16S Classifier: A Tool for Fast and Accurate Taxonomic Classification of 16S rRNA Hypervariable Regions in Metagenomic Datasets Article Swipe
Nikhil Chaudhary
,
Ashok Sharma
,
P. C. Agarwal
,
Ankit Gupta
,
Vineet K. Sharma
·
YOU?
·
· 2015
· Open Access
·
· DOI: https://doi.org/10.1371/journal.pone.0116106
YOU?
·
· 2015
· Open Access
·
· DOI: https://doi.org/10.1371/journal.pone.0116106
The diversity of microbial species in a metagenomic study is commonly assessed using 16S rRNA gene sequencing. With the rapid developments in genome sequencing technologies, the focus has shifted towards the sequencing of hypervariable regions of 16S rRNA gene instead of full length gene sequencing. Therefore, 16S Classifier is developed using a machine learning method, Random Forest, for faster and accurate taxonomic classification of short hypervariable regions of 16S rRNA sequence. It displayed precision values of up to 0.91 on training datasets and the precision values of up to 0.98 on the test dataset. On real metagenomic datasets, it showed up to 99.7% accuracy at the phylum level and up to 99.0% accuracy at the genus level. 16S Classifier is available freely at http://metagenomics.iiserb.ac.in/16Sclassifier and http://metabiosys.iiserb.ac.in/16Sclassifier.
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- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1371/journal.pone.0116106
- https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0116106&type=printable
- OA Status
- gold
- Cited By
- 85
- References
- 45
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W2008528231
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- OpenAlex ID
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https://openalex.org/W2008528231Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1371/journal.pone.0116106Digital Object Identifier
- Title
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16S Classifier: A Tool for Fast and Accurate Taxonomic Classification of 16S rRNA Hypervariable Regions in Metagenomic DatasetsWork title
- Type
-
articleOpenAlex work type
- Language
-
enPrimary language
- Publication year
-
2015Year of publication
- Publication date
-
2015-02-03Full publication date if available
- Authors
-
Nikhil Chaudhary, Ashok Sharma, P. C. Agarwal, Ankit Gupta, Vineet K. SharmaList of authors in order
- Landing page
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https://doi.org/10.1371/journal.pone.0116106Publisher landing page
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https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0116106&type=printableDirect link to full text PDF
- Open access
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YesWhether a free full text is available
- OA status
-
goldOpen access status per OpenAlex
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https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0116106&type=printableDirect OA link when available
- Concepts
-
Hypervariable region, Metagenomics, 16S ribosomal RNA, Biology, Classifier (UML), Computational biology, Artificial intelligence, Genetics, Gene, Computer scienceTop concepts (fields/topics) attached by OpenAlex
- Cited by
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85Total citation count in OpenAlex
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2024: 8, 2023: 6, 2022: 8, 2021: 5, 2020: 19Per-year citation counts (last 5 years)
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45Number of works referenced by this work
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10Other works algorithmically related by OpenAlex
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