Microbiome meta-analysis and cross-disease comparison enabled by the SIAMCAT machine learning toolbox

• Oral Butyrate Reduces Progression of Kidney Damage in an L‐ NAME ‐Induced Diabetic Kidney Disease Mouse Model

  2026 Diabetes Obesity and Metabolism article Medicine Chronic Kidney Disease and Diabetes Open access

  0

  citations
• Meta-analysis reveals microbiome signatures for colorectal cancer that are universal across age groups and sequencing methods

  2026 Cell Host & Microbe article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  5

  citations
• Cayman enables large-scale analysis of gut microbiome carbohydrate-active enzyme repertoires

  2026 Nature Microbiology article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  7

  citations
• How to set up and manage a microbiome research facility

  2026 Clinical Microbiology and Infection article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  2

  citations
• Development of a GC-MS/MS method to quantify 120 gut microbiota-derived metabolites

  2025 Analytical and Bioanalytical Chemistry article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  2

  citations
• Machine learning-based meta-analysis reveals gut microbiome alterations associated with Parkinson’s disease

  2025 Nature Communications article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  60

  citations
• Combination of dietary fiber and exercise training improves fat loss in mice but does not ameliorate MASLD more than exercise alone

  2025 American Journal of Physiology-Gastrointestinal and Liver Physiology article Medicine Liver Disease Diagnosis and Treatment Open access

  8

  citations
• Metagenomic global survey and in-depth genomic analyses of Ruminococcus gnavus reveal differences across host lifestyle and health status

  2025 Nature Communications article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  31

  citations
• A realistic benchmark for differential abundance testing and confounder adjustment in human microbiome studies

  2024 Genome biology article Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  44

  citations
• Metagenomic global survey and in-depth genomic analyses of Ruminococcus gnavus reveal differences across host lifestyle and health status

  2024 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  0

  citations
• Fungal and bacterial gut microbiota differ between Clostridioides difficile colonization and infection

  2023 Microbiome Research Reports article Medicine Clostridium difficile and Clostridium perfringens research Open access

  8

  citations
• Asymptomatic gut colonization by extended-spectrum beta-lactamase-producing Escherichia coli is not associated with an altered gut microbiome or metabolome in Dutch adults

  2021 bioRxiv (Cold Spring Harbor Laboratory) preprint Biochemistry, Genetics and Molecular Biology Gut microbiota and health Open access

  1

  citations

12 results