A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks

Jiajie Peng; Hongxiang Li; Yadong Wang; Jin Chen

doi:10.1145/2808719.2816835

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks

Jiajie Peng, Hongxiang Li, Yadong Wang, Jin Chen

Internal Medicine

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

Abstract

Gene Ontology(GO) is one of the most popular bioinformatic resource to study functional relationships between genes. However, the existing tools for calculating the semantic similarity are limited since they only rely on GO annotations and structure. We provide a working demonstration of a web tool that calculates functional similarities between GO terms by integrating gene co-function networks and information from GO. We demonstrate the function of the web tool by comparing remote GO terms. Copyright is held by the author/owner(s).

Original language	English
Title of host publication	BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics
Pages	678-679
Number of pages	2
ISBN (Electronic)	9781450338530
DOIs	https://doi.org/10.1145/2808719.2816835
State	Published - Sep 9 2015
Event	6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2015 - Atlanta, United States Duration: Sep 9 2015 → Sep 12 2015

Publication series

Name	BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics

Conference

Conference	6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2015
Country/Territory	United States
City	Atlanta
Period	9/9/15 → 9/12/15

Bibliographical note

Publisher Copyright:
Copyright is held by the author/owner(s).

Keywords

Gene ontology
Semantic similarity
Software tools

ASJC Scopus subject areas

Software
Health Informatics
Computer Science Applications
Biomedical Engineering

Access to Document

10.1145/2808719.2816835

Cite this

Peng, J., Li, H., Wang, Y., & Chen, J. (2015). A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. In BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics (pp. 678-679). (BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics). https://doi.org/10.1145/2808719.2816835

Peng, Jiajie ; Li, Hongxiang ; Wang, Yadong et al. / A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. 2015. pp. 678-679 (BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics).

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title = "A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks",

abstract = "Gene Ontology(GO) is one of the most popular bioinformatic resource to study functional relationships between genes. However, the existing tools for calculating the semantic similarity are limited since they only rely on GO annotations and structure. We provide a working demonstration of a web tool that calculates functional similarities between GO terms by integrating gene co-function networks and information from GO. We demonstrate the function of the web tool by comparing remote GO terms. Copyright is held by the author/owner(s).",

keywords = "Gene ontology, Semantic similarity, Software tools",

author = "Jiajie Peng and Hongxiang Li and Yadong Wang and Jin Chen",

note = "Publisher Copyright: Copyright is held by the author/owner(s).; 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2015 ; Conference date: 09-09-2015 Through 12-09-2015",

year = "2015",

month = sep,

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doi = "10.1145/2808719.2816835",

language = "English",

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Peng, J, Li, H, Wang, Y & Chen, J 2015, A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. in BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, pp. 678-679, 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics, BCB 2015, Atlanta, United States, 9/9/15. https://doi.org/10.1145/2808719.2816835

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. / Peng, Jiajie; Li, Hongxiang; Wang, Yadong et al.
BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. 2015. p. 678-679 (BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution › peer-review

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AB - Gene Ontology(GO) is one of the most popular bioinformatic resource to study functional relationships between genes. However, the existing tools for calculating the semantic similarity are limited since they only rely on GO annotations and structure. We provide a working demonstration of a web tool that calculates functional similarities between GO terms by integrating gene co-function networks and information from GO. We demonstrate the function of the web tool by comparing remote GO terms. Copyright is held by the author/owner(s).

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Peng J, Li H, Wang Y, Chen J. A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks. In BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics. 2015. p. 678-679. (BCB 2015 - 6th ACM Conference on Bioinformatics, Computational Biology, and Health Informatics). doi: 10.1145/2808719.2816835

A web tool for measuring gene semantic similarities by combining gene ontology and gene co-function networks

Abstract

Publication series

Conference

Bibliographical note

Keywords

ASJC Scopus subject areas

Access to Document

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Cite this