ANAT: A Tool for Constructing and Analyzing Functional Protein Networks

被引：42

作者：

Yosef, Nir ^{[2
,3
]}

Zalckvar, Einat ^{[4
]}

Rubinstein, Assaf D. ^{[4
]}

Homilius, Max ^{[5
]}

Atias, Nir ^{[1
]}

Vardi, Liram ^{[1
]}

Berman, Igor ^{[1
]}

Zur, Hadas ^{[1
]}

Kimchi, Adi ^{[4
]}

Ruppin, Eytan ^{[1
,6
]}

Sharan, Roded ^{[1
]}

机构：

[1] Tel Aviv Univ, Blavatnik Sch Comp Sci, IL-69978 Tel Aviv, Israel

[2] Broad Inst MIT & Harvard, Cambridge, MA 02142 USA

[3] Harvard Univ, Sch Med, Brigham & Womens Hosp, Ctr Neurol Dis, Boston, MA 02115 USA

[4] Weizmann Inst Sci, Dept Mol Genet, IL-76100 Rehovot, Israel

[5] Free Univ Berlin, Inst Comp Sci, D-14195 Berlin, Germany

[6] Tel Aviv Univ, Sch Med, IL-69978 Tel Aviv, Israel

来源：

SCIENCE SIGNALING | 2011年 / 4卷 / 196期

基金：

以色列科学基金会;

关键词：

GENOME-WIDE SCREEN; TELOMERE LENGTH; BIOLOGICAL NETWORKS; ENRICHMENT ANALYSIS; SYSTEMS BIOLOGY; INTERACTION MAP; DATABASE; AUTOPHAGY; VISUALIZATION; APOPTOSIS;

D O I：

10.1126/scisignal.2001935

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-scale screening studies are gradually accumulating a wealth of data on the putative involvement of hundreds of genes in various cellular responses or functions. A fundamental challenge is to chart the molecular pathways that underlie these systems. ANAT is an interactive software tool, implemented as a Cytoscape plug-in, for elucidating functional networks of proteins. It encompasses a number of network inference algorithms and provides access to networks of physical associations in several organisms. In contrast to existing software tools, ANAT can be used to infer subnetworks that connect hundreds of proteins to each other or to a given set of "anchor" proteins, a fundamental step in reconstructing cellular subnetworks. The interactive component of ANAT provides an array of tools for evaluating and exploring the resulting subnetwork models and for iteratively refining them. We demonstrate the utility of ANAT by studying the crosstalk between the autophagic and apoptotic cell death modules in humans, using a network of physical interactions. Relative to published software tools, ANAT is more accurate and provides more features for comprehensive network analysis. The latest version of the software is available at http://www.cs.tau.ac.il/similar to bnet/ANAT_SI.

引用

页数：18

共 63 条

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