23 citations
- Institut de Recherche en Informatique et Systèmes AléatoiresFR4 papers
- Centre Inria de l'Université de RennesFR3 papers
- Centre National de la Recherche ScientifiqueFR3 papers
- Institut national de recherche en sciences et technologies du numériqueFR2 papers
- Laboratoire d'Informatique Algorithmique: Fondements et ApplicationsFR2 papers
- Université de RennesFR2 papers
- University of TurkuFI2 papers
- ARAMIS: Algorithmes, modèles et méthodes pour les images et les signaux du cerveau humain sain et pathologiqueFR1 paper
- Délégation Paris 7FR1 paper
- École Centrale de NantesFR1 paper
- European Bioinformatics InstituteGB1 paper
- Heidelberg UniversityDE1 paper
7 papers
Deep learning languages: a key fundamental shift from probabilities to weights?
François Coste
Recent successes in language modeling, notably with deep learning methods, coincide with a shift from probabilistic to weighted representations. We raise here the question of the i…
Hybrid Metabolic Network Completion
Clémence Frioux, Torsten Schaub, Sebastian Schellhorn +2
Metabolic networks play a crucial role in biology since they capture all chemical reactions in an organism. While there are networks of high quality for many model organisms, netwo…
Converting Alzheimer s disease map into a heavyweight ontology: a formal network to integrate data
Vincent Henry, Ivan Moszer, Olivier Dameron +3
Alzheimer s disease (AD) pathophysiology is still imperfectly understood and current paradigms have not led to curative outcome. Omics technologies offer great promises for improvi…
Estimating probabilistic context-free grammars for proteins using contact map constraints
Witold Dyrka, François Coste, Juliette Talibart
Learning language of protein sequences, which captures non-local interactions between amino acids close in the spatial structure, is a long-standing bioinformatics challenge, which…
Revisiting the Training of Logic Models of Protein Signaling Networks with a Formal Approach based on Answer Set Programming
Santiago Videla, Carito Guziolowski, Federica Eduati +4
A fundamental question in systems biology is the construction and training to data of mathematical models. Logic formalisms have become very popular to model signaling networks bec…
Substitutive Arnoux-Rauzy sequences have pure discrete spectrum
Valérie Berthé, Timo Jolivet, Anne Siegel
We prove that the symbolic dynamical system generated by a purely substitutive Arnoux-Rauzy sequence is measurably conjugate to a toral translation. The proof is based on an explic…