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SynLethDB 2.0：一个基于网络的合成致死知识库，用于新型抗癌药物发现。

SynLethDB 2.0: a web-based knowledge graph database on synthetic lethality for novel anticancer drug discovery.

机构信息

School of Information Science and Technology, ShanghaiTech University, 393 Middle Huaxia Road, Pudong, Shanghai 201210, China.

Institute for Infocomm Research, Agency for Science, Technology and Research (A*STAR), 1 Fusionopolis Way, Singapore 138632, Singapore.

出版信息

Database (Oxford). 2022 May 13;2022. doi: 10.1093/database/baac030.

DOI:10.1093/database/baac030
PMID:35562840
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC9216587/
Abstract

Two genes are synthetic lethal if mutations in both genes result in impaired cell viability, while mutation of either gene does not affect the cell survival. The potential usage of synthetic lethality (SL) in anticancer therapeutics has attracted many researchers to identify synthetic lethal gene pairs. To include newly identified SLs and more related knowledge, we present a new version of the SynLethDB database to facilitate the discovery of clinically relevant SLs. We extended the first version of SynLethDB database significantly by including new SLs identified through Clustered Regularly Interspaced Short Palindromic Repeats (CRISPR) screening, a knowledge graph about human SLs, a new web interface, etc. Over 16 000 new SLs and 26 types of other relationships have been added, encompassing relationships among 14 100 genes, 53 cancers, 1898 drugs, etc. Moreover, a brand-new web interface has been developed to include modules such as SL query by disease or compound, SL partner gene set enrichment analysis and knowledge graph browsing through a dynamic graph viewer. The data can be downloaded directly from the website or through the RESTful Application Programming Interfaces (APIs). Database URL:  https://synlethdb.sist.shanghaitech.edu.cn/v2.

摘要

如果两个基因的突变都导致细胞活力受损，而突变任何一个基因都不影响细胞存活，则这两个基因为合成致死的。合成致死（SL）在抗癌治疗中的潜在应用吸引了许多研究人员来识别合成致死基因对。为了包括新发现的 SL 和更多相关知识，我们展示了 SynLethDB 数据库的新版本，以方便发现临床相关的 SL。我们通过包括通过规律成簇间隔短回文重复（CRISPR）筛选鉴定的新 SL、关于人类 SL 的知识图谱、新的 Web 界面等，极大地扩展了 SynLethDB 数据库的第一个版本。添加了超过 16000 个新的 SL 和 26 种其他关系，涵盖了 14100 个基因、53 种癌症、1898 种药物等之间的关系。此外，还开发了一个全新的 Web 界面，包括通过疾病或化合物查询 SL、SL 伙伴基因集富集分析和通过动态图形查看器浏览知识图谱等模块。数据可以直接从网站下载，也可以通过 RESTful 应用程序编程接口（APIs）下载。数据库网址：https://synlethdb.sist.shanghaitech.edu.cn/v2。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/ca96888043e4/baac030f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/21047bde404d/baac030f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/724413ccbdb3/baac030f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/ca96888043e4/baac030f3.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/21047bde404d/baac030f1.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/724413ccbdb3/baac030f2.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aab5/9216587/ca96888043e4/baac030f3.jpg

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