MetaboNetworks, an interactive Matlab-based toolbox for creating, customizing and exploring sub-networks from KEGG. - Joram M. Posma; Steven L. Robinette; Elaine Holmes; Jeremy K. Nicholson (Bioinform., 2014)

MetaboSignal: a network-based approach for topological analysis of metabotype regulation via metabolic and signaling pathways. - Andrea Rodriguez-Martinez; Rafael Ayala; Joram M. Posma; Ana Luísa Neves; Dominique Gauguier; Jeremy K. Nicholson; Marc-Emmanuel Dumas (Bioinform., 2017)

MWASTools: an R/bioconductor package for metabolome-wide association studies. - Andrea Rodriguez-Martinez; Joram M. Posma; Rafael Ayala; Ana Luísa Neves; Maryam Anwar; Enrico Petretto; Costanza Emanueli; Dominique Gauguier; Jeremy K. Nicholson; Marc-Emmanuel Dumas (Bioinform., 2018)

pJRES Binning Algorithm (JBA): a new method to facilitate the recovery of metabolic information from pJRES 1H NMR spectra. - Andrea Rodriguez-Martinez; Rafael Ayala; Joram M. Posma; Nikita Harvey; Beatriz Jiménez; Kazuhiro Sonomura; Taka-Aki Sato; Fumihiko Matsuda; Pierre A. Zalloua; Dominique Gauguier; Jeremy K. Nicholson; Marc-Emmanuel Dumas (Bioinform., 2019)

Metabolic Profiling. - Joram M. Posma (Encyclopedia of Bioinformatics and Computational Biology (2), 2019)

Development of a Multi-Task Learning V-Net for Pulmonary Lobar Segmentation on Computed Tomography and Application to Diseased Lungs. - Marc Boubnovski Martell; Mitchell Chen; Kristofer Linton-Reid; Joram M. Posma; Susan J. Copley; Eric O. Aboagye (CoRR, 2021)

Auto-CORPus: A Natural Language Processing Tool for Standardizing and Reusing Biomedical Literature. - Tim Beck; Tom Shorter; Yan Hu; Zhuoyu Li; Shujian Sun; Casiana M. Popovici; Nicholas A. R. McQuibban; Filip Makraduli; Cheng S. Yeung; Thomas Rowlands; Joram M. Posma (Frontiers Digit. Health, 2022)

Comparative Analyses of Multilingual Drug Entity Recognition Systems for Clinical Case Reports In Cardiology. - Chaeeun Lee; T. Ian Simpson; Joram M. Posma; Antoine D. Lain (CLEF (Working Notes), 2024)

LAVASET: Latent Variable Stochastic Ensemble of Trees. An ensemble method for correlated datasets with spatial, spectral, and temporal dependencies. - Melpomeni Kasapi; Kexin Xu; Timothy M. D. Ebbels; Declan P. O'Regan; James S. Ware; Joram M. Posma (Bioinform., 2024)

KU AIGEN ICL EDI@BC8 Track 3: Advancing Phenotype Named Entity Recognition and Normalization for Dysmorphology Physical Examination Reports. - Hajung Kim; Chanhwi Kim; Jiwoong Sohn; Tim Beck; Marek Rei; Sunkyu Kim; T. Ian Simpson; Joram M. Posma; Antoine Lain; Mujeen Sung; Jaewoo Kang (CoRR, 2025)

DermaSynth: Rich Synthetic Image-Text Pairs Using Open Access Dermatology Datasets. - Abdurrahim Yilmaz; Furkan Yuceyalcin; Ece Gokyayla; Donghee Choi; Ozan Erdem Ali Anil Demircali; Rahmetullah Varol; Ufuk Gorkem Kirabali; Gulsum Gencoglan; Joram M. Posma; Burak Temelkuran (CoRR, 2025)

MedSR-Impact: Transformer-Based Super-Resolution for Lung CT Segmentation, Radiomics, Classification, and Prognosis. - Marc Boubnovski Martell; Kristofer Linton-Reid; Mitchell Chen; Sumeet Hindocha; Benjamin Hunter; Marco A. Calzado; Richard Lee; Joram M. Posma; Eric O. Aboagye (CoRR, 2025)