{"id":148,"date":"2018-01-01T16:18:51","date_gmt":"2018-01-01T15:18:51","guid":{"rendered":"https:\/\/www.mmferrari.net\/?page_id=148"},"modified":"2025-10-03T17:40:47","modified_gmt":"2025-10-03T15:40:47","slug":"research","status":"publish","type":"page","link":"https:\/\/www.mmferrari.net\/index.php\/research\/","title":{"rendered":"Research"},"content":{"rendered":"\n

\u00a0Publications<\/span><\/h2>\n
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  1. S. Bonvicini, M.M. Ferrari. A multipartite approach for the self-assembly of DNA graph structures, to appear in Natural Computing (2025).<\/li>\n
  2. M.M. Ferrari, S. Poznanovi\u0107, M. Riehl, J. Lusk, S. Hartono, G. Gonzalez-Isunza, F. Ch\u00e9din, M. V\u00e1zquez, N. Jonoska, The R-loop Grammar predicts R-loop formation under different topological constraints<\/em><\/span><\/a>, PLOS Computational Biology 21<\/strong>(8), e1013376 (2025).<\/li>\n
  3. Y. Jeon, Y. Lu, M.M. Ferrari, T. Channagiri, P. Xu, C. Meers, Y. Zhang, S. Balachander, V.S. Park, S. Marsili, Z.F. Pursell, N. Jonoska, F. Storici, RNA-mediated double-strand break repair by end-joining mechanisms<\/span><\/a><\/em>, Nature Communications 15<\/strong>, Article 7935 (2024).<\/li>\n
  4. M.M. Ferrari, A. Pasotti, T. Traetta, On non-isomorphic biminimal pots realizing the cube<\/span><\/em><\/a>, Bulletin of the Institute of Combinatorics and its Applications 98<\/strong>, 122-139 (2023).<\/li>\n
  5. H. Du, M.M. Ferrari, C. Heitsch, F. Hurley, C.V. Mennicke, B.D. Sullivan, B. Xu, Secondary structure ensemble analysis via community detection<\/em><\/span><\/a>, in R. Segal, B. Shtylla, and S. Sindi, eds, Using Mathematics to Understand Biological Complexity, Association for Women in Mathematics Series 22<\/strong> (Springer, Cham, 2021), pp. 55-81.<\/li>\n
  6. M.M. Ferrari, E. Munarini, N. Zagaglia Salvi, Some combinatorial properties of the generalized derangement numbers<\/em><\/span><\/a>,<\/em> Rivista di Matematica della Universit\u00e0 di Parma 11<\/strong>(2), 217-249 (2020).<\/li>\n
  7. D.A. Cruz, M.M. Ferrari, N. Jonoska, L. Nabergall, M. Saito, Insertions yielding equivalent double occurrence words<\/em><\/span><\/a>, Fundamenta Informaticae 171<\/strong>(1-4), 113-132 (2020).<\/li>\n
  8. S. Bonvicini, M.M. Ferrari, On the minimum number of bond-edge types and tile types: an approach by edge-colorings of\u00a0 graphs<\/em><\/span><\/a>, Discrete Applied Mathematics 277, <\/b>1-13 (2020).<\/li>\n
  9. M.M. Ferrari, E. Munarini, Decomposition of some Hankel matrices generated by the generalized rencontres polynomials<\/span><\/em><\/a>, Linear Algebra and its Applications 567<\/strong>, 180-201 (2019).<\/li>\n
  10. M.M. Ferrari, N. Zagaglia Salvi, Cyclic compositions and cycles of the hypercube<\/em><\/span><\/a>, Aequationes Mathematicae 92<\/strong>(4), 671-682 (2018).<\/li>\n
  11. M.M. Ferrari, A. Cook, A. Houlihan, R. Rouleau, N.C. Seeman, G. Pangborn, J. Ellis-Monaghan, Design formalism for DNA self-assembly of polyhedral skeletons using rigid tiles<\/span><\/em><\/a>, Journal of Mathematical Chemistry 56<\/strong>(5), 1365-1392 (2018).<\/li>\n
  12. S. Capparelli, M.M. Ferrari, E. Munarini, N. Zagaglia Salvi, A generalization of the \u201cProbl\u00e8me des Rencontres\u201d<\/em><\/span><\/a>, Journal of Integer Sequences 21<\/strong>, Article 18.2.8 (2018).<\/li>\n
  13. F. Beggas, M.M. Ferrari, N. Zagaglia Salvi, Combinatorial interpretations and enumeration of particular bijections<\/em><\/span><\/a>, Rivista di Matematica della Universit\u00e0 di Parma 8<\/strong>(2), 161-169 (2017).<\/li>\n
  14. M.M. Ferrari, N. Zagaglia Salvi, Aperiodic compositions and classical integer sequences<\/em><\/span><\/a>, Journal of Integer Sequences 20,<\/strong> Article 17.8.8 (2017).<\/li>\n
  15. M.M. Ferrari, N. Zagaglia Salvi, Recent results on the adjacent vertex distinguishing chromatic index of the direct product of graphs<\/em><\/span><\/a>, Lecture Notes of Seminario Interdisciplinare di Matematica 14<\/strong>, 57-69 (2017).<\/li>\n
  16. M. M.Ferrari, N. Zagaglia Salvi, Minimal edge colorings of class 2 graphs and double graphs<\/em><\/span><\/a>, Le Matematiche 71<\/strong>(2), 17-25 (2016).<\/li>\n
  17. F. Beggas, M.M. Ferrari, H. Kheddouci, N. Zagaglia Salvi, On circular disarranged strings of sequences<\/em><\/span><\/a>, Advances and Applications in Discrete Mathematics 17<\/strong>(3), 275-292 (2016).<\/li>\n
  18. G. Cesari, M.M. Ferrari, <\/em>On the position value for special classes of networks<\/em><\/span><\/a>, in L. Petrosyan and V. Mazalov, eds, Recent Advances in Game Theory and Applications, Static & Dynamic Game Theory: Foundations & Applications (Birkh\u00e4user, Cham, 2016), pp. 29-47.<\/li>\n<\/ol>\n\n","protected":false},"excerpt":{"rendered":"

    \u00a0Publications S. Bonvicini, M.M. Ferrari. A multipartite approach for the self-assembly of DNA graph structures, to appear in Natural Computing (2025). M.M. Ferrari, S. Poznanovi\u0107, M. Riehl, J. Lusk, S. Hartono, G. Gonzalez-Isunza, F. Ch\u00e9din, M. V\u00e1zquez, N. Jonoska, The R-loop Grammar predicts R-loop formation under different topological constraints, PLOS Computational Biology 21(8), e1013376 (2025). Y. Jeon, Y. Lu, M.M. Ferrari, T. Channagiri, P. Xu, C. Meers, Y. Zhang, S. Balachander, V.S. Park, S. Marsili,… <\/p>\n","protected":false},"author":2,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-148","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/pages\/148","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/comments?post=148"}],"version-history":[{"count":104,"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/pages\/148\/revisions"}],"predecessor-version":[{"id":1367,"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/pages\/148\/revisions\/1367"}],"wp:attachment":[{"href":"https:\/\/www.mmferrari.net\/index.php\/wp-json\/wp\/v2\/media?parent=148"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}