Natasa Jonoska

103 papers A 3B 11C 13Journal 52Unranked 19

Year	Rank	Type	Title / Venue / Authors
2026	J	`jnl`	A Comparison of Polynomial-Based Tree Clustering Methods. CoRR Pengyu Liu, Mariel Vázquez, Natasa Jonoska
2025	—	`conf`	A Comparison of Polynomial-Based Tree Clustering Methods. UCNC Pengyu Liu, Mariel Vázquez, Natasa Jonoska
2025	—	`conf`	Determining Isomorphic Crystal Structures. UCNC Natasa Jonoska, Milé Krajcevski, Gregory L. McColm
2025	J	`jnl`	The R-loop grammar predicts R-loop formation under different topological constraints. PLoS Comput. Biol. Margherita Maria Ferrari, Svetlana Poznanovic, Manda Riehl, Jacob Lusk, Stella Hartono, Georgina Gonzalez-Isunza, Frédéric Chedin, Mariel Vázquez, Natasa Jonoska
2024	J	`jnl`	Tree polynomials identify a link between co-transcriptional R-loops and nascent RNA folding. PLoS Comput. Biol. Pengyu Liu, Jacob Lusk, Natasa Jonoska, Mariel Vázquez
2022	J	`jnl`	Deterministic Non-cooperative Binding in Two-Dimensional Tile Assembly Systems Must Have Ultimately Periodic Paths. CoRR Jérôme Durand-Lose, Hendrik Jan Hoogeboom, Natasa Jonoska
2021	J	`jnl`	DNA origami words, graphical structures and their rewriting systems. Nat. Comput. James Garrett, Natasa Jonoska, Hwee Kim, Masahico Saito
2021	J	`jnl`	Preface. Int. J. Found. Comput. Sci. Natasa Jonoska, Dmytro Savchuk
2021	J	`jnl`	Preface. Nat. Comput. David Doty, Rudolf Freund, Natasa Jonoska, Jarkko Kari
2020	J	`jnl`	Companions and an Essential Motion of a Reaction System. Fundam. Informaticae Daniela Genova, Hendrik Jan Hoogeboom, Natasa Jonoska
2020	C	`ed.`	Developments in Language Theory - 24th International Conference, DLT 2020, Tampa, FL, USA, May 11-15, 2020, Proceedings DLT Natasa Jonoska, Dmytro Savchuk
2020	J	`jnl`	Insertions Yielding Equivalent Double Occurrence Words. Fundam. Informaticae Daniel A. Cruz, Margherita Maria Ferrari, Natasa Jonoska, Lukas Nabergall, Masahico Saito
2020	J	`jnl`	Symbol Separation in Double Occurrence Words. Int. J. Found. Comput. Sci. Natasa Jonoska, Masahico Saito, Hwee Kim, Brad Mostowski
2020	B	`conf`	The Topology of Scaffold Routings on Non-Spherical Mesh Wireframes. DNA Abdulmelik Mohammed, Natasa Jonoska, Masahico Saito
2019	—	`conf`	Algebraic Systems Motivated by DNA Origami. CAI James Garrett, Natasa Jonoska, Hwee Kim, Masahico Saito
2019	—	`conf`	DNA Origami Words and Rewriting Systems. UCNC James Garrett, Natasa Jonoska, Hwee Kim, Masahico Saito
2019	J	`jnl`	Deterministic 2-Dimensional Temperature-1 Tile Assembly Systems Cannot Compute. CoRR Jérôme Durand-Lose, Hendrik Jan Hoogeboom, Natasa Jonoska
2018	J	`jnl`	Transformations on Double Occurrence Words Motivated by DNA Rearrangement. CoRR Daniel A. Cruz, Margherita Maria Ferrari, Natasa Jonoska, Lukas Nabergall, Masahico Saito
2017	J	`jnl`	A graph isomorphism condition and equivalence of reaction systems. Theor. Comput. Sci. Daniela Genova, Hendrik Jan Hoogeboom, Natasa Jonoska
