ResponseNet2.0: revealing signaling and regulatory pathways connecting your proteins and genes-now with human data

被引：20

作者：

Basha, Omer ^{[1
]}

Tirman, Shoval ^{[1
]}

Eluk, Amir ^{[1
]}

Yeger-Lotem, Esti ^{[1
,2
]}

机构：

[1] Ben Gurion Univ Negev, Dept Clin Biochem & Pharmacol, IL-84105 Beer Sheva, Israel

[2] Ben Gurion Univ Negev, Natl Inst Biotechnol Negev, IL-84105 Beer Sheva, Israel

来源：

NUCLEIC ACIDS RESEARCH | 2013年 / 41卷 / W1期

关键词：

NETWORK; SUSCEPTIBILITY; INTERACTOME; GENOME; WEB;

D O I：

10.1093/nar/gkt532

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

Genome sequencing and transcriptomic profiling are two widely used approaches for the identification of human disease pathways. However, each approach typically provides a limited view of disease pathways: Genome sequencing can identify disease-related mutations but rarely reveals their mode-of-action, while transcriptomic assays do not reveal the series of events that lead to the transcriptomic change. ResponseNet is an integrative network-optimization approach that we developed to fill these gaps by highlighting major signaling and regulatory molecular interaction paths that connect disease-related mutations and genes. The ResponseNet web-server provides a user-friendly interface to ResponseNet. Specifically, users can upload weighted lists of proteins and genes and obtain a sparse, weighted, molecular interaction subnetwork connecting them, that is biased toward regulatory and signaling pathways. ResponseNet2.0 enhances the functionality of the ResponseNet web-server in two important ways. First, it supports analysis of human data by offering a human interactome composed of proteins, genes and micro-RNAs. Second, it offers a new informative view of the output, including a randomization analysis, to help users assess the biological relevance of the output subnetwork. ResponseNet2.0 is available at http://netbio.bgu.ac.il/respnet.

引用

页码：W198 / W203

页数：6

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