METACLUSTER—an R package for context-specific expression analysis of metabolic gene clusters

Journal Article · 17 January 2019 · Bioinformatics

DOI: https://doi.org/10.1093/bioinformatics/btz021 · OSTI ID:1560354

Banf, Michael; Zhao, Kangmei; Rhee, Seung Y.; Stegle, ed., Oliver

Abstract Summary Plants and microbes produce numerous compounds to cope with their environments but the biosynthetic pathways for most of these compounds have yet to be elucidated. Some biosynthetic pathways are encoded by enzymes collocated in the chromosome. To facilitate a more comprehensive condition and tissue-specific expression analysis of metabolic gene clusters, we developed METACLUSTER, a probabilistic framework for characterizing metabolic gene clusters using context-specific gene expression information. Availability and implementation METACLUSTER is freely available at https://github.com/mbanf/METACLUSTER. Supplementary information Supplementary data are available at Bioinformatics online.

• Research Organization: Donald Danforth Plant Science Center, St. Louis, MO (United States)
• Sponsoring Organization: USDOE; USDOE Office of Science (SC)
• Grant/Contract Number: SC0008769; SC0018277
• OSTI ID: 1560354
• Journal Information: Bioinformatics, Journal Name: Bioinformatics Journal Issue: 17 Vol. 35; ISSN 1367-4803
• Publisher: Oxford University PressCopyright Statement
• Country of Publication: United Kingdom
• Language: English