School of Information Science and Technology, ShanghaiTech University, Shanghai 201210, China.
School of Life Science and Technology, ShanghaiTech University, Shanghai 201210, China.
Bioinformatics. 2024 Feb 1;40(2). doi: 10.1093/bioinformatics/btae016.
Synthetic lethality (SL) refers to a type of genetic interaction in which the simultaneous inactivation of two genes leads to cell death, while the inactivation of a single gene does not affect cell viability. It significantly expands the range of potential therapeutic targets for anti-cancer treatments. SL interactions are primarily identified through experimental screening and computational prediction. Although various computational methods have been proposed, they tend to ignore providing evidence to support their predictions of SL. Besides, they are rarely user-friendly for biologists who likely have limited programming skills. Moreover, the genetic context specificity of SL interactions is often not taken into consideration. Here, we introduce a web server called SL-Miner, which is designed to mine the evidence of SL relationships between a primary gene and a few candidate SL partner genes in a specific type of cancer, and to prioritize these candidate genes by integrating various types of evidence. For intuitive data visualization, SL-Miner provides a range of charts (e.g. volcano plot and box plot) to help users get insights from the data.
SL-Miner is available at https://slminer.sist.shanghaitech.edu.cn.
合成致死性（SL）是指两种基因同时失活会导致细胞死亡，而单个基因失活不会影响细胞活力的一种遗传相互作用类型。它极大地扩展了抗癌治疗的潜在治疗靶点范围。SL 相互作用主要通过实验筛选和计算预测来确定。尽管已经提出了各种计算方法，但它们往往忽略了提供证据来支持他们对 SL 的预测。此外，它们对于生物学家长期以来很少友好，因为他们可能编程技能有限。此外，SL 相互作用的遗传背景特异性通常未被考虑在内。在这里，我们介绍了一个名为 SL-Miner 的网络服务器，该服务器旨在挖掘原发性基因和少数候选 SL 伙伴基因在特定类型癌症中的 SL 关系的证据，并通过整合各种类型的证据对这些候选基因进行优先级排序。为了直观的数据可视化，SL-Miner 提供了一系列图表（例如火山图和箱线图），以帮助用户从数据中获得见解。
SL-Miner 可在 https://slminer.sist.shanghaitech.edu.cn 上获得。
