Liu B*, Garza DR*, Gonze D, Krzynowek A, Simoens K, Bernaerts K, Geirnaert A and Faust K (2023)
Starvation responses impact interaction dynamics of human gut bacteria Bacteroides thetaiotaomicron and Roseburia intestinalis
The ISME journal 17, 1940-1952 (ISME)

van de Velde CC, Joseph C, Biclot A, Huys GRB, Pinheiro VB, Bernaerts K, Raes R and Faust K (2022)
Fast quantification of gut bacterial species in cocultures using flow cytometry and supervised classification
ISME Communications 2, 40 (ISME Comm)

Röttjers S and Faust K (2021)
Fast and flexible analysis of linked microbiome data with mako
Nature Methods 19, 51-54 (Nature)

Faust K (2021)
Open challenges for microbial network construction and analysis
The ISME Journal 15, 3111-3118 (ISME)

Faust K+, Bauchinger F, Laroche B, de Buyl S, Lahti L, Washburne AD, Gonze D, Widder S+ (2018)
Signatures of ecological processes in microbial community time series
Microbiome 6, 120 (BMC)

D'hoe K*, Vet S*, Faust K*+ et al. (2018)
Integrated culturing, modeling and transcriptomics uncovers complex interactions and emergent behavior in a three-species synthetic gut community
eLife 7, e37090 (eLife)

Gonze D, Lahti L, Raes J, Faust K (2017)
Multi-stability and the origin of microbial community types
The ISME Journal 11, 2159-2166 (The ISME Journal)

Lima-Mendez G*, Faust K*, Henry N*, et al. (2015)
Determinants of community structure in the global plankton interactome.
Science 348 (6237) (Science)

Faust K, Raes J (2012)
Microbial interactions: from networks to models.
Nature Review Microbiology 10, 538-550 (2012) (Nature Reviews Microbiology)