Cytoscape ESP: Simple search of complex biological networks

Maital Ashkenazi; Gary D. Bader; Allan Kuchinsky; Menachem Moshelion; David J. States

doi:10.1093/bioinformatics/btn208

Cytoscape ESP: Simple search of complex biological networks

Maital Ashkenazi^*, Gary D. Bader, Allan Kuchinsky, Menachem Moshelion, David J. States

^*Corresponding author for this work

Institute of Plant Sciences and Genetics in Agriculture

Research output: Contribution to journal › Article › peer-review

10 Scopus citations

Abstract

Summary: Cytoscape enhanced search plugin (ESP) enables searching complex biological networks on multiple attribute fields using logical operators and wildcards. Queries use an intuitive syntax and simple search line interface. ESP is implemented as a Cytoscape plugin and complements existing search functions in the Cytoscape network visualization and analysis software, allowing users to easily identify nodes, edges and subgraphs of interest, even for very large networks.

Original language	American English
Pages (from-to)	1465-1466
Number of pages	2
Journal	Bioinformatics
Volume	24
Issue number	12
DOIs	https://doi.org/10.1093/bioinformatics/btn208
State	Published - Jun 2008

Bibliographical note

Funding Information:
Funding: ESP development was supported in part by the Google Summer of Code program and by grants LM008106 and DA021519 from NIH and grant 953/07 from the Israel Science Foundation (ISF). Cytoscape is supported by grant GM070743-01 from the NIH. Contributions by G.D.B. are supported by Genome Canada via the Ontario Genomics Institute.

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10.1093/bioinformatics/btn208

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title = "Cytoscape ESP: Simple search of complex biological networks",

abstract = "Summary: Cytoscape enhanced search plugin (ESP) enables searching complex biological networks on multiple attribute fields using logical operators and wildcards. Queries use an intuitive syntax and simple search line interface. ESP is implemented as a Cytoscape plugin and complements existing search functions in the Cytoscape network visualization and analysis software, allowing users to easily identify nodes, edges and subgraphs of interest, even for very large networks.",

author = "Maital Ashkenazi and Bader, {Gary D.} and Allan Kuchinsky and Menachem Moshelion and States, {David J.}",

note = "Funding Information: Funding: ESP development was supported in part by the Google Summer of Code program and by grants LM008106 and DA021519 from NIH and grant 953/07 from the Israel Science Foundation (ISF). Cytoscape is supported by grant GM070743-01 from the NIH. Contributions by G.D.B. are supported by Genome Canada via the Ontario Genomics Institute.",

year = "2008",

month = jun,

doi = "10.1093/bioinformatics/btn208",

language = "American English",

volume = "24",

pages = "1465--1466",

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T1 - Cytoscape ESP

T2 - Simple search of complex biological networks

AU - Ashkenazi, Maital

AU - Bader, Gary D.

AU - Kuchinsky, Allan

AU - Moshelion, Menachem

AU - States, David J.

N1 - Funding Information: Funding: ESP development was supported in part by the Google Summer of Code program and by grants LM008106 and DA021519 from NIH and grant 953/07 from the Israel Science Foundation (ISF). Cytoscape is supported by grant GM070743-01 from the NIH. Contributions by G.D.B. are supported by Genome Canada via the Ontario Genomics Institute.

PY - 2008/6

Y1 - 2008/6

N2 - Summary: Cytoscape enhanced search plugin (ESP) enables searching complex biological networks on multiple attribute fields using logical operators and wildcards. Queries use an intuitive syntax and simple search line interface. ESP is implemented as a Cytoscape plugin and complements existing search functions in the Cytoscape network visualization and analysis software, allowing users to easily identify nodes, edges and subgraphs of interest, even for very large networks.

AB - Summary: Cytoscape enhanced search plugin (ESP) enables searching complex biological networks on multiple attribute fields using logical operators and wildcards. Queries use an intuitive syntax and simple search line interface. ESP is implemented as a Cytoscape plugin and complements existing search functions in the Cytoscape network visualization and analysis software, allowing users to easily identify nodes, edges and subgraphs of interest, even for very large networks.

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U2 - 10.1093/bioinformatics/btn208

DO - 10.1093/bioinformatics/btn208

M3 - Article

C2 - 18445605

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SN - 1367-4803

VL - 24

SP - 1465

EP - 1466

JO - Bioinformatics

JF - Bioinformatics

IS - 12

ER -

Cytoscape ESP: Simple search of complex biological networks

Abstract

Bibliographical note

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