Thomas Abeel

Career Trajectory

Research Cluster Map

Direct collaborators. Node size = influence, colour = community, dashed = past collaboration.

• Comparing metabolic engineering scenarios using simulated design-build-test-learn-cycles

  Frontiers in Bioengineering and Biotechnology · 2026-06-26

• Antibiotic growth promoter and phytogenic feed additive consistently alter microbial community structure in chicken cecum

  Frontiers in Microbiology · 2026-06-04

• Response to ‘On using clustering statistics for assessing plasmid binning tools accuracy’

  Briefings in Bioinformatics · 2026-05-01

• Colon-delivered vitamin B2 as a functional modulator of the human gut microbiome

  medRxiv · 2026-04-03

• A conserved bacterial signature characterizes plant microbiome responses to drought

  Frontiers in Microbiology · 2026-03-27

• Evaluating Few-Shot Meta-Learning using STUNT for Microbiome-Based Disease Classification

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-03-03

• Phylogenetic analysis reveals diversity in glycan biosynthesis in “Candidatus Accumulibacter”

  Biofilm · 2026-02-06 · 1 citations

• Comparing metabolic engineering scenarios using simulated design-build-test-learn-cycles

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-02-05

• Circling in on plasmids: benchmarking plasmid detection and reconstruction tools for short-read data from diverse species

  Briefings in Bioinformatics · 2025-11-01 · 5 citations

• Performance and interaction assessment of neural network architectures and bivariate smart predict-then-optimize

  Machine Learning · 2025-10-15

• Jaxkineticmodel: Neural ordinary differential equations inspired parameterization of kinetic models

  PLoS Computational Biology · 2025-07-07 · 5 citations

• Machine Learning-Assisted Pathway Optimization in Large Combinatorial Design Spaces: a p-Coumaric Acid Case StudyPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-06-18 · 1 citations

• Long-term multi-meta-omics resolves the ecophysiological controls of seasonal N2O emissions during wastewater treatment

  Nature Water · 2025-05-07 · 32 citations

• Metagenomic analysis of antibiotic resistance across the wastewater process

  Heliyon · 2025-02-24 · 6 citations

• A comparative metagenomic analysis of antibiotic resistance in the fecal microbiome of pigs raised with and without antibioticsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-01-21 · 1 citations

• Fast and exact gap-affine partial order alignment with POASTA

  Bioinformatics · 2024-12-26 · 4 citations

• Neural Ordinary Differential Equations Inspired Parameterization of Kinetic ModelsPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-12-21

• Effects of antibiotic growth promoter and its natural alternative on poultry cecum ecosystem: an integrated analysis of gut microbiota and host expression

  Frontiers in Microbiology · 2024-12-02 · 3 citations

• Portable In-Field DNA Sequencing for Rapid Detection of Pathogens and Antimicrobial Resistance: A Proof-of-Concept StudyPreprint

  Research Square · 2024-11-13

• A Metagenomic Study of Antibiotic Resistance Across Diverse Soil Types and Geographical LocationsPreprint

  Research Square · 2024-11-12