-4235
[c4]
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Boyan Yordanov, Jana Tumova, Calin Belta, Ivana Cerna, Jiri Barnat:
Formal analysis of piecewise affine systems through formula-guided refinement. CDC 2010: 5899-5904

2000 – 2009

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2009
[c3]
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Boyan Yordanov, Calin Belta:
Temporal logic control of discrete-time piecewise affine systems. CDC 2009: 3182-3187
2008
[c2]
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  - conf/amcc/YordanovB08
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Boyan Yordanov, Calin Belta:
Formal analysis of Piecewise Affine systems under parameter uncertainty with application to gene networks. ACC 2008: 2767-2772
[c1]
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  - conf/hybrid/YordanovB08
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Boyan Yordanov, Calin Belta:
Parameter Synthesis for Piecewise Affine Systems from Temporal Logic Specifications. HSCC 2008: 542-555
2007
[j1]
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  - journals/bioinformatics/BattYWB07
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Grégory Batt, Boyan Yordanov, Ron Weiss, Calin Belta:
Robustness analysis and tuning of synthetic gene networks. Bioinform. 23(18): 2415-2422 (2007)

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