Extensions of marginalized graph kernels. - Pierre Mahé; Nobuhisa Ueda; Tatsuya Akutsu; Jean-Luc Perret; Jean-Philippe Vert (ICML, 2004)

Graph Kernels for Molecular Structure-Activity Relationship Analysis with Support Vector Machines. - Pierre Mahé; Nobuhisa Ueda; Tatsuya Akutsu; Jean-Luc Perret; Jean-Philippe Vert (J. Chem. Inf. Model., 2005)

Visual Presentation of Mappings Between Biomedical Ontologies. - Simon Kocbek; Jean-Luc Perret; Jin-Dong Kim (SWAT4LS, 2012)

Visualizing ontology mappings to help ontology engineers identify relevant ontologies for their reuse. - Simon Kocbek; Jin-Dong Kim; Jean-Luc Perret; Patricia L. Whetzel (ICBO, 2013)

BioHackathon 2015: Semantics of data for life sciences and reproducible research. - Rutger A. Vos; Toshiaki Katayama; Hiroyuki Mishima; Shin Kawano; Shuichi Kawashima; Jin-Dong Kim; Yuki Moriya; Toshiaki Tokimatsu; Atsuko Yamaguchi; Yasunori Yamamoto; Hongyan Wu; Peter Amstutz; et al. (F1000Research, 2020)