2017	J	`jnl`	Patterns and Distances in Words Related to DNA Rearrangement. Fundam. Informaticae Natasa Jonoska, Lukas Nabergall, Masahico Saito
2017	—	`conf`	Platform Color Designs for Interactive Molecular Arrangements. UCNC Jasper Braun, Daniel A. Cruz, Natasa Jonoska
2016	J	`jnl`	<mds_ies_db>: a database of ciliate genome rearrangements. Nucleic Acids Res. Jonathan Burns, Denys Kukushkin, Kelsi Lindblad, Xiao Chen, Natasa Jonoska, Laura F. Landweber
2016	J	`jnl`	Counter machines and crystallographic structures. Nat. Comput. Natasa Jonoska, Mile Krajcevski, Gregory L. McColm
2016	C	`ed.`	Pursuit of the Universal - 12th Conference on Computability in Europe, CiE 2016, Paris, France, June 27 - July 1, 2016, Proceedings CiE Arnold Beckmann, Laurent Bienvenu, Natasa Jonoska
2016	—	`conf`	Traversal Languages Capturing Isomorphism Classes of Sierpiński Gaskets. UCNC Natasa Jonoska, Milé Krajcevski, Gregory L. McColm
2015	J	`jnl`	Dynamic Simulation of 1D Cellular Automata in the Active aTAM. New Gener. Comput. Natasa Jonoska, Daria Karpenko, Shinnosuke Seki
2015	J	`jnl`	Existence of constants in regular splicing languages. Inf. Comput. Paola Bonizzoni, Natasa Jonoska
2015	J	`jnl`	Genus Ranges of 4-Regular Rigid Vertex Graphs. Electron. J. Comb. Dorothy Buck, Egor Dolzhenko, Natasa Jonoska, Masahico Saito, Karin Valencia
2014	B	`conf`	A Stronger Square Conjecture on Binary Words. SOFSEM Natasa Jonoska, Florin Manea, Shinnosuke Seki
2014	J	`jnl`	Active Tile Self-assembly, Part 1: Universality at temperature 1. Int. J. Found. Comput. Sci. Natasa Jonoska, Daria Karpenko
2014	J	`jnl`	Active Tile Self-assembly, Part 2: Self-Similar Structures and Structural Recursion. Int. J. Found. Comput. Sci. Natasa Jonoska, Daria Karpenko
2014	—	`book`	Discrete and Topological Models in Molecular Biology Natasa Jonoska, Masahico Saito
2014	—	`conf`	Languages Associated with Crystallographic Symmetry. UCNC Natasa Jonoska, Mile Krajcevski, Gregory L. McColm
2014	J	`jnl`	Preface. Nat. Comput. Jérôme Durand-Lose, Natasa Jonoska
2013	J	`jnl`	Four-regular graphs with rigid vertices associated to DNA recombination. Discret. Appl. Math. Jonathan Burns, Egor Dolzhenko, Natasa Jonoska, Tilahun Muche, Masahico Saito
2012	—	`ch.`	Computational Nature of Gene Assembly in Ciliates. Handbook of Natural Computing Robert Brijder, Mark Daley, Tero Harju, Natasa Jonoska, Ion Petre, Grzegorz Rozenberg
2012	J	`jnl`	Forbidding and enforcing on graphs. Theor. Comput. Sci. Daniela Genova, Natasa Jonoska
2012	J	`jnl`	Rewriting rule chains modeling DNA rearrangement pathways. Theor. Comput. Sci. Angela Angeleska, Natasa Jonoska, Masahico Saito
2012	J	`jnl`	Two-Dimensional Languages and Cellular Automata. Int. J. Found. Comput. Sci. Egor Dolzhenko, Natasa Jonoska
2012	—	`ed.`	Unconventional Computation and Natural Computation - 11th International Conference, UCNC 2012, Orléan, France, September 3-7, 2012. Proceedings UCNC Jérôme Durand-Lose, Natasa Jonoska
2010	C	`conf`	DNA Rearrangements through Spatial Graphs. CiE Natasa Jonoska, Masahico Saito
