期刊
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
卷 57, 期 7, 页码 613-617出版社
WILEY-BLACKWELL
DOI: 10.1111/jipb.12295
关键词
Chromosome imaging; CRISPR; knockout; primer; software
资金
- State Key Project of Basic Research [2012CB944804]
- SIBS [2013KIP105]
- Knowledge Innovation Program of the Chinese Academy of Sciences [KSCX3-EW-N-01]
The clustered regularly interspaced short palindromic repeats (CRISPR)-associated system enables biologists to edit genomes precisely and provides a powerful tool for perturbing endogenous gene regulation, modulation of epigenetic markers, and genome architecture. However, there are concerns about the specificity of the system, especially the usages of knocking out a gene. Previous designing tools either were mostly built-in websites or ran as command-line programs, and none of them ran locally and acquired a user-friendly interface. In addition, with the development of CRISPR-derived systems, such as chromosome imaging, there were still no tools helping users to generate specific end-user spacers. We herein present CRISPR Primer Designer for researchers to design primers for CRISPR applications. The program has a user-friendly interface, can analyze the BLAST results by using multiple parameters, score for each candidate spacer, and generate the primers when using a certain plasmid. In addition, CRISPR Primer Designer runs locally and can be used to search spacer clusters, and exports primers for the CRISPR-Cas system-based chromosome imaging system.
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