SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update
SIGNOR 2.0, the SIGnaling Network Open Resource 2.0: 2019 update
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DOI：
10.1093/nar/gkz949
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发表时间：
2020-01-08
影响因子：
14.9
通讯作者：
Cesareni, Gianni
中科院分区：
文献类型：
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作者：
Licata, Luana;Lo Surdo, Prisca;Cesareni, Gianni
信号网络开放资源2.0（SIGNOR 2.0）是一个公共存储库，它将信号信息存储为生物实体之间的二元因果关系。所捕获的信息以图形方式表示为带符号的有向图。每种信号传导关系与效应（上调/下调）和机制（例如结合、磷酸化、转录激活等）相关。引起靶实体的上调/下调。自第一次发布以来，SIGNOR经历了显着的内容增加，注释因果相互作用的数量几乎翻了一番。SIGNOR 2.0现在存储了近23000个蛋白质和其他生物相关实体之间的手动注释因果关系：化学物质，表型，复合物等，我们在这里描述了策展政策的重大变化和新的置信度得分，这是分配给每个相互作用。我们还通过提供（i）SIGNOR稳定标识符，（ii）通过REST API进行编程访问，（iii）生物模式和（iv）符合标准格式的可下载数据（如PSI-MI CauseTAB和GMT），提高了对FAIR数据原则的遵守。这些数据可在https://signor.uniroma2.it/上免费获取和下载。
The SIGnaling Network Open Resource 2.0 (SIGNOR 2.0) is a public repository that stores signaling information as binary causal relationships between biological entities. The captured information is represented graphically as a signed directed graph. Each signaling relationship is associated to an effect (up/down-regulation) and to the mechanism (e.g. binding, phosphorylation, transcriptional activation, etc.) causing the up/down-regulation of the target entity. Since its first release, SIGNOR has undergone a significant content increase and the number of annotated causal interactions have almost doubled. SIGNOR 2.0 nowstores almost 23 000 manually-annotated causal relationships between proteins and other biologically relevant entities: chemicals, phenotypes, complexes, etc. We describe here significant changes in curation policy and a new confidence score, which is assigned to each interaction. We have also improved the compliance to the FAIR data principles by providing (i) SIGNOR stable identifiers, (ii) programmatic access through REST APIs, (iii) bioschemas and (iv) downloadable data in standard-compliant formats, such as PSI-MI CausalTAB and GMT. The data are freely accessible and downloadable at https://signor.uniroma2.it/.