2010	—	`conf`	Finite State Automata by DNA Self-assembly. ICT Innovations Natasa Jonoska, Nadrian C. Seeman
2010	J	`jnl`	Transducer generated arrays of robotic nano-arms. Nat. Comput. Egor Dolzhenko, Natasa Jonoska, Nadrian C. Seeman
2010	C	`conf`	Using Automata to Describe Self-Assembled Nanostructures. CIAA Natasa Jonoska
2009	J	`jnl`	Complexity classes for self-assembling flexible tiles. Theor. Comput. Sci. Natasa Jonoska, Gregory L. McColm
2009	—	`conf`	DNA Cages with Icosahedral Symmetry in Bionanotechnology. Algorithmic Bioprocesses Natasa Jonoska, Anne Taormina, Reidun Twarock
2009	J	`jnl`	DNA recombination through assembly graphs. Discret. Appl. Math. Angela Angeleska, Natasa Jonoska, Masahico Saito
2009	J	`jnl`	DNA splicing: computing by observing. Nat. Comput. Matteo Cavaliere, Natasa Jonoska, Peter Leupold
2009	J	`jnl`	Finite state automata representing two-dimensional subshifts. Theor. Comput. Sci. Natasa Jonoska, Joni Burnette Pirnot
2009	J	`jnl`	On existence of reporter strands in DNA-based graph structures. Theor. Comput. Sci. Natasa Jonoska, Nadrian C. Seeman, Gang Wu
2009	J	`jnl`	Preface. Theor. Comput. Sci. Natasa Jonoska, Jarkko Kari
2009	J	`jnl`	Preface. Theor. Comput. Sci. Natasa Jonoska, Jarkko Kari
2009	—	`conf`	Strategies for RNA-Guided DNA Recombination. Algorithmic Bioprocesses Angela Angeleska, Natasa Jonoska, Masahico Saito, Laura F. Landweber
2008	B	`conf`	Describing Self-assembly of Nanostructures. SOFSEM Natasa Jonoska, Gregory L. McColm
2008	J	`jnl`	Involution Solid and Join codes. Fundam. Informaticae Natasa Jonoska, Lila Kari, Kalpana Mahalingam
2008	J	`jnl`	Knee joint injury and repair modeled by membrane systems. Biosyst. Giuditta Franco, Natasa Jonoska, Barbara Osborn, Anna Plaas
2008	C	`conf`	On Complexity of Two Dimensional Languages Generated by Transducers. CIAA Egor Dolzhenko, Natasa Jonoska
2007	C	`conf`	Finite State Automata Representing Two-Dimensional Subshifts. CIAA Natasa Jonoska, Joni Burnette Pirnot
2006	J	`jnl`	Biomolecular Automata. Bull. EATCS Natasa Jonoska
2006	C	`conf`	Flexible Versus Rigid Tile Assembly. UC Natasa Jonoska, Gregory L. McColm
2006	—	`conf`	Forbidding - Enforcing Conditions in DNA Self-assembly of Graphs. Nanotechnology: Science and Computation Giuditta Franco, Natasa Jonoska
2006	C	`conf`	Involution Solid and Join Codes. Developments in Language Theory Natasa Jonoska, Lila Kari, Kalpana Mahalingam
2006	—	`book`	Nanotechnology: Science and Computation Nanotechnology: Science and Computation Junghuei Chen, Natasa Jonoska, Grzegorz Rozenberg
2006	B	`conf`	Spectrum of a Pot for DNA Complexes. DNA Natasa Jonoska, Gregory L. McColm, Ana Staninska
2006	J	`jnl`	Theoretical and Experimental DNA Computation. Genet. Program. Evolvable Mach. Natasa Jonoska
2006	J	`jnl`	Topological Properties of Forbidding-Enforcing Systems. J. Autom. Lang. Comb. Daniela Genova, Natasa Jonoska
