STRING 7 - recent developments in the integration and prediction of protein interactions. - Christian von Mering; Lars Juhl Jensen; Michael Kuhn 004; Samuel Chaffron; Tobias Doerks; Beate Krüger; Berend Snel; Peer Bork (Nucleic Acids Res., 2007)

STRING 8 - a global view on proteins and their functional interactions in 630 organisms. - Lars Juhl Jensen; Michael Kuhn 004; Manuel Stark; Samuel Chaffron; Christopher J. Creevey; Jean Muller; Tobias Doerks; Philippe Julien; Alexander Roth 001; Milan Simonovic; Peer Bork; Christian von Mering (Nucleic Acids Res., 2009)

MiBiOmics: an interactive web application for multi-omics data exploration and integration. - Johanna Zoppi; Jean-François Guillaume; Michel Neunlist; Samuel Chaffron (BMC Bioinform., 2021)

Building a Corpus for Biomedical Relation Extraction of Species Mentions. - Oumaima El Khettari; Solen Quiniou; Samuel Chaffron (BioNLP@ACL, 2023)

Annotation d'interactions hôte-microbiote dans des articles scientifiques par similarité sémantique avec une ontologie. - Oumaima El Khettari; Solen Quiniou; Samuel Chaffron (ARTS@CORIA-TALN, 2023)

Mention-Agnostic Information Extraction for Ontological Annotation of Biomedical Articles. - Oumaima El Khettari; Noriki Nishida; Shanshan Liu; Rumana Ferdous Munne; Yuki Yamagata; Solen Quiniou; Samuel Chaffron; Yuji Matsumoto 001 (BioNLP@ACL, 2024)

Summarization for Generative Relation Extraction in the Microbiome Domain. - Oumaima El Khettari; Solen Quiniou; Samuel Chaffron (CoRR, 2025)