Human interactome resource and gene set linkage analysis for the functional interpretation of biologically meaningful gene sets
Human interactome resource and gene set linkage analysis for the functional interpretation of biologically meaningful gene sets
复制标题
人类相互作用组资源和基因集连锁分析，用于对具有生物学意义的基因集进行功能解释
DOI：
10.1093/bioinformatics/btt353
复制
发表时间：
2013-08-15
期刊：
影响因子：
5.8
通讯作者：
Chen, Xin
中科院分区：
文献类型：
--
作者：
Zhou, Xi;Chen, Pengcheng;Chen, Xin
动机
一个分子相互作用网络可以被看作是一个网络，其中具有相关功能的基因连接。因此，在系统水平上，分子相互作用网络中的个体基因之间的连接可以用来推断具有生物学意义的基因组之间的集体功能联系。
结果
我们提出了人类相互作用组资源和基因集连锁分析（GSLA）工具的功能解释的生物学意义的基因集在实验中观察到的。GSLA确定所观察到的基因组是否与已建立的生物过程具有重要的功能联系。当观察到的基因集没有被已知的生物过程富集时，传统的基于富集的解释方法无法产生功能见解，但GSLA仍然可以评估这些基因是否协同作用来调节特定的生物过程，从而暗示观察到的基因集的功能含义。通过多项评估说明了人类互动组资源的质量和GSLA的效用。
可用性
http://www.cls.zju.edu.cn/hir/
MOTIVATION
A molecular interaction network can be viewed as a network in which genes with related functions are connected. Therefore, at a systems level, connections between individual genes in a molecular interaction network can be used to infer the collective functional linkages between biologically meaningful gene sets.
RESULTS
We present the human interactome resource and the gene set linkage analysis (GSLA) tool for the functional interpretation of biologically meaningful gene sets observed in experiments. GSLA determines whether an observed gene set has significant functional linkages to established biological processes. When an observed gene set is not enriched by known biological processes, traditional enrichment-based interpretation methods cannot produce functional insights, but GSLA can still evaluate whether those genes work in concert to regulate specific biological processes, thereby suggesting the functional implications of the observed gene set. The quality of human interactome resource and the utility of GSLA are illustrated with multiple assessments.
AVAILABILITY
http://www.cls.zju.edu.cn/hir/