Eric A. Franzosa

Career Trajectory

Research Cluster Map

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

• Tu1485 FUNCTIONAL ANNOTATION OF UNCHARACTERIZED BIOACTIVE METABOLITES USING NETWORK EVIDENCE REVEALS NOVEL MICROBIAL DETERMINANTS OF INFLAMMATORY BOWEL DISEASE

  Gastrointestinal Endoscopy · 2026-05-01

• Tu1485 FUNCTIONAL ANNOTATION OF UNCHARACTERIZED BIOACTIVE METABOLITES USING NETWORK EVIDENCE REVEALS NOVEL MICROBIAL DETERMINANTS OF INFLAMMATORY BOWEL DISEASE

  Gastroenterology · 2026-05-01

• Enhanced multi-omic viral profiling from microbial community sequencing with BAQLaVa

  bioRxiv (Cold Spring Harbor Laboratory) · 2026-02-12 · 1 citations

• MaAsLin 3: refining and extending generalized multivariable linear models for meta-omic association discovery

  Nature Methods · 2026-01-15 · 28 citations

• MaAsLin 3: Refining and extending generalized multivariable linear models for meta-omic association discovery

  Figshare · 2026-01-01

• MaAsLin 3: Refining and extending generalized multivariable linear models for meta-omic association discovery

  Figshare · 2026-01-01

• Comparative Assessment of Large Language Models for Microbial Phenotype AnnotationPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-11-27

• Capturing sequence ambiguity among taxa in a primer-specific manner to improve taxonomic classification of amplicon sequencing

  Nucleic Acids Research · 2025-11-26 · 2 citations

• Predicting functions of uncharacterized gene products from microbial communities

  Nature Biotechnology · 2025-10-15 · 6 citations

• Pan-microbiome analysis along the human respiratory axis reveals an ecological continuum in health and collapse in diseasePreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-09-04

• Multi-omic analysis reveals transkingdom gut dysbiosis in metabolic dysfunction-associated steatotic liver disease

  Nature Metabolism · 2025-07-02 · 20 citations

• 1046: PULSED ANTIBIOTIC THERAPY AND LATERAL GENE TRANSFER EVENTS

  Gastroenterology · 2025-05-01

• 1326: PERTURBED GUT VIRAL ECOLOGY IN INFLAMMATORY BOWEL DISEASE: A MULTI-COHORT STUDY

  Gastroenterology · 2025-05-01

• Commonly used compositional data analysis implementations are not advantageous in microbial differential abundance analyses benchmarked against biological ground truthPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-02-17 · 4 citations

• Virulence factor discovery identifies associations between the Fic gene family and Fap2 ⁺ fusobacteria in colorectal cancer microbiomes

  mBio · 2025-01-14 · 10 citations

• A Small-Molecule Inhibitor of Gut Bacterial Urease Protects the Host from Liver Injury

  ACS Chemical Biology · 2025-01-08 · 4 citations

• Quantifying Metagenomic Strain Associations from Microbiomes with AnpanPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2025-01-07 · 6 citations

• Profiling lateral gene transfer events in the human microbiome using WAAFLE

  Nature Microbiology · 2025-01-02 · 24 citations

• Response of the gut microbiome and metabolome to dietary fiber in healthy dogs

  mSystems · 2024-12-23 · 6 citations

• MaAsLin 3: Refining and extending generalized multivariable linear models for meta-omic association discoveryPreprint

  bioRxiv (Cold Spring Harbor Laboratory) · 2024-12-14 · 69 citations