Karoline Faust

PlasticEnz: An integrated database and screening tool combining homology and machine learning to identify plastic-degrading enzymes in meta-omics datasets

PlasticEnz identifies plastic-degrading enzymes in metagenomic data using homology and machine learning, achieving high F1 scores for PET and PHB.

Discovery of alternative stable states in a synthetic human gut microbial community

The paper demonstrates alternative states in a human gut microbial community and identifies phenotype switching as the mechanism driving their emergence.

μGrowthDB: querying, visualizing, and sharing microbial growth curve data

GrowthDB is a repository for microbial growth curve data that allows querying, visualization, and sharing of growth and metabolite profiles from monocultures and communities.

microbetag: simplifying microbial network interpretation through annotation, enrichment tests and metabolic complementarity analysis

microbetag enhances microbial network interpretation by annotating nodes with phenotypic traits and edges with metabolic complementarities, using a database of annotated genomes.

Effects of microplastics on Daphnia-associated microbiomes in situ and in vitro

This study examines how microplastics affect Daphnia-associated microbiomes in urban and natural freshwater environments, finding changes in community composition and functional traits linked to MP levels.

Quantifying the impact of ecological memory on the dynamics of interacting communities

This paper quantifies how ecological memory affects community dynamics by incorporating it into models and shows its impact on resilience, stability, and state shifts.

manta - a clustering algorithm for weighted ecological networks

The paper introduces manta, a clustering algorithm for weighted ecological networks that performs as well as or better than existing methods on synthetic data.

Integrated culturing, modeling and transcriptomics uncovers complex interactions and emergent behavior in a synthetic gut community

The paper studies synthetic gut communities to understand species interactions and emergent behavior through culturing, modeling, and transcriptomics.