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Prof. dr. J.A. (Jo) Ellis-Monaghan

Faculty of Science

Visiting address
  • Science Park 107
Postal address
  • Postbus 94248
    1090 GE Amsterdam
  • Publications


    • Ellis-Monaghan, J., & Jonoska, N. (2023). From Molecules to Mathematics. In N. Jonoska, & E. Winfree (Eds.), Visions of DNA Nanotechnology at 40 for the Next 40: A Tribute to Nadrian C. Seeman (pp. 189-206). (Natural Computing Series). Springer. [details]


    • Abrams, L., & Ellis-Monaghan, J. A. (2022). New dualities from old: Generating geometric, Petrie, and Wilson dualities and trialities of ribbon graphs. Combinatorics Probability and Computing, 31(4), 574-597. Advance online publication.
    • Ellingham, M. N., & Ellis-Monaghan, J. A. (2022). A Catalog of Enumeration Formulas for Bouquet and Dipole Embeddings under Symmetries. Symmetry, 14(9), Article 1793.
    • Ellis-Monaghan, J. A., & Moffatt, I. (2022). Graph theory. In J. A. Ellis-Monaghan, & I. Moffatt (Eds.), Handbook of the Tutte Polynomial and Related Topics (pp. 3-13). CRC Press.
    • Ellis-Monaghan, J. A., & Moffatt, I. (2022). Skein polynomials and the tutte polynomial when x = y. In Handbook of the Tutte Polynomial and Related Topics (pp. 266-283). CRC Press.
    • Ellis-Monaghan, J. A., & Moffatt, I. (2022). The Tutte polynomial for graphs. In Handbook of the Tutte Polynomial and Related Topics (pp. 14-26). CRC Press.
    • Ellis-Monaghan, J. A., & Moffatt, I. (Eds.) (2022). Handbook of the tutte polynomial and related topics. CRC Press.
    • Ellis-Monaghan, J. A., Goodall, A. J., Moffatt, I., Noble, S. D., & Vena, L. (2022). Irreducibility of the Tutte polynomial of an embedded graph. Algebraic Combinatorics, 5(6), 1337-1351.


    • Morse, A., Adkisson, W., Greene, J., Perry, D., Smith, B., Ellis-Monaghan, J., & Pangborn, G. (2020). DNA origami and unknotted A-trails in torus graphs. Journal of Knot Theory and its Ramifications, 29(7), Article 2050041.


    • Ellingham, M. N., & Ellis-Monaghan, J. A. (2019). Edge-outer graph embedding and the complexity of the DNA reporter strand problem. Theoretical Computer Science, 785, 117-127.


    • Ellis Monaghan, J. A., Kung, J. P. S., & Moffatt, I. (2018). Preface: Special issue on the Tutte polynomial. Advances in Applied Mathematics, 94, 1-2.
    • Ellis-Monaghan, J., Jonoska, N., & Pangborn, G. (2018). Tile-Based DNA Nanostructures: Mathematical Design and Problem Encoding. In Algebraic and Combinatorial Computational Biology (pp. 35-60). Elsevier.
    • Ferrari, M. M., Cook, A., Houlihan, A., Rouleau, R., Seeman, N. C., Pangborn, G., & Ellis-Monaghan, J. (2018). Design formalism for DNA self-assembly of polyhedral skeletons using rigid tiles. Journal of Mathematical Chemistry, 56(5), 1365-1392.


    • Ellis-Monaghan, J. A., Pangborn, G., Seeman, N. C., Blakeley, S., Disher, C., Falcigno, M., Healy, B., Morse, A., Singh, B., & Westland, M. (2017). Design tools for reporter strands and DNA origami scaffold strands. Theoretical Computer Science, 671, 69-78.



    • Ellis-Monaghan, J. A., & Moffatt, I. (2014). A note on recognizing an old friend in a new place: List coloring and the zero-temperature potts model. Annales de l'Institut Henri Poincare (D) Combinatorics, Physics and their Interactions, 1(4), 429-442.
    • Ellis-Monaghan, J., Pangborn, G., Beaudin, L., Miller, D., Bruno, N., & Hashimoto, A. (2014). Minimal tile and bond-edge types for self-assembling DNA graphs. In N. Jonoska, & M. Saito (Eds.), Discrete and Topological Models in Molecular Biology (pp. 241-270). (Natural Computing Series; Vol. 48). Springer.




    • Ellis-Monaghan, J. A., & Merino, C. (2011). Graph polynomials and their applications I: The tutte polynomial. In Structural Analysis of Complex Networks (pp. 219-255). Birkhäuser Boston.
    • Ellis-Monaghan, J. A., & Merino, C. (2011). Graph polynomials and their applications II: Interrelations and interpretations. In Structural Analysis of Complex Networks (pp. 257-292). Birkhäuser Boston.
    • Ellis-Monaghan, J. A., & Moffatt, I. (2011). The Tutte-Potts connection in the presence of an external magnetic field. Advances in Applied Mathematics, 47(4), 772-782.
    • Ellis-Monaghan, J. A., & Sarmiento, I. (2011). A recipe theorem for the topological Tutte polynomial of Bollobás and Riordan. European Journal of Combinatorics, 32(6), 782-794.
    • Ellis-Monaghan, J., & Boelkins, M. (2011). Twenty years of PRIMUS: A tribute to Brian J. Winkel. PRIMUS, 21(2), 99-100.
    • Ellis-Monaghan, J., & Pangborn, G. (2011). Using DNA self-assembly design strategies to motivate graph theory concepts. Mathematical Modelling of Natural Phenomena, 6(6), 96-107.



    • Cox, M. A., Hughes, T. S., Ellis-Monaghan, J. A., & Mondanaro, K. R. (2008). Hydrocarbon links in an octet truss. Journal of Mathematical Chemistry, 43(2), 874-891.
    • Dean, A. M., Ellis-Monaghan, J. A., Hamilton, S., & Pangborn, G. (2008). Unit rectangle visibility graphs. Electronic Journal of Combinatorics, 15(1), Article R79.



    • Ashline, G., & Ellis-Monaghan, J. (2006). How high? How fast? How long? Modeling water rocket flight with calculus. PRIMUS, 16(2), 121-137.
    • Ellis-Monaghan, J. A., & Traldi, L. (2006). Parametrized Tutte polynomials of graphs and matroids. Combinatorics Probability and Computing, 15(6), 835-854.
    • Ellis-Monaghan, J. A., Pike, D. A., & Zor, Y. (2006). Decycling of Fibonacci cubes. Australasian Journal of Combinatorics, 35, 31-40.





    Journal editor

    • Ellis-Monaghan, J. (editor) (2021-2025). Annales de l'Institut Henri Poincaré D (Journal).


    • Ellis-Monaghan, J. (organiser) (20-6-2021 - 26-6-2021). European Congress of Mathematics (organising a conference, workshop, ...).
    • Ellis-Monaghan, J. (organiser) (2020 - 2025). Dutch Combinatorics Network (organising a conference, workshop, ...).


    • Stroh, F. J. M. (2022). Hamilton cycles and algorithms. [Thesis, fully internal, Universiteit van Amsterdam]. [details]
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  • Ancillary activities
    • No ancillary activities