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RESTful API for iPTMnet: a resource for protein post-translational modification network discovery.
Database: The Journal of Biological Databases and Curation ( IF 5.8 ) Pub Date : 2020-01-01 , DOI: 10.1093/database/baz157
Sachin Gavali 1 , Julie Cowart 1 , Chuming Chen 1, 2 , Karen E Ross 3 , Cecilia Arighi 1, 2 , Cathy H Wu 1, 2, 3
Affiliation  

iPTMnet is a bioinformatics resource that integrates protein post-translational modification (PTM) data from text mining and curated databases and ontologies to aid in knowledge discovery and scientific study. The current iPTMnet website can be used for querying and browsing rich PTM information but does not support automated iPTMnet data integration with other tools. Hence, we have developed a RESTful API utilizing the latest developments in cloud technologies to facilitate the integration of iPTMnet into existing tools and pipelines. We have packaged iPTMnet API software in Docker containers and published it on DockerHub for easy redistribution. We have also developed Python and R packages that allow users to integrate iPTMnet for scientific discovery, as demonstrated in a use case that connects PTM sites to kinase signaling pathways.

中文翻译:

iPTMnet 的 RESTful API:蛋白质翻译后修饰网络发现的资源。

iPTMnet 是一种生物信息学资源,它整合了来自文本挖掘和精选数据库和本体的蛋白质翻译后修饰 (PTM) 数据,以帮助知识发现和科学研究。目前的 iPTMnet 网站可用于查询和浏览丰富的 PTM 信息,但不支持与其他工具的自动 iPTMnet 数据集成。因此,我们利用云技术的最新发展开发了 RESTful API,以促进 iPTMnet 与现有工具和管道的集成。我们已经将 iPTMnet API 软件打包在 Docker 容器中,并发布在 DockerHub 上,以便于重新分发。我们还开发了 Python 和 R 包,允许用户集成 iPTMnet 以进行科学发现,如将 PTM 位点连接到激酶信号通路的用例所示。
更新日期:2020-05-12
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