NeAT: a toolbox for the analysis of biological networks, clusters, classes and pathways. - Sylvain Brohée; Karoline Faust; Gipsi Lima-Mendez; Olivier Sand; Rekin's Janky; Gilles Vanderstocken; Yves Deville; Jacques van Helden (Nucleic Acids Res., 2008)

In response to 'Can sugars be produced from fatty acids? A test case for pathway analysis tools'. - Karoline Faust; Didier Croes; Jacques van Helden (Bioinform., 2009)

Pathway discovery in metabolic networks by subgraph extraction. - Karoline Faust; Pierre Dupont; Jérôme Callut; Jacques van Helden (Bioinform., 2010)

Prediction of metabolic pathways from genome-scale metabolic networks. - Karoline Faust; Didier Croes; Jacques van Helden (Biosyst., 2011)

Microbial Co-occurrence Relationships in the Human Microbiome. - Karoline Faust; Jarupon Fah Sathirapongsasuti; Jacques Izard; Nicola Segata; Dirk Gevers; Jeroen Raes; Curtis Huttenhower (PLoS Comput. Biol., 2012)

A web application for sample size and power calculation in case-control microbiome studies. - Federico Mattiello; Bie M. P. Verbist; Karoline Faust; Jeroen Raes; William D. Shannon; Luc Bijnens; Olivier Thas (Bioinform., 2016)

CoNet app: inference of biological association networks using Cytoscape. - Karoline Faust; Jeroen Raes (F1000Research, 2016)

Quantifying the impact of ecological memory on the dynamics of interacting communities. - Moein Khalighi; Guilhem Sommeria-Klein; Didier Gonze; Karoline Faust; Leo Lahti (PLoS Comput. Biol., 2022)

Predicting microbial interactions with approaches based on flux balance analysis: an evaluation. - Clémence Joseph; Haris Zafeiropoulos; Kristel Bernaerts; Karoline Faust (BMC Bioinform., 2024)