Title |
CyNetworkBMA: a Cytoscape app for inferring gene regulatory networks
|
---|---|
Published in |
Source Code for Biology and Medicine, November 2015
|
DOI | 10.1186/s13029-015-0043-5 |
Pubmed ID | |
Authors |
Maciej Fronczuk, Adrian E. Raftery, Ka Yee Yeung |
Abstract |
Inference of gene networks from expression data is an important problem in computational biology. Many algorithms have been proposed for solving the problem efficiently. However, many of the available implementations are programming libraries that require users to write code, which limits their accessibility. We have developed a tool called CyNetworkBMA for inferring gene networks from expression data that integrates with Cytoscape. Our application offers a graphical user interface for networkBMA, an efficient implementation of Bayesian Model Averaging methods for network construction. The client-server architecture of CyNetworkBMA makes it possible to distribute or centralize computation depending on user needs. CyNetworkBMA is an easy-to-use tool that makes network inference accessible to non-programmers through seamless integration with Cytoscape. CyNetworkBMA is available on the Cytoscape App Store at http://apps.cytoscape.org/apps/cynetworkbma. |
X Demographics
Geographical breakdown
Country | Count | As % |
---|---|---|
United States | 2 | 67% |
Unknown | 1 | 33% |
Demographic breakdown
Type | Count | As % |
---|---|---|
Members of the public | 2 | 67% |
Scientists | 1 | 33% |
Mendeley readers
Geographical breakdown
Country | Count | As % |
---|---|---|
Brazil | 1 | 3% |
Unknown | 30 | 97% |
Demographic breakdown
Readers by professional status | Count | As % |
---|---|---|
Researcher | 9 | 29% |
Student > Master | 4 | 13% |
Student > Bachelor | 3 | 10% |
Professor > Associate Professor | 3 | 10% |
Student > Ph. D. Student | 3 | 10% |
Other | 5 | 16% |
Unknown | 4 | 13% |
Readers by discipline | Count | As % |
---|---|---|
Agricultural and Biological Sciences | 11 | 35% |
Computer Science | 6 | 19% |
Engineering | 3 | 10% |
Biochemistry, Genetics and Molecular Biology | 2 | 6% |
Mathematics | 1 | 3% |
Other | 4 | 13% |
Unknown | 4 | 13% |