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cyto-Hubba

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A Java plugin for Cytoscape, a facilitated platform for the analysis and visualization of molecular interaction networks based on web application, Hubba. cytoHubba provides a user-friendly interface to analyze topology of protein-protein interaction networks, such as human, yeast, fly etc. CytoHubba provides 11 topological analysis methods including Degree, Edge Percolated Component, Maximum Neighborhood Component, Density of Maximum Neighborhood Component, Maximal Clique Centrality and six centralities (Bottleneck, EcCentricity, Closeness, Radiality, Betweenness, and Stress) based on shortest paths. These essential nodes may serve as candidates of drug-targets for developing novel therapy of human diseases, such as cancer or infectious disease caused by emerging pathogens.

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cyto-Hubba forum

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cyto-Hubba classification

cyto-Hubba specifications

Software type:
Package/Module
Restrictions to use:
None
Programming languages:
Java
Version:
1.6
Requirements:
Cytoscape
Interface:
Graphical user interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Medium
Stability:
Stable
Maintained:
Yes

cyto-Hubba distribution

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cyto-Hubba forum

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No open topic.

cyto-Hubba classification

cyto-Hubba specifications

Interface:
Web user interface
Input data:
Tab, Data with weight value or PSI
Stability:
Stable
Restrictions to use:
None
Computer skills:
Basic
Maintained:
Yes

cyto-Hubba distribution

download

cyto-Hubba support

Documentation

Maintainer

  • Ming-Tat Ko <>
  • Ming-Tat Ko <>

Credits

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Publications

Institution(s)

Department of Computer Science and Information Engineering, Nanhua University, Chiayi County, Taiwan; Institute of Information Science, Academia Sinica, Taipei, Taiwan; Division of Biostatistics and Bioinformatics, Institute of Population Health Sciences, National Health Research Institutes, Taiwan; Institute of Fisheries Science, College of Life Science, National Taiwan University, Taipei, Taiwan; Department of Computer Science and Information Engineering, National Central University, Taoyuan, Taiwan; Research Center of Information Technology Innovation, Academia Sinica, Taipei, Taiwan

Funding source(s)

Ministry of Science and Technology (MOST), Taiwan, for financially supporting this research through MOST 97-2221-E-008-048, MOST 100-2628-E-001 -007 -MY3 and MOST 103-2311-B-001 -033 -MY3, MOST 101-2321-B-001-043-MY2 and MOST 102-2811-B-001-046.

Link to literature

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