{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,8,20]],"date-time":"2026-08-20T09:24:23Z","timestamp":1787217863966,"version":"build-2736575974"},"reference-count":0,"publisher":"Centre pour la Communication Scientifique Directe (CCSD)","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"accepted":{"date-parts":[[2026,3,6]]},"abstract":"<jats:p>The explosion of data available in life sciences is fueling an increasing demand for expressive models and computational methods. Graph transformation is a model for dynamic systems with a large variety of applications. We introduce a novel method of the graph transformation model construction, combining generative and dynamical viewpoints to give a fully automated data-driven model inference method.   The method takes the input dynamical properties, given as a &amp;quot;snapshot&amp;quot; of the dynamics encoded by explicit transitions, and constructs a compatible model. The obtained model is guaranteed to be minimal, thus framing the approach as model compression (from a set of transitions into a set of rules). The compression is permissive to a lossy case, where the constructed model is allowed to exhibit behavior outside of the input transitions, thus suggesting a completion of the input dynamics.   The task of graph transformation model inference is naturally highly challenging due to the combinatorics involved. We tackle the exponential explosion by proposing a heuristically minimal translation of the task into a well-established problem, set cover, for which highly optimized solutions exist. We further showcase how our results relate to Kolmogorov complexity expressed in terms of graph transformation.<\/jats:p>","DOI":"10.46298\/fi.13347","type":"journal-article","created":{"date-parts":[[2026,8,20]],"date-time":"2026-08-20T08:35:12Z","timestamp":1787214912000},"source":"Crossref","is-referenced-by-count":0,"title":["Automated Inference of Graph Transformation Rules"],"prefix":"10.46298","volume":"Volume 196, Issue 1","author":[{"given":"Jakob L.","family":"Andersen","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Akbar","family":"Davoodi","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Rolf","family":"Fagerberg","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christoph","family":"Flamm","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Walter","family":"Fontana","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Juri","family":"Kol\u010d\u00e1k","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Christophe V. F. P.","family":"Laurent","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Daniel","family":"Merkle","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Nikolai","family":"N\u00f8jgaard","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"25203","published-online":{"date-parts":[[2026,8,20]]},"container-title":["Fundamenta Informaticae"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/arxiv.org\/pdf\/2404.02692v3","content-type":"application\/pdf","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/arxiv.org\/pdf\/2404.02692v3","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,8,20]],"date-time":"2026-08-20T08:35:12Z","timestamp":1787214912000},"score":1,"resource":{"primary":{"URL":"https:\/\/fi.episciences.org\/13347"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2026,8,20]]},"references-count":0,"URL":"https:\/\/doi.org\/10.46298\/fi.13347","relation":{"has-preprint":[{"id-type":"arxiv","id":"2404.02692v2","asserted-by":"subject"},{"id-type":"arxiv","id":"2404.02692v1","asserted-by":"subject"}],"is-same-as":[{"id-type":"arxiv","id":"2404.02692","asserted-by":"subject"},{"id-type":"doi","id":"10.48550\/arXiv.2404.02692","asserted-by":"subject"}]},"ISSN":["1875-8681"],"issn-type":[{"value":"1875-8681","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,8,20]]},"article-number":"13347"}}