A Semi-Quantitative, Synteny-Based Method to Improve Functional Predictions for Hypothetical and Poorly Annotated Bacterial and Archaeal Genes. - Alexis P. Yelton; Brian C. Thomas; Sheri L. Simmons; Paul Wilmes; Adam T. Zemla; Michael P. Thelen; Nicholas Justice; Jillian F. Banfield (PLoS Comput. Biol., 2011)

ICoVeR - an interactive visualization tool for verification and refinement of metagenomic bins. - Bertjan Broeksema; Magdalena Calusinska; Fintan McGee; Klaas Winter; Francesco Bongiovanni; Xavier Goux; Paul Wilmes; Philippe Delfosse; Mohammad Ghoniem (BMC Bioinform., 2017)

Reverse engineering directed gene regulatory networks from transcriptomics and proteomics data of biomining bacterial communities with approximate Bayesian computation and steady-state signalling simulations. - Antoine Buetti-Dinh; Malte Herold; Stephan Christel; Mohamed El Hajjami; Francesco Delogu; Olga Ilie; Sören Bellenberg; Paul Wilmes; Ansgar Poetsch; Wolfgang Sand; Mario Vera; Igor V. Pivkin; et al. (BMC Bioinform., 2020)

Functional meta-omics provide critical insights into long- and short-read assemblies. - Valentina Galata; Susheel Bhanu Busi; Benoît Josef Kunath; Laura de Nies; Magdalena Calusinska; Rashi Halder; Patrick May; Paul Wilmes; Cedric Christian Laczny (Briefings Bioinform., 2021)

binny: an automated binning algorithm to recover high-quality genomes from complex metagenomic datasets. - Oskar Hickl; Pedro Queirós; Paul Wilmes; Patrick May; Anna Heintz-Buschart (Briefings Bioinform., 2022)

Integrating digital gait data with metabolomics and clinical data to predict outcomes in Parkinson's disease. - Cyril Brzenczek; Quentin Klopfenstein; Tom Hähnel; Holger Fröhlich; Enrico Glaab; Geeta Acharya; Gloria Aguayo; Myriam Alexandre; Muhammad Ali; Wim Ammerlann; Giuseppe Arena; Michele Bassis; et al. (npj Digit. Medicine, 2024)

Multi-cohort machine learning identifies predictors of cognitive impairment in Parkinson's disease. - Rebecca Ting Jiin Loo; Lukas Pavelka; Graziella Mangone; Fouad Khoury; Marie Vidailhet; Jean-Christophe Corvol; Enrico Glaab; Geeta Acharya; Gloria Aguayo; Myriam Alexandre; Muhammad Ali; Wim Ammerlann; et al. (npj Digit. Medicine, 2025)