Netmatchstar: An enhanced Cytoscape network querying app [version 2; referees: 2 approved]

Fabio Rinnone, Giovanni Micale, Vincenzo Bonnici, Gary D. Bader, Dennis Shasha, Alfredo Ferro, Alfredo Pulvirenti, Rosalba Giugno

Research output: Contribution to journalArticle

Abstract

We present NetMatchStar, a Cytoscape app to find all the occurrences of a query graph in a network and check for its significance as a motif with respect to seven different random models. The query can be uploaded or built from scratch using Cytoscape facilities. The app significantly enhances the previous NetMatch in style, performance and functionality. Notably NetMatchStar allows queries with wildcards.

Original languageEnglish (US)
Article number479
JournalF1000Research
Volume4
DOIs
StatePublished - 2015

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ASJC Scopus subject areas

  • Medicine(all)
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)
  • Pharmacology, Toxicology and Pharmaceutics(all)

Cite this

Netmatchstar : An enhanced Cytoscape network querying app [version 2; referees: 2 approved]. / Rinnone, Fabio; Micale, Giovanni; Bonnici, Vincenzo; Bader, Gary D.; Shasha, Dennis; Ferro, Alfredo; Pulvirenti, Alfredo; Giugno, Rosalba.

In: F1000Research, Vol. 4, 479, 2015.

Research output: Contribution to journalArticle

Rinnone, F, Micale, G, Bonnici, V, Bader, GD, Shasha, D, Ferro, A, Pulvirenti, A & Giugno, R 2015, 'Netmatchstar: An enhanced Cytoscape network querying app [version 2; referees: 2 approved]', F1000Research, vol. 4, 479. https://doi.org/10.12688/f1000research.6656.2
Rinnone, Fabio ; Micale, Giovanni ; Bonnici, Vincenzo ; Bader, Gary D. ; Shasha, Dennis ; Ferro, Alfredo ; Pulvirenti, Alfredo ; Giugno, Rosalba. / Netmatchstar : An enhanced Cytoscape network querying app [version 2; referees: 2 approved]. In: F1000Research. 2015 ; Vol. 4.
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