Palantir: a springboard for the analysis of secondary metabolite gene clusters in large-scale genome mining projects

• DOI: 10.1093/bioinformatics/btaa517
• Publication Date: 2020-05-12T13:21:44Z
• Authors: Loïc Meunier; Pierre Tocquin; Luc Cornet; Damien Sirjacobs; Valérie Leclère; Maude Pupin; Philippe Jacques; Denis Baurain
• Keywords: 0301 basic medicine; Molecular Biology/Genomics [q-bio.GN]; 03 medical and health sciences; Bacteria; [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN]; Multigene Family; Molecular Sequence Annotation; [SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry; [INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM]; Software; Biosynthetic Pathways

To support small and large-scale genome mining projects, we present Post-processing Analysis tooLbox for ANTIsmash Reports (Palantir), a dedicated software suite handling refining secondary metabolite biosynthetic gene cluster (BGC) data annotated with the popular antiSMASH pipeline. Palantir provides new functionalities building on NRPS/PKS predictions from antiSMASH, such as improved BGC annotation, module delineation easy access to sub-sequences at different levels (cluster, gene, domain). Moreover, it can parse user-provided reports reformat them direct use or storage in relational database.Palantir is released both Perl API available CPAN (https://metacpan.org/release/Bio-Palantir) web application (http://palantir.uliege.be). As practical case, interface also features database built of 1616 cyanobacterial genomes, which 1488 were predicted encode least one BGC.Supplementary are Bioinformatics online.