Department of Biological Sciences, University of Pittsburgh, Pittsburgh, PA 15260, USA.
Department of Integrative Structural and Computational Biology, The Scripps Research Institute, La Jolla, CA 92037, USA.
Bioinformatics. 2021 Aug 25;37(16):2464-2466. doi: 10.1093/bioinformatics/btaa983.
Bacteriophages (phages) are incredibly abundant and genetically diverse. The volume of phage genomics data is rapidly increasing, driven in part by the SEA-PHAGES program, which isolates, sequences and manually annotates hundreds of phage genomes each year. With an ever-expanding genomics dataset, there are many opportunities for generating new biological insights through comparative genomic and bioinformatic analyses. As a result, there is a growing need to be able to store, update, explore and analyze phage genomics data. The package pdm_utils provides a collection of tools for MySQL phage database management designed to meet specific needs in the SEA-PHAGES program and phage genomics generally.
噬菌体（phages）数量庞大且具有高度遗传多样性。由于 SEA-PHAGES 项目每年都会分离、测序和手动注释数百个噬菌体基因组，因此噬菌体基因组学数据的数量正在迅速增加。随着基因组学数据集的不断扩展，通过比较基因组学和生物信息学分析产生新的生物学见解的机会很多。因此，人们越来越需要能够存储、更新、探索和分析噬菌体基因组学数据。pdm_utils 包提供了一套用于 MySQL 噬菌体数据库管理的工具，旨在满足 SEA-PHAGES 项目和噬菌体基因组学的特定需求。