2006	J	`jnl`	Transitivity in Two-dimensional Local Languages Defined by Dot Systems. Int. J. Found. Comput. Sci. Natasa Jonoska, Joni Burnette Pirnot
2005	C	`conf`	A Computational Model for Self-assembling Flexible Tiles. UC Natasa Jonoska, Gregory L. McColm
2005	B	`conf`	Expectation and Variance of Self-assembled Graph Structures. DNA Natasa Jonoska, Gregory L. McColm, Ana Staninska
2005	J	`jnl`	Involution codes: with application to DNA coded languages. Nat. Comput. Natasa Jonoska, Kalpana Mahalingam, Junghuei Chen
2005	B	`conf`	Recognizing DNA Splicing. DNA Matteo Cavaliere, Natasa Jonoska, Peter Leupold
2005	C	`conf`	Structural DNA Nanotechnology: Molecular Construction and Computation. UC Ruojie Sha, Xiaoping Zhang, Shiping Liao, Pamela E. Constantinou, Baoquan Ding, Tong Wang, Alejandra V. Garibotti, Hong Zhong, Lisa B. Israel, Xing Wang, Gang Wu, Banani Chakraborty, Junghuei Chen, Yuwen Zhang, Hao Yan, Zhiyong Shen, Wanqiu Shen, Phiset Sa-Ardyen, Jens Kopatsch, Jiwen Zheng, Philip S. Lukeman, William B. Sherman, Chengde Mao, Natasa Jonoska, Nadrian C. Seeman
2004	C	`conf`	Algebraic and Topological Models for DNA Recombinant Processes. Developments in Language Theory Natasa Jonoska, Masahico Saito
2004	—	`ed.`	Aspects of Molecular Computing, Essays Dedicated to Tom Head on the Occasion of His 70th Birthday Aspects of Molecular Computing Natasa Jonoska, Gheorghe Paun, Grzegorz Rozenberg
2004	B	`conf`	Biomolecular Implementation of Computing Devices with Unbounded Memory. DNA Matteo Cavaliere, Natasa Jonoska, Sivan Yogev, Ron Piran, Ehud Keinan, Nadrian C. Seeman
2004	J	`jnl`	Membrane Computing. New Gener. Comput. Natasa Jonoska, Gheorghe Paun
2004	—	`conf`	Methods for Constructing Coded DNA Languages. Aspects of Molecular Computing Natasa Jonoska, Kalpana Mahalingam
2004	—	`conf`	Transducers with Programmable Input by DNA Self-assembly. Aspects of Molecular Computing Natasa Jonoska, Shiping Liao, Nadrian C. Seeman
2004	J	`jnl`	Tree Operations in P Systems and lamda-Calculus. Fundam. Informaticae Natasa Jonoska, Maurice Margenstern
2004	J	`jnl`	Trends in Computing with DNA. J. Comput. Sci. Technol. Natasa Jonoska
2004	—	`conf`	lambda-P Systems and Typed lambda-Calculus. Workshop on Membrane Computing Loïc Colson, Natasa Jonoska, Maurice Margenstern
2003	J	`jnl`	Computation by Self-assembly of DNA Graphs. Genet. Program. Evolvable Mach. Natasa Jonoska, Phiset Sa-Ardyen, Nadrian C. Seeman
2003	—	`conf`	DNA Hybridization, Shifts of Finite Type, and Tiling of the Integers. Grammars and Automata for String Processing Ethan M. Coven, Natasa Jonoska
2003	J	`jnl`	Forbidding and enforcing in membrane computing. Nat. Comput. Matteo Cavaliere, Natasa Jonoska
2003	A	`ed.`	Genetic and Evolutionary Computation - GECCO 2003, Genetic and Evolutionary Computation Conference, Chicago, IL, USA, July 12-16, 2003. Proceedings, Part I GECCO Erick Cantú-Paz, James A. Foster, Kalyanmoy Deb, Lawrence Davis, Rajkumar Roy, Una-May O'Reilly, Hans-Georg Beyer, Russell K. Standish, Graham Kendall, Stewart W. Wilson, Mark Harman, Joachim Wegener, Dipankar Dasgupta, Mitchell A. Potter, Alan C. Schultz, Kathryn A. Dowsland, Natasa Jonoska, Julian F. Miller
