qPrimerDB 2.0: an updated comprehensive gene-specific qPCR primer database for 1172 organisms
Year: 2024
Type: article
Abstract: High-quality primer design is essential for the success of all polymerase chain reaction (PCR)-based experiments. We previously developed a thermodynamics-based gene-specific quantitative PCR (qPCR) primer database for 147 organisms, which has been used extensively in gene expression studies. However, the number of organisms and the imperfection of function in the database limits its potential applications. Here, we improved the functionality of qPrimerDB to create a more comprehensive primer resource. Specifically, we (i) developed an improved primer design tool, qPrimer, building upon the previous qPrimerDB pipeline, to enhance the efficiency and simplicity of genome-scale qPCR primer design; (ii) pre-computed qPCR primer resources from 1 308 genomes of 1172 organisms and (iii) introduced a complete system for identifying, designing, checking, marking, and submitting qPCR primers. qPrimerDB 2.0 is freely available at https://qprimerdb.biodb.org. The qPrimer source code is available at https://github.com/swu1019lab/qPrimer.
Source: Nucleic Acids Research
DOI: 10.1093/nar/gkae684
Institution: Southwest University
Language: English
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: gold
Estimated APC paid: $4,192
Funders: National Natural Science Foundation of China, Natural Science Foundation of Chongqing, Southwest University, Centre Scientifique et Technique du Bâtiment, National Key Research and Development Program of China, Fundamental Research Funds for the Central Universities, Modern Agricultural Technology Industry System of Shandong province
OpenAlex ID: W4401452007