Online

Automates the identification of candidate plant biosynthetic gene clusters (BGCs), as well as their comparative genomic and transcriptomic analysis. plantiSMASH results for publicly available plant genomes are directly accessible. Runs for 48 high-quality plant genomes were precomputed and made available online.

User report

0 user reviews

0 user reviews

No review has been posted.

plantiSMASH forum

No open topic.

plantiSMASH classification

  • Plants

plantiSMASH specifications

Software type:
Package
Restrictions to use:
None
Input format:
FASTA+GFF3
Output format:
HTML
Stability:
Stable
Interface:
Web user interface
Input data:
Plant genome sequences.
Output data:
Gene cluster outline and comparative genomics, gene expression heatmap, intercluster coexpression hiveplot, coexpression ego network.
Computer skills:
Basic

plantiSMASH support

Documentation

Maintainer

Credits

Publications

Institution(s)

Bioinformatics Group, Wageningen University, Wageningen, Netherlands; Teknik Informatika, Universitas Lampung, Lampung, Indonesia; The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Lyngby, Denmark; Department of Metabolic Biology, John Innes Centre, Norwich Research Park, Norwich, UK

Funding source(s)

This work was supported by the Graduate School for Experimental Plant Sciences (EPS), by a grant from the Novo Nordisk Foundation; by the UK Biotechnological and Biological Sciences Research Council (BBSRC) Institute Strategic Programme Grant ‘Understanding and Exploiting Plant and Microbial Metabolism’ (BB/J004561/1), the John Innes Foundation, the joint Engineering and Physical Sciences Research Council/ BBSRC-funded OpenPlant Synthetic Biology Research Centre grant BB/L014130/1 and a National Institutes of Health Genome to Natural Products Network award U101GM110699. It is supported by VENI grant 863.15.002 from The Netherlands Organization for Scientific Research (NWO), and by the Genome to Natural Products Network.

By using OMICtools you acknowledge that you have read and accepted the terms of the end user license agreement.