2003	A	`ed.`	Genetic and Evolutionary Computation - GECCO 2003, Genetic and Evolutionary Computation Conference, Chicago, IL, USA, July 12-16, 2003. Proceedings, Part II GECCO Erick Cantú-Paz, James A. Foster, Kalyanmoy Deb, Lawrence Davis, Rajkumar Roy, Una-May O'Reilly, Hans-Georg Beyer, Russell K. Standish, Graham Kendall, Stewart W. Wilson, Mark Harman, Joachim Wegener, Dipankar Dasgupta, Mitchell A. Potter, Alan C. Schultz, Kathryn A. Dowsland, Natasa Jonoska, Julian F. Miller
2003	B	`conf`	Languages of DNA Based Code Words. DNA Natasa Jonoska, Kalpana Mahalingam
2003	J	`jnl`	Self-assembling DNA graphs. Nat. Comput. Phiset Sa-Ardyen, Natasa Jonoska, Nadrian C. Seeman
2003	—	`conf`	Tiling Rectangular Pictures with P Systems. Workshop on Membrane Computing Rodica Ceterchi, Radu Gramatovici, Natasa Jonoska
2003	J	`jnl`	Tissue-like P Systems with Active Membranes for Picture Generation. Fundam. Informaticae Rodica Ceterchi, Radu Gramatovici, Natasa Jonoska, K. G. Subramanian
2002	B	`ed.`	DNA Computing, 7th International Workshop on DNA-Based Computers, DNA 2001, Tampa, Florida, USA, June 10-13, 2001, Revised Papers DNA Natasa Jonoska, Nadrian C. Seeman
2002	A	`ed.`	GECCO 2002: Proceedings of the Genetic and Evolutionary Computation Conference, New York, USA, 9-13 July 2002 GECCO William B. Langdon, Erick Cantú-Paz, Keith E. Mathias, Rajkumar Roy, David Davis, Riccardo Poli, Karthik Balakrishnan, Vasant G. Honavar, Günter Rudolph, Joachim Wegener, Larry Bull, Mitchell A. Potter, Alan C. Schultz, Julian F. Miller, Edmund K. Burke, Natasa Jonoska
2002	—	`conf`	Generating DNA Code Words. GECCO Late Breaking Papers Natasa Jonoska, David Kephart, Kalpana Mahalingam
2002	B	`conf`	Self-assembling DNA Graphs. DNA Phiset Sa-Ardyen, Natasa Jonoska, Nadrian C. Seeman
2001	B	`conf`	Boundary Components of Thickened Graphs. DNA Natasa Jonoska, Masahico Saito
2001	J	`jnl`	Multiplicities of covers for sofic shifts. Theor. Comput. Sci. Doris Fiebig, Ulf-Rainer Fiebig, Natasa Jonoska
1998	J	`jnl`	On a class of Nth order digital filters operating outside the region of stability. Int. J. Circuit Theory Appl. Cvetko D. Mitrovski, Ljupco Kocarev, Natasa Jonoska
1997	—	`conf`	Creating 3-dimensional graph structures with DNA. DNA Based Computers Natasa Jonoska, Stephen A. Karl, Masahico Saito
1997	C	`conf`	Ligation experiments in computing with DNA. ICEC Natasa Jonoska, Stephen A. Karl
1996	—	`conf`	A molecular computation of the road coloring problem. DNA Based Computers Natasa Jonoska, Stephen A. Karl
1996	J	`jnl`	Sofic Shifts with Synchronizing Presentations. Theor. Comput. Sci. Natasa Jonoska
1994	J	`jnl`	Minimal presentations for irreducible sofic shifts. IEEE Trans. Inf. Theory Natasa Jonoska, Brian H. Marcus
1992	C	`conf`	Spinal Cellular Automata. ICCI Natasa Jonoska