ArticleMetabolites2021
Nerpa: A Tool for Discovering Biosynthetic Gene Clusters of Bacterial Nonribosomal Peptides.
Article in Metabolites, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Nerpa 2: probabilistic linking of biosynthetic gene clusters to nonribosomal peptides.Bioinformatics (Oxford, England) · 2026Article
- Sequence modeling tools to decode the biosynthetic diversity of the human microbiome.mSystems · 2025Review
- Interpretable adenylation domain specificity prediction using protein language models.bioRxiv : the preprint server for biology · 2025Article
- Unlocking the biosynthetic potential and taxonomy of the Antarctic microbiome along temporal and spatial gradients.Microbiology spectrum · 2024Article
- Review
- Artificial Intelligence: A Promising Tool in Exploring the Phytomicrobiome in Managing Disease and Promoting Plant Health.Plants (Basel, Switzerland) · 2023Review
- Peptidomics.Nature reviews. Methods primers · 2023Article
- Charting the Lipopeptidome of Nonpathogenic Pseudomonas.mSystems · 2023Article
- NPOmix: A machine learning classifier to connect mass spectrometry fragmentation data to biosynthetic gene clusters.PNAS nexus · 2022Article
- Carbon-nitrogen bond formation to construct novel polyketide-indole hybrids from the indole-3-carbinol exposed culture ofSynthetic and systems biotechnology · 2022Article
- BioCAT: Search for biosynthetic gene clusters producing nonribosomal peptides with known structure.Computational and structural biotechnology journal · 2022Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
Microbial natural products are a major source of bioactive compounds for drug discovery. Among these molecules, nonribosomal peptides (NRPs) represent a diverse class of natural products that include antibiotics, immunosuppressants, and anticancer agents. Recent breakthroughs in natural product discovery have revealed the chemical structure of several thousand NRPs. However, biosynthetic gene clusters (BGCs) encoding them are known only for a few hundred compounds. Here, we developed Nerpa, a computational method for the high-throughput discovery of novel BGCs responsible for producing known NRPs. After searching 13,399 representative bacterial genomes from the RefSeq repository against 8368 known NRPs, Nerpa linked 117 BGCs to their products. We further experimentally validated the predicted BGC of ngercheumicin from
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.