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Author Details

Marnix H Medema
Wageningen University
2008
132
52
Andrej Sali (CM4AI)
PMIDPaper TitleJournal TitlePublished Year
36822964Convergent evolution for antibiotic biosynthesis in bacteria and animals.Trends Genet2023
38075396Genome mining of metabolic gene clusters in the Rubiaceae family.Comput Struct Biotechnol J2023
37697042Artificial intelligence for natural product drug discovery.Nat Rev Drug Discov2023
37541197A widely distributed gene cluster compensates for uricase loss in hominids.Cell2023
37774682A widely distributed gene cluster compensates for uricase loss in hominids.Cell2023
37391295Metabolome-guided genome mining of RiPP natural products.Trends Pharmacol Sci2023
37000899Total Synthesis and Structure Assignment of the Relacidine Lipopeptide Antibiotics and Preparation of Analogues with Enhanced Stability.ACS Infect Dis2023
37131131CAGECAT: The CompArative GEne Cluster Analysis Toolbox for rapid search and visualisation of homologous gene clusters.BMC Bioinformatics2023
36782070gutSMASH predicts specialized primary metabolic pathways from the human gut microbiota.Nat Biotechnol2023
36691088Enhanced correlation-based linking of biosynthetic gene clusters to their metabolic products through chemical class matching.Microbiome2023
36399496MIBiG 3.0: a community-driven effort to annotate experimentally validated biosynthetic gene clusters.Nucleic Acids Res2023
36537799Exploring the Interspecific Interactions and the Metabolome of the Soil Isolate Hylemonella gracilis.mSystems2023
36758069iPRESTO: Automated discovery of biosynthetic sub-clusters linked to specific natural product substructures.PLoS Comput Biol2023
34597924Fungi population metabolomics and molecular network study reveal novel biomarkers for early detection of aflatoxigenic Aspergillus species.J Hazard Mater2022
35710629Disentangling the genetic basis of rhizosphere microbiome assembly in tomato.Nat Commun2022
35612785The tomato cytochrome P450 CYP712G1 catalyses the double oxidation of orobanchol en route to the rhizosphere signalling strigolactone, solanacol.New Phytol2022
35505244Compendium of specialized metabolite biosynthetic diversity encoded in bacterial genomes.Nat Microbiol2022
35672769PIKAChU: a Python-based informatics kit for analysing chemical units.J Cheminform2022
35503723Whokaryote: distinguishing eukaryotic and prokaryotic contigs in metagenomes based on gene structure.Microb Genom2022
35668114Author Correction: Compendium of specialized metabolite biosynthetic diversity encoded in bacterial genomes.Nat Microbiol2022
35487188Freedom of expression: A synthetic route to metabolites.Cell2022
35862823Comparative Metagenomic Analysis of Biosynthetic Diversity across Sponge Microbiomes Highlights Metabolic Novelty, Conservation, and Diversification.mSystems2022
35997060Integrative omics approaches for biosynthetic pathway discovery in plants.Nat Prod Rep2022
36216932Influence of the microbiome, diet and genetics on inter-individual variation in the human plasma metabolome.Nat Med2022
35914390Genome mining strategies for metallophore discovery.Curr Opin Biotechnol2022
34980911Generating lineage-resolved, complete metagenome-assembled genomes from complex microbial communities.Nat Biotechnol2022
34969972An isotopic labeling approach linking natural products with biosynthetic gene clusters.Nat Chem Biol2022
34811516Discovery and biosynthesis of cyclic plant peptides via autocatalytic cyclases.Nat Chem Biol2022
33010170BiG-FAM: the biosynthetic gene cluster families database.Nucleic Acids Res2021
37118182Towards the sustainable discovery and development of new antibiotics.Nat Rev Chem2021
33738277The Surfactin-Like Lipopeptides From <i>Bacillus</i> spp.: Natural Biodiversity and Synthetic Biology for a Broader Application Range.Front Bioeng Biotechnol2021
33589842A community resource for paired genomic and metabolomic data mining.Nat Chem Biol2021
33533785The year 2020 in natural product bioinformatics: an overview of the latest tools and databases.Nat Prod Rep2021
