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CD-HIT Suite: a web server for clustering and comparing biological sequences
Open accessAbstract
Summary: CD-HIT is a widely used program for clustering and comparing large biological sequence datasets. In order to further assist the CD-HIT users, we significantly improved this program with more functions and better accuracy, scalability and flexibility. Most importantly, we developed a new web server, CD-HIT Suite, for clustering a user-uploaded sequence dataset or comparing it to another dataset at different identity levels. Users can now interactively explore the clusters within web browsers. We also provide downloadable clusters for several public databases (NCBI NR, Swissprot and PDB) at different identity levels. Availability: Free access at http://cd-hit.org Contact: liwz@sdsc.edu Supplementary information: Supplementary data are available at Bioinformatics online.
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UniRef: comprehensive and non-redundant UniProt reference clusters
Suzek, B. E., Huang, H., McGarvey, P., Mazumder, R., & Wu, C. H. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm098 · Cited by 1,613
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Everard, A., Lazarevic, V., Derrien, M., Girard, M., Muccioli, G. G., Neyrinck, A. M., Possemiers, S., Van Holle, A., François, P., de Vos, W. M., et al. (2011) · Diabetes · doi:10.2337/db11-0227 · Cited by 1,076
Pawson, A. J., Sharman, J. L., Benson, H. E., Faccenda, E., Alexander, S. P. H., Buneman, O. P., Davenport, A. P., McGrath, J. C., Peters, J. A., Southan, C., et al. (2014) · Nucleic Acids Research · doi:10.1093/nar/gkt1143 · Cited by 849
Eren, A. M., Morrison, H. G., Lescault, P. J., Reveillaud, J., Vineis, J. H., & Sogin, M. L. (2015) · The ISME Journal · doi:10.1038/ismej.2014.195 · Cited by 607
Deep learning improves antimicrobial peptide recognition
Veltri, D., Kamath, U., & Shehu, A. (2018) · Bioinformatics · doi:10.1093/bioinformatics/bty179 · Cited by 593
Metadata
- Authors
- Huang, Y., Niu, B., Gao, Y., Fu, L., & Li, W.
- Venue
- Bioinformatics
- Publisher
- Oxford University Press (OUP)
- Published
- 2010-01-06
- Volume
- 26
- Issue
- 5
- Pages
- 680-682
- ISSN
- 1367-4803 (ISSN-L)
- 1367-4811
- OpenAlex
- W2097606916
- Cited by
- 2,607
- References
- 1
- FWCI
- 23.98
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Huang, Y., Niu, B., Gao, Y., Fu, L., & Li, W. (2010). CD-HIT Suite: a web server for clustering and comparing biological sequences. Bioinformatics. https://doi.org/10.1093/bioinformatics/btq003
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
