A Data-Driven Approach for Measuring the Severity of the Signs of Depression using Reddit Posts. - Paul Van Rijen; Douglas Teodoro; Nona Naderi; Luc Mottin; Julien Knafou; Matt Jeffryes; Patrick Ruch (CLEF (Working Notes), 2019)

SIB Text Mining at TREC 2019 Deep Learning Track: Working Note. - Julien Knafou; Matt Jeffryes; Luc Mottin; Douglas Teodoro; Patrick Ruch (TREC, 2019)

BioBERTpt - A Portuguese Neural Language Model for Clinical Named Entity Recognition. - Elisa Terumi Rubel Schneider; João Vitor Andrioli de Souza; Julien Knafou; Lucas Emanuel Silva e Oliveira; Jenny Copara; Yohan Bonescki Gumiel; Lucas Ferro Antunes de Oliveira; Emerson Cabrera Paraiso; Douglas Teodoro; Claudia Maria Cabral Moro Barra (ClinicalNLP@EMNLP, 2020)

BiTeM at WNUT 2020 Shared Task-1: Named Entity Recognition over Wet Lab Protocols using an Ensemble of Contextual Language Models. - Julien Knafou; Nona Naderi; Jenny Copara; Douglas Teodoro; Patrick Ruch (W-NUT@EMNLP, 2020)

Named Entity Recognition in Chemical Patents using Ensemble of Contextual Language Models. - Jenny Copara; Nona Naderi; Julien Knafou; Patrick Ruch; Douglas Teodoro (CLEF (Working Notes), 2020)

An Extended Overview of the CLEF 2020 ChEMU Lab: Information Extraction of Chemical Reactions from Patents. - Jiayuan He 002; Dat Quoc Nguyen; Saber A. Akhondi; Christian Druckenbrodt; Camilo Thorne; Ralph Hoessel; Zubair Afzal; Zenan Zhai; Biaoyan Fang; Hiyori Yoshikawa; Ameer Albahem; Jingqi Wang; et al. (CLEF (Working Notes), 2020)

Contextualized French Language Models for Biomedical Named Entity Recognition. - Jenny Copara; Julien Knafou; Nona Naderi; Claudia Moro 001; Patrick Ruch; Douglas Teodoro (JEP-TALN-RECITAL (DEFT), 2020)

SIB Text Mining at TREC 2020 Deep Learning Track. - Julien Knafou; Matthew Jeffryes; Sohrab Ferdowsi; Patrick Ruch (TREC, 2020)

UPCLASS: a deep learning-based classifier for UniProtKB entry publications. - Douglas Teodoro; Julien Knafou; Nona Naderi; Emilie Pasche; Julien Gobeill; Cecilia N. Arighi; Patrick Ruch (Database J. Biol. Databases Curation, 2020)

Classification of hierarchical text using geometric deep learning: the case of clinical trials corpus. - Sohrab Ferdowsi; Nikolay Borissov; Julien Knafou; Poorya Amini; Douglas Teodoro (EMNLP (1), 2021)

Ensemble of Deep Masked Language Models for Effective Named Entity Recognition in Health and Life Science Corpora. - Nona Naderi; Julien Knafou; Jenny Copara; Patrick Ruch; Douglas Teodoro (Frontiers Res. Metrics Anal., 2021)

Classification of oncology treatment responses from radiology reports with supervised machine learning. - Luc Mottin; Jean-Philippe Goldman; Christoph Jäggli; Rita Achermann; Julien Gobeill; Julien Knafou; Julien Ehrsam; Alexandre Wicky; Camille L. Gerard; Tanja Schwenk; Mélinda Charrier; Petros Tsantoulis; et al. (AMIA, 2022)

Deep learning-based risk prediction for interventional clinical trials based on protocol design: A retrospective study. - Sohrab Ferdowsi; Julien Knafou; Nikolay Borissov; David Vicente Alvarez; Rahul Mishra 004; Poorya Amini; Douglas Teodoro (Patterns, 2023)

Multilingual RECIST classification of radiology reports using supervised learning. - Luc Mottin; Jean-Philippe Goldman; Christoph Jäggli; Rita Achermann; Julien Gobeill; Julien Knafou; Julien Ehrsam; Alexandre Wicky; Camille L. Gerard; Tanja Schwenk; Mélinda Charrier; Petros Tsantoulis; et al. (Frontiers Digit. Health, 2023)