ArticleeLife2023
SIMMER employs similarity algorithms to accurately identify human gut microbiome species and enzymes capable of known chemical transformations.
Article in eLife, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
16 citing papers in PubMed.
- Article
- Intestinal microbiota and arthritis.EULAR rheumatology open · 2026Review
- Multi-cohort Analysis Reveals Microbiome Signatures Associated with Drug Response in New-Onset Rheumatoid Arthritis.bioRxiv : the preprint server for biology · 2026Article
- Microbial metabolism of methotrexate produces a STAT3 signaling molecule that alleviates gut inflammation.bioRxiv : the preprint server for biology · 2026Article
- Unlocking therapeutic impacts of the gut microbiota with computational tools.Current opinion in biotechnology · 2026Review
- Linking interpersonal differences in gut microbiota composition and drug biotransformation activity.bioRxiv : the preprint server for biology · 2026Article
- Challenges and Opportunities in Analyzing Cancer-Associated Microbiomes.Cancer research · 2025Review
- Human xenobiotic metabolism proteins have full-length and split homologs in the gut microbiome.G3 (Bethesda, Md.) · 2025Article
- Activity of GPCR-targeted drugs influenced by human gut microbiota metabolism.Nature chemistry · 2025Article
- MicrobeRX: a tool for enzymatic-reaction-based metabolite prediction in the gut microbiome.Microbiome · 2025Article
- Can we modulate the gut microbiome to enhance DMARD efficacy in rheumatoid arthritis?Seminars in arthritis and rheumatism · 2025Article
- Pharma[e]cology: How the Gut Microbiome Contributes to Variations in Drug Response.Annual review of pharmacology and toxicology · 2025Review
- The impact of the human gut microbiome on the treatment of autoimmune disease.Immunological reviews · 2024Review
- Emerging tools and best practices for studying gut microbial community metabolism.Nature metabolism · 2024Review
- Review
- Gut microbial metabolism of 5-ASA diminishes its clinical efficacy in inflammatory bowel disease.Nature medicine · 2023Article
Corrections and comments
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Authors and funding
5 authors.
Funding
Abstract
Bacteria within the gut microbiota possess the ability to metabolize a wide array of human drugs, foods, and toxins, but the responsible enzymes for these chemical events remain largely uncharacterized due to the time-consuming nature of current experimental approaches. Attempts have been made in the past to computationally predict which bacterial species and enzymes are responsible for chemical transformations in the gut environment, but with low accuracy due to minimal chemical representation and sequence similarity search schemes. Here, we present an in silico approach that employs chemical and protein
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Registered trials
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