We found a match
Your institution may have access to this item. Find your institution then sign in to continue.
- Title
MiPRIME: an integrated and intelligent platform for mining primer and probe sequences of microbial species.
- Authors
Zhang, Zhiming; Ren, Jing; Ren, Lili; Zhang, Lanying; Ai, Qubo; Long, Haixin; Ren, Yi; Yang, Kun; Feng, Huiying; Li, Sabrina; Li, Xu
- Abstract
Motivation Accurately detecting pathogenic microorganisms requires effective primers and probe designs. Literature-derived primers are a valuable resource as they have been tested and proven effective in previous research. However, manually mining primers from published texts is time-consuming and limited in species scop. Results To address these challenges, we have developed MiPRIME, a real-time Mi crobial Pr imer M ining platform for primer/probe sequences extraction of pathogenic microorganisms with three highlights: (i) comprehensive integration. Covering >40 million articles and 548 942 organisms, the platform enables high-frequency microbial gene discovery from a global perspective, facilitating user-defined primer design and advancing microbial research. (ii) Using a BioBERT-based text mining model with 98.02% accuracy, greatly reducing information processing time. (iii) Using a primer ranking score, P R score , for intelligent recommendation of species-specific primers. Overall, MiPRIME is a practical tool for primer mining in the pan-microbial field, saving time and cost of trial-and-error experiments. Availability and implementation The web is available at {{ https://www.ai-bt.com }}.
- Subjects
MICROBIAL genes; TEXT mining; PATHOGENIC microorganisms; INFORMATION processing; SPECIES
- Publication
Bioinformatics, 2024, Vol 40, Issue 7, p1
- ISSN
1367-4803
- Publication type
Article
- DOI
10.1093/bioinformatics/btae429