UPARSE: highly accurate OTU sequences from microbial amplicon reads

@article{Edgar2013UPARSEHA,
  title={UPARSE: highly accurate OTU sequences from microbial amplicon reads},
  author={R. Edgar},
  journal={Nature Methods},
  year={2013},
  volume={10},
  pages={996-998}
}
  • R. Edgar
  • Published 2013
  • Biology, Medicine
  • Nature Methods
Amplified marker-gene sequences can be used to understand microbial community structure, but they suffer from a high level of sequencing and amplification artifacts. [...] Key Result The UPARSE pipeline reports operational taxonomic unit (OTU) sequences with ≤1% incorrect bases in artificial microbial community tests, compared with >3% incorrect bases commonly reported by other methods. The improved accuracy results in far fewer OTUs, consistently closer to the expected number of species in a community.Expand

Paper Mentions

Interventional Clinical Trial
There are two essential ways of treatment in the field of orthodontics. The fixed appliance treatment with self-ligating or conventional brackets and treatment with aligners. Fixed… Expand
ConditionsCell Culture, Oral Microbiome, Orthodontic Appliances, Fixed, (+2 more)
InterventionProcedure
Towards PacBio-based pan-eukaryote metabarcoding using full-length ITS sequences.
Updating the 97% identity threshold for 16S ribosomal RNA OTUs
UNOISE2: improved error-correction for Illumina 16S and ITS amplicon sequencing
Analysis of 16S rRNA Gene Amplicon Sequences Using the QIIME Software Package.
Improved Microbial Community Characterization of 16S rRNA via Metagenome Hybridization Capture Enrichment
Updating the 97% identity threshold for 16S ribosomal RNA OTUs
  • R. Edgar
  • Medicine, Computer Science
  • Bioinform.
  • 2018
...
1
2
3
4
5
...

References

SHOWING 1-10 OF 20 REFERENCES
Accurate determination of microbial diversity from 454 pyrosequencing data
Greengenes, a Chimera-Checked 16S rRNA Gene Database and Workbench Compatible with ARB
Removing Noise From Pyrosequenced Amplicons
...
1
2
...