33584558Extracting the GEMs: Genotype, Environment, and Microbiome Interactions Shaping Host Phenotypes.Front Microbiol2021
33658492Evolution of combinatorial diversity in trans-acyltransferase polyketide synthase assembly lines across bacteria.Nat Commun2021
34734219Benefiting from big data in natural products: importance of preserving foundational skills and prioritizing data quality.Nat Prod Rep2021
34581602BiG-MAP: an Automated Pipeline To Profile Metabolic Gene Cluster Abundance and Expression in Microbiomes.mSystems2021
34488889Computational Applications in Secondary Metabolite Discovery (CAiSMD): an online workshop.J Cheminform2021
34426795Towards the sustainable discovery and development of new antibiotics.Nat Rev Chem2021
34019648The gutSMASH web server: automated identification of primary metabolic gene clusters from the gut microbiota.Nucleic Acids Res2021
34301182The role of strigolactones in P deficiency induced transcriptional changes in tomato roots.BMC Plant Biol2021
34100635Dissecting Disease-Suppressive Rhizosphere Microbiomes by Functional Amplicon Sequencing and 10ÿ Metagenomics.mSystems2021
33978755antiSMASH 6.0: improving cluster detection and comparison capabilities.Nucleic Acids Res2021
34083778Mining genomes to illuminate the specialized chemistry of life.Nat Rev Genet2021
33152079The antiSMASH database version 3: increased taxonomic coverage and new query features for modular enzymes.Nucleic Acids Res2021
33321099A biaryl-linked tripeptide from Planomonospora reveals a widespread class of minimal RiPP gene clusters.Cell Chem Biol2021
33438731BiG-SLiCE: A highly scalable tool maps the diversity of 1.2 million biosynthetic gene clusters.Gigascience2021
33383297Omics-based strategies to discover novel classes of RiPP natural products.Curr Opin Biotechnol2021
32856641Microbial natural product databases: moving forward in the multi-omics era.Nat Prod Rep2021
31612915MIBiG 2.0: a repository for biosynthetic gene clusters of known function.Nucleic Acids Res2020
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Collaborators

Eriko Takano
Manchester Institute of Biotechnology, University of Manchester
Co-authored papers 23
Kai Blin
Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark
Co-authored papers 18
Gilles P van Wezel
Institute of Biology, Leiden University
Co-authored papers 14
Michael A Fischbach
Stanford University
Co-authored papers 13
Pieter C Dorrestein
Co-authored papers 9
Roger G Linington
Simon Fraser University
Co-authored papers 6
Peter Cimermancic
Verily Life Sciences LLC
Co-authored papers 4
Jon Clardy
Harvard Medical School, Blavatnik Institute
Co-authored papers 3
Andrej Sali (CM4AI)
University of California San Francisco
Co-authored papers 2
Daniel Petras
Co-authored papers 2
Cameron R Currie
University of Wisconsin - Madison
Co-authored papers 2
Alexandra Zhernakova
Co-authored papers 2
Aalt D J van Dijk
Wageningen University and Research
Co-authored papers 2
Amrita Pati
Department of Energy (DOE) Joint Genome Institute
Co-authored papers 2
Renzo Kottmann
Max Planck Institute for Marine Microbiology
Co-authored papers 2
Neil L Kelleher
Northwestern University
Co-authored papers 2
Jan Claesen
Lerner Research Institute of the Cleveland Clinic
Co-authored papers 2
Florian Huber
Co-authored papers 2
William H Gerwick
Scripps Institution of Oceanography, University of California San Diego
Co-authored papers 2
Neha Garg
Co-authored papers 2
Oliver Kohlbacher
Max Planck Institute for Developmental Biology
Co-authored papers 2
Marc Strous
Co-authored papers 2
Pavel A Pevzner
University of California
Co-authored papers 2
Marwin Segler
Westfalische Wilhelms-Universitat Munster, Organisch-Chemisches Institut
Co-authored papers 1
Peer Bork
University of Wurzburg
Co-authored papers 1
Kenji L Kurita
Small Molecule Pharmaceutical Sciences, Genentech Inc.
Co-authored papers 1
Nikos C Kyrpides
Co-authored papers 1
Allegra T Aron
Co-authored papers 1
Nuno Bandeira
University of California
Co-authored papers 1
Bernhard O Palsson
University of California San Diego
Co-authored papers 1
Release 1.2