{Reference Type}: Journal Article
{Title}: MiPRIME: an integrated and intelligent platform for mining primer and probe sequences of microbial species.
{Author}: Zhang Z;Ren J;Ren L;Zhang L;Ai Q;Long H;Ren Y;Yang K;Feng H;Li S;Li X;
{Journal}: Bioinformatics
{Volume}: 40
{Issue}: 7
{Year}: 2024 Jul 1
{Factor}: 6.931
{DOI}: 10.1093/bioinformatics/btae429
{Abstract}: <B>BACKGROUND: </B>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.<BR><B>RESULTS: </B>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.<BR><B>METHODS: </B>The web is available at {{https://www.ai-bt.com}}.