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Cited by 20,826

The DOI matches its Crossref record; 2 of the 2 references it cites were found in a registry or an index.

Search and clustering orders of magnitude faster than BLAST

Open access
Edgar, Robert C.·2010·Bioinformatics
DOI 10.1093/bioinformatics/btq461
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Abstract

Motivation: Biological sequence data is accumulating rapidly, motivating the development of improved high-throughput methods for sequence classification. Results: UBLAST and USEARCH are new algorithms enabling sensitive local and global search of large sequence databases at exceptionally high speeds. They are often orders of magnitude faster than BLAST in practical applications, though sensitivity to distant protein relationships is lower. UCLUST is a new clustering method that exploits USEARCH to assign sequences to clusters. UCLUST offers several advantages over the widely used program CD-HIT, including higher speed, lower memory use, improved sensitivity, clustering at lower identities and classification of much larger datasets. Availability: Binaries are available at no charge for non-commercial use at http://www.drive5.com/usearch Contact: robert@drive5.com Supplementary information: Supplementary data are available at Bioinformatics online.

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Show all 2 references

Research works printed but not linked: 6

  1. Butte, 2001, Challenges in bioinformatics: infrastructure, models and analytics, Trends Biotechnol., 19, 159, 10.1016/S0167-7799(01)01603-1 · DOI
  2. Edgar, 2004, Local homology recognition and distance measures in linear time using compressed amino acid alphabets, Nucleic Acids Res., 32, 380, 10.1093/nar/gkh180 · DOI
  3. Edgar, 2004, MUSCLE: multiple sequence alignment with high accuracy and high throughput, Nucleic Acids Res., 32, 1792, 10.1093/nar/gkh340 · DOI · Paper page
  4. Finn, 2008, The Pfam protein families database, Nucleic Acids Res., 36, D281, 10.1093/nar/gkm960 · DOI
  5. Gardner, 2009, Rfam: updates to the RNA families database, Nucleic Acids Res., 37, D136, 10.1093/nar/gkn766 · DOI
  6. Li, 2006, Cd-hit: a fast program for clustering and comparing large sets of protein or nucleotide sequences, Bioinformatics, 22, 1658, 10.1093/bioinformatics/btl158 · DOI · Paper page

Cited by

Items 101–200 of 498

Metadata

Authors
Edgar, R. C.
Venue
Bioinformatics
Publisher
Oxford University Press (OUP)
Published
2010-08-12
Volume
26
Issue
19
Pages
2460-2461
ISSN
  • 1367-4803 (ISSN-L)
  • 1367-4811
DOI
10.1093/bioinformatics/btq461
OpenAlex
W2124351063
Cited by
20,826
References
2
FWCI
86.49
Type
journal article
Language
en
Open access
bronze

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