Gene expression analysis with integrated fuzzy C-means and pathway analysis

Mingrui Zhang; Beya Adamu; Chi Cheng Lin; Ping Yang

doi:10.1109/IEMBS.2011.6090211

Gene expression analysis with integrated fuzzy C-means and pathway analysis

Mingrui Zhang, Beya Adamu, Chi Cheng Lin, Ping Yang

Quantitative Health Sciences

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

3 Scopus citations

Abstract

A workflow for associating fuzzy clusters to biological pathways has been implemented as a Java-based software tool. Its software implementation is comprised of a correlation-based fuzzy c-means algorithm and an enrichment test on Kyoto Encyclopedia of Genes and Genomes' pathways. We applied this workflow to gene expression in classification of lung cancer cell types and achieved satisfactory results. The software could aid in the validation of results of fuzzy clustering algorithms and the exploration of un-annotated associations between genes and gene ontology categories.

Original language	English (US)
Title of host publication	Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS
Pages	936-939
Number of pages	4
DOIs	https://doi.org/10.1109/IEMBS.2011.6090211
State	Published - 2011
Event	33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS 2011 - Boston, MA, United States Duration: Aug 30 2011 → Sep 3 2011

Other

Other	33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS 2011
Country/Territory	United States
City	Boston, MA
Period	8/30/11 → 9/3/11

ASJC Scopus subject areas

Computer Vision and Pattern Recognition
Signal Processing
Biomedical Engineering
Health Informatics

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10.1109/IEMBS.2011.6090211

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Zhang, M, Adamu, B, Lin, CC & Yang, P 2011, Gene expression analysis with integrated fuzzy C-means and pathway analysis. in Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS., 6090211, pp. 936-939, 33rd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBS 2011, Boston, MA, United States, 8/30/11. https://doi.org/10.1109/IEMBS.2011.6090211

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year = "2011",

doi = "10.1109/IEMBS.2011.6090211",

language = "English (US)",

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AB - A workflow for associating fuzzy clusters to biological pathways has been implemented as a Java-based software tool. Its software implementation is comprised of a correlation-based fuzzy c-means algorithm and an enrichment test on Kyoto Encyclopedia of Genes and Genomes' pathways. We applied this workflow to gene expression in classification of lung cancer cell types and achieved satisfactory results. The software could aid in the validation of results of fuzzy clustering algorithms and the exploration of un-annotated associations between genes and gene ontology categories.

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Y2 - 30 August 2011 through 3 September 2011

ER -

Gene expression analysis with integrated fuzzy C-means and pathway analysis

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