The pear genomics database (PGDB): a comprehensive multi-omics research platform for Pyrus spp.
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Published:2023-09-15
Issue:1
Volume:23
Page:
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ISSN:1471-2229
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Container-title:BMC Plant Biology
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language:en
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Short-container-title:BMC Plant Biol
Author:
Chen Shulin,Sun Manyi,Xu Shaozhuo,Xue Cheng,Wei Shuwei,Zheng Pengfei,Gu Kaidi,Qiao Zhiwen,Liu Zhiying,Zhang Mingyue,Wu Jun
Abstract
Abstract
Background
Pears are among the most important temperate fruit trees in the world, with significant research efforts increasing over the last years. However, available omics data for pear cannot be easily and quickly retrieved to enable further studies using these biological data.
Description
Here, we present a publicly accessible multi-omics pear resource platform, the Pear Genomics Database (PGDB). We collected and collated data on genomic sequences, genome structure, functional annotation, transcription factor predictions, comparative genomics, and transcriptomics. We provide user-friendly functional modules to facilitate querying, browsing and usage of these data. The platform also includes basic and useful tools, including JBrowse, BLAST, phylogenetic tree building, and additional resources providing the possibility for bulk data download and quick usage guide services.
Conclusions
The Pear Genomics Database (PGDB, http://pyrusgdb.sdau.edu.cn) is an online data analysis and query resource that integrates comprehensive multi-omics data for pear. This database is equipped with user-friendly interactive functional modules and data visualization tools, and constitutes a convenient platform for integrated research on pear.
Funder
National Natural Science Foundation of China the Earmarked Fund for China Agriculture Research System the High-level Talent Project of Shandong Agriculture University the Natural Science Foundation of Shandong Province
Publisher
Springer Science and Business Media LLC
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