CasLocusAnno: a web‐based server for annotating cas loci and their corresponding (sub)types
| Autor: | Chuan Dong, Meng-Ze Du, Feng-Biao Guo, Nini Rao, Zhi Zeng, Yan Sun, Yi-Zhou Gao, Qing-Feng Wen, Dong-Kai Pu, Shuo Liu, Jian Huang |
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| Rok vydání: | 2019 |
| Předmět: |
Computer science
CRISPR-Associated Proteins Biophysics Computational biology Biochemistry 03 medical and health sciences Structural Biology Genetics CRISPR Web application Molecular Biology 030304 developmental biology Internet 0303 health sciences Markov chain business.industry 030302 biochemistry & molecular biology Palindrome Computational Biology Molecular Sequence Annotation Cell Biology Cluster algorithm Genetic Loci Proteome Sub types Mobile genetic elements business |
| Zdroj: | FEBS Letters. 593:2646-2654 |
| ISSN: | 1873-3468 0014-5793 |
| DOI: | 10.1002/1873-3468.13519 |
| Popis: | In prokaryotes, Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) and CRISPR-associated protein (Cas) systems constitute adaptive immune systems against mobile genetic elements (MGEs). Here, we introduce the Markov cluster algorithm (MCL) to Makarova et al.'s method in order to select a more reasonable profile. Additionally, our new Maximum Continuous Cas Subcluster (MCCS) method helps identification of tightly clustered loci. The comparison with two other commonly used programs shows that the method could identify Cas proteins with higher accuracy and lower Additional Prediction Rate (APR). Moreover, we developed a web-based server, CasLocusAnno (http://cefg.uestc.cn/CasLocusAnno), capable of annotating Cas proteins, cas loci and their (sub)types less than ~ 28 s following the whole proteome sequence submission. Its standalone version can be downloaded at https://github.com/RiversDong/CasLocusAnno. |
| Databáze: | OpenAIRE |
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