Network neighborhood analysis with the multi-node topological overlap measure
被引:143
作者:
Li, Ai
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Sch Publ Hlth, Dept Biostat, Los Angeles, CA 90095 USA
Li, Ai
Horvath, Steve
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif Los Angeles, Sch Publ Hlth, Dept Biostat, Los Angeles, CA 90095 USAUniv Calif Los Angeles, Sch Publ Hlth, Dept Biostat, Los Angeles, CA 90095 USA
Horvath, Steve
[1
]
机构:
[1] Univ Calif Los Angeles, Sch Publ Hlth, Dept Biostat, Los Angeles, CA 90095 USA
[2] Univ Calif Los Angeles, David Geffen Sch Med, Dept Human Genet, Los Angeles, CA 90095 USA
Motivation: The goal of neighborhood analysis is to find a set of genes (the neighborhood) that is similar to an initial 'seed' set of genes. Neighborhood analysis methods for network data are important in systems biology. If individual network connections are susceptible to noise, it can be advantageous to define neighborhoods on the basis of a robust interconnectedness measure, e.g. the topological overlap measure. Since the use of multiple nodes in the seed set may lead to more informative neighborhoods, it can be advantageous to define multi-node similarity measures. Results: The pairwise topological overlap measure is generalized to multiple network nodes and subsequently used in a recursive neighborhood construction method. A local permutation scheme is used to determine the neighborhood size. Using four network applications and a simulated example, we provide empirical evidence that the resulting neighborhoods are biologically meaningful, e.g. we use neighborhood analysis to identify brain cancer related genes.
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Ghazalpour, Anatole
Doss, Sudheer
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Doss, Sudheer
Zhang, Bin
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Zhang, Bin
Wang, Susanna
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Wang, Susanna
Plaisier, Christopher
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Plaisier, Christopher
Castellanos, Ruth
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Castellanos, Ruth
Brozell, Alec
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Brozell, Alec
Schadt, Eric E.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Schadt, Eric E.
Drake, Thomas A.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Drake, Thomas A.
Lusis, Aldons J.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Lusis, Aldons J.
Horvath, Steve
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USAUniv Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Ghazalpour, Anatole
Doss, Sudheer
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Doss, Sudheer
Zhang, Bin
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Zhang, Bin
Wang, Susanna
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Wang, Susanna
Plaisier, Christopher
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Plaisier, Christopher
Castellanos, Ruth
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Castellanos, Ruth
Brozell, Alec
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Brozell, Alec
Schadt, Eric E.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Schadt, Eric E.
Drake, Thomas A.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Drake, Thomas A.
Lusis, Aldons J.
论文数: 0引用数: 0
h-index: 0
机构:Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA
Lusis, Aldons J.
Horvath, Steve
论文数: 0引用数: 0
h-index: 0
机构:
Univ Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USAUniv Calif Los Angeles, Dept Human Genet, David Geffen Sch Med, Los Angeles, CA 90024 USA