| Systems biology graphical notation: process description language level 1 version 2.0 A Rougny, V Touré, S Moodie, I Balaur, T Czauderna, H Borlinghaus, ... Journal of integrative bioinformatics 16 (2), 20190022, 2019 | 54 | 2019 |
| Systems biology graphical notation markup language (SBGNML) version 0.3 FT Bergmann, T Czauderna, U Dogrusoz, A Rougny, A Dräger, V Touré, ... Journal of integrative bioinformatics 17 (2-3), 20200016, 2020 | 23 | 2020 |
| The systems biology graphical notation: Current status and applications in systems medicine V Touré, A Dräger, A Luna, U Dogrusoz, A Rougny Elsevier, 2020 | 10 | 2020 |
| SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks A Rougny, V Touré, J Albanese, D Waltemath, D Shirshov, A Sorokin, ... Briefings in bioinformatics 22 (5), bbab049, 2021 | 8 | 2021 |
| A detailed map of coupled circadian clock and cell cycle with qualitative dynamics validation A Rougny, L Paulevé, M Teboul, F Delaunay BMC bioinformatics 22 (1), 240, 2021 | 8 | 2021 |
| A logic-based method to build signaling networks and propose experimental plans A Rougny, P Gloaguen, N Langonné, E Reiter, P Crépieux, A Poupon, ... Scientific Reports 8 (1), 7830, 2018 | 8 | 2018 |
| Completing sbgn-af networks by logic-based hypothesis finding Y Yamamoto, A Rougny, H Nabeshima, K Inoue, H Moriya, C Froidevaux, ... Formal Methods in Macro-Biology: First International Conference, FMMB 2014 …, 2014 | 8 | 2014 |
| Production of recombinant extracellular cholesterol esterase using consistently active promoters in Burkholderia stabilis K Yoshida, K Konishi, A Magana-Mora, A Rougny, Y Yasutake, ... Bioscience, Biotechnology, and Biochemistry 83 (10), 1974-1984, 2019 | 7 | 2019 |
| Qualitative dynamics semantics for SBGN process description A Rougny, C Froidevaux, L Calzone, L Paulevé BMC systems biology 10, 1-24, 2016 | 7 | 2016 |
| Reusability and composability in process description maps: RAS–RAF–MEK–ERK signalling A Mazein, A Rougny, JR Karr, J Saez-Rodriguez, M Ostaszewski, ... Briefings in bioinformatics 22 (5), bbab103, 2021 | 6 | 2021 |
| Completing signaling networks by abductive reasoning with perturbation experiments. A Rougny, Y Yamamoto, H Nabeshima, G Bourgne, A Poupon, K Inoue, ... ILP (late breaking papers), 95-100, 2015 | 6 | 2015 |
| Translating the SBGN-AF language into logic to analyze signalling networks A Rougny, C Froidevaux, Y Yamamoto, K Inoue LNMR 2013, 43, 2013 | 6 | 2013 |
| Towards a logic-based method to infer provenance-aware molecular networks Z Aslaoui-Errafi, S Cohen-Boulakia, C Froidevaux, P Gloaguen, A Poupon, ... Proc. of the 1st ECML/PKDD International workshop on Learning and Discovery …, 2012 | 6 | 2012 |
| A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance A Mazein, ML Acencio, I Balaur, A Rougny, D Welter, A Niarakis, ... Frontiers in bioinformatics 3, 1197310, 2023 | 3 | 2023 |
| StonPy: a tool to parse and query collections of SBGN maps in a graph database A Rougny, I Balaur, A Luna, A Mazein Bioinformatics 39 (3), btad100, 2023 | 3 | 2023 |
| sbgntikz—a TikZ library to draw SBGN maps A Rougny Bioinformatics 35 (21), 4499-4500, 2019 | 3 | 2019 |
| Analyzing SBGN‐AF Networks Using Normal Logic Programs A Rougny, C Froidevaux, Y Yamamoto, K Inoue Logical Modeling of Biological Systems, 325-361, 2014 | 3 | 2014 |
| A versatile and interoperable computational framework for the analysis and modeling of COVID-19 disease mechanisms A Niarakis, M Ostaszewski, A Mazein, I Kuperstein, M Kutmon, ... bioRxiv, 2022.12. 17.520865, 2022 | 1 | 2022 |
| High-quality reconstruction of disease mechanisms: planning, development and maintenance A Mazein, ML Acencio, I Balaur, A Rougny, D Welter, A Niarakis, ... Preprints, 2022 | 1 | 2022 |
| Méthodes qualitatives pour la construction et l'analyse des réseaux moléculaires SBGN A Rougny Université Paris Saclay (COmUE), 2016 | 1 | 2016 |
