Completing SBGN-AF Networks by Logic-Based Hypothesis Finding. - Yoshitaka Yamamoto; Adrien Rougny; Hidetomo Nabeshima; Katsumi Inoue; Hisao Moriya; Christine Froidevaux; Koji Iwanuma (FMMB, 2014)

Completing signaling networks by abductive reasoning with perturbation experiments. - Adrien Rougny; Yoshitaka Yamamoto; Hidetomo Nabeshima; Gauvain Bourgne; Anne Poupon; Katsumi Inoue; Christine Froidevaux (ILP (Late Breaking Papers), 2015)

Qualitative dynamics semantics for SBGN process description. - Adrien Rougny; Christine Froidevaux; Laurence Calzone; Loïc Paulevé (BMC Syst. Biol., 2016)

Méthodes qualitatives pour la construction et l'analyse des réseaux moléculaires SBGN. (Qualitative methods for the construction and the analysis of SBGN molecular networks). - Adrien Rougny (2016)

sbgntikz - a TikZ library to draw SBGN maps. - Adrien Rougny (Bioinform., 2019)

Systems Biology Graphical Notation: Process Description language Level 1 Version 2.0. - Adrien Rougny; Vasundra Touré; Stuart L. Moodie; Irina Balaur; Tobias Czauderna; Hanna Borlinghaus; Ugur Dogrusoz; Alexander Mazein; Andreas Dräger; Michael L. Blinov; Alice Villéger; Robin Haw; et al. (J. Integr. Bioinform., 2019)

Systems biology graphical notation markup language (SBGNML) version 0.3. - Frank T. Bergmann; Tobias Czauderna; Ugur Dogrusoz; Adrien Rougny; Andreas Dräger; Vasundra Touré; Alexander Mazein; Michael L. Blinov; Augustin Luna (J. Integr. Bioinform., 2020)

Reusability and composability in process description maps: RAS-RAF-MEK-ERK signalling. - Alexander Mazein; Adrien Rougny; Jonathan R. Karr; Julio Saez-Rodriguez; Marek Ostaszewski; Reinhard Schneider 002 (Briefings Bioinform., 2021)

SBGN Bricks Ontology as a tool to describe recurring concepts in molecular networks. - Adrien Rougny; Vasundra Touré; John Albanese; Dagmar Waltemath; Denis Shirshov; Anatoly A. Sorokin; Gary D. Bader; Michael L. Blinov; Alexander Mazein (Briefings Bioinform., 2021)

A detailed map of coupled circadian clock and cell cycle with qualitative dynamics validation. - Adrien Rougny; Loïc Paulevé; Michèle Teboul; Franck Delaunay (BMC Bioinform., 2021)

StonPy: a tool to parse and query collections of SBGN maps in a graph database. - Adrien Rougny; Irina Balaur; Augustin Luna; Alexander Mazein (Bioinform., 2023)

A guide for developing comprehensive systems biology maps of disease mechanisms: planning, construction and maintenance. - Alexander Mazein; Marcio Luis Acencio; Irina Balaur; Adrien Rougny; Danielle Welter; Anna Niarakis; Diana Ramirez Ardila; Ugur Dogrusoz; Piotr Gawron; Venkata P. Satagopam; Wei Gu; Andreas Kremer; et al. (Frontiers Bioinform., 2023)

Graph databases in systems biology: a systematic review. - Ilya Mazein; Adrien Rougny; Alexander Mazein; Ron Henkel; Lea Gütebier; Lea Michaelis; Marek Ostaszewski; Reinhard Schneider 002; Venkata P. Satagopam; Lars Juhl Jensen; Dagmar Waltemath; Judith A. H. Wodke; et al. (Briefings Bioinform., 2024)