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切维命名服务器 (chewie-NS)：一个可部署的命名服务器，用于轻松共享核心和全基因组 MLST 方案。

Chewie Nomenclature Server (chewie-NS): a deployable nomenclature server for easy sharing of core and whole genome MLST schemas.

机构信息

Instituto de Microbiologia and Instituto de Medicina Molecular João Lobo Antunes, Faculdade de Medicina, Universidade de Lisboa, Av. Professor Egas Moniz, 1649-028 Lisboa, Portugal.

出版信息

Nucleic Acids Res. 2021 Jan 8;49(D1):D660-D666. doi: 10.1093/nar/gkaa889.

DOI:10.1093/nar/gkaa889
PMID:33068420
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC7778912/
Abstract

Chewie Nomenclature Server (chewie-NS, https://chewbbaca.online/) allows users to share genome-based gene-by-gene typing schemas and to maintain a common nomenclature, simplifying the comparison of results. The combination between local analyses and a public repository of allelic data strikes a balance between potential confidentiality issues and the need to compare results. The possibility of deploying private instances of chewie-NS facilitates the creation of nomenclature servers with a restricted user base to allow compliance with the strictest data policies. Chewie-NS allows users to easily share their own schemas and to explore publicly available schemas, including informative statistics on schemas and loci presented in interactive charts and tables. Users can retrieve all the information necessary to run a schema locally or all the alleles identified at a particular locus. The integration with the chewBBACA suite enables users to directly upload new schemas to chewie-NS, download existing schemas and synchronize local and remote schemas from chewBBACA command line version, allowing an easier integration into high-throughput analysis pipelines. The same REST API linking chewie-NS and the chewBBACA suite supports the interaction of other interfaces or pipelines with the databases available at chewie-NS, facilitating the reusability of the stored data.

摘要

切维命名服务器（chewie-NS，https://chewbbaca.online/）允许用户共享基于基因组的基因对基因分型方案，并维护通用命名法，简化结果比较。本地分析与等位基因数据公共存储库的结合，在潜在的机密性问题和比较结果的需求之间取得了平衡。部署 chewie-NS 的私有实例的可能性，便于创建用户基础受限的命名服务器，以允许遵守最严格的数据政策。chewie-NS 允许用户轻松共享自己的方案，并探索公共可用的方案，包括在交互式图表和表格中呈现的方案和基因座的信息性统计数据。用户可以检索在本地运行方案所需的所有信息，或者检索特定基因座处识别的所有等位基因。与 chewBBACA 套件的集成使用户能够直接将新方案上传到 chewie-NS，下载现有的方案，并从 chewBBACA 命令行版本同步本地和远程方案，从而更轻松地将其集成到高通量分析管道中。链接 chewie-NS 和 chewBBACA 套件的相同 REST API 支持其他接口或管道与 chewie-NS 上可用的数据库进行交互，方便了存储数据的可重用性。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/e953ff2d28b4/gkaa889fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/185c9f90b5be/gkaa889fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/62644a511e90/gkaa889fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/686c0e63447c/gkaa889fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/e953ff2d28b4/gkaa889fig4.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/185c9f90b5be/gkaa889fig1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/62644a511e90/gkaa889fig2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/686c0e63447c/gkaa889fig3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/52cd/7778912/e953ff2d28b4/gkaa889fig4.jpg

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