# MiPRIME: an integrated and intelligent platform for mining primer and probe sequences of microbial species

## TL;DR

MiPRIME is a tool that automatically extracts and recommends primers and probes for detecting microorganisms from scientific literature, saving time and effort.

## Contribution

MiPRIME introduces a comprehensive, intelligent platform for mining microbial primer and probe sequences using a high-accuracy text mining model.

## Key findings

- MiPRIME integrates over 40 million articles and 548,942 organisms for microbial gene discovery.
- The platform uses a BioBERT-based model with 98.02% accuracy for efficient primer mining.
- A PRscore system enables intelligent, species-specific primer recommendations.

## Abstract

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.

To address these challenges, we have developed MiPRIME, a real-time Microbial Primer Mining 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, PRscore, 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.

The web is available at {{https://www.ai-bt.com}}.