Rapid discovery of novel prophages using biological feature engineering and machine learning.
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ABSTRACT:
SUBMITTER: Siren K
PROVIDER: S-EPMC7787355 | biostudies-literature | 2021 Mar
REPOSITORIES: biostudies-literature
Publications
Rapid discovery of novel prophages using biological feature engineering and machine learning.
Sirén Kimmo K Millard Andrew A Petersen Bent B Gilbert M Thomas P MTP Clokie Martha R J MRJ Sicheritz-Pontén Thomas T
NAR genomics and bioinformatics 20210106 1
Prophages are phages that are integrated into bacterial genomes and which are key to understanding many aspects of bacterial biology. Their extreme diversity means they are challenging to detect using sequence similarity, yet this remains the paradigm and thus many phages remain unidentified. We present a novel, fast and generalizing machine learning method based on feature space to facilitate novel prophage discovery. To validate the approach, we reanalyzed publicly available marine viromes and ...[more]
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