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antiSMASH 3.0—a comprehensive resource for the genome mining of biosynthetic gene clusters
TLDR
We present the third version of antiSMASH, a web server and stand-alone tool for the automatic genomic identification and analysis of biosynthetic gene clusters, which has undergone major improvements. Expand
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antiSMASH 4.0—improvements in chemistry prediction and gene cluster boundary identification
TLDR
We present the thoroughly updated antiSMASH version 4, which adds several novel features, including prediction of gene cluster boundaries using ClusterFinder method or the newly integrated CASSIS algorithm, improved substrate specificity prediction for non-ribosomal peptide synthetase adenylation domains based on the new SANDPUMA algorithm and a domain-level alignment tool for comparative analysis of trans-AT polyketide synthase assembly line architectures. Expand
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antiSMASH: rapid identification, annotation and analysis of secondary metabolite biosynthesis gene clusters in bacterial and fungal genome sequences
TLDR
We present antiSMASH (antibiotics & Secondary Metabolite Analysis Shell), the first comprehensive pipeline capable of identifying biosynthetic loci covering the whole range of known secondary metabolite compound classes (polyketides, non-ribosomal peptides, terpenes, aminoglycosides and aminocoumarins). Expand
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antiSMASH 5.0: updates to the secondary metabolite genome mining pipeline
Abstract Secondary metabolites produced by bacteria and fungi are an important source of antimicrobials and other bioactive compounds. In recent years, genome mining has seen broad applications inExpand
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antiSMASH 2.0—a versatile platform for genome mining of secondary metabolite producers
TLDR
We present the highly improved antiSMASH 2.0 release, available at http://antismash.secondarymetabolites.org/. Expand
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NRPSpredictor2—a web server for predicting NRPS adenylation domain specificity
TLDR
We present an improved predictor, based on previous work (NRPSpredictor), that predicts A-domain specificity using Support Vector Machines on four hierarchical levels, ranging from gross physicochemical properties of an A- domain’s substrates down to single amino acid substrates. Expand
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Minimum Information about a Biosynthetic Gene cluster.
A wide variety of enzymatic pathways that produce specialized metabolites in bacteria, fungi and plants are known to be encoded in biosynthetic gene clusters. Information about these clusters,Expand
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DoRiNA 2.0—upgrading the doRiNA database of RNA interactions in post-transcriptional regulation
TLDR
The expression of almost all genes in animals is subject to post-transcriptional regulation by RNA binding proteins (RBPs) and microRNAs. Expand
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MIBiG 2.0: a repository for biosynthetic gene clusters of known function
Abstract Fueled by the explosion of (meta)genomic data, genome mining of specialized metabolites has become a major technology for drug discovery and studying microbiome ecology. In these efforts,Expand
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The antiSMASH database, a comprehensive database of microbial secondary metabolite biosynthetic gene clusters
TLDR
We developed the antiSMASH database, a simple but highly useful new resource to browseantiSMASH-annotated BGCs in the currently 3907 bacterial genomes in the database and perform advanced search queries combining multiple search criteria. Expand
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