A fuzzy c-means algorithm using a correlation metrics and gene ontology

Mingrui Zhang, Terry M Therneau, Michael A. McKenzie, Peter Li, Ping Yang

Research output: Chapter in Book/Report/Conference proceedingConference contribution

5 Citations (Scopus)

Abstract

A fuzzy c-means algorithm was adapted for analyzing microarray data. The adaptation consisted of initialization of fuzzy centroids using gene ontology information and the use of Pearson correlation distance in the objective function. To initialize fuzzy centroids, we classified genes based on gene ontology terms and used the classified genes as initial fuzzy clusters. Pearson correlation distance becomes 0 if two genes are either positively or negatively correlated. The algorithm was applied to Yeast and lung cancer microarray datasets. It outperformed the conventional fuzzy c-means algorithm by associating more genes to functional groups.

Original languageEnglish (US)
Title of host publicationProceedings - International Conference on Pattern Recognition
StatePublished - 2008
Event2008 19th International Conference on Pattern Recognition, ICPR 2008 - Tampa, FL, United States
Duration: Dec 8 2008Dec 11 2008

Other

Other2008 19th International Conference on Pattern Recognition, ICPR 2008
CountryUnited States
CityTampa, FL
Period12/8/0812/11/08

Fingerprint

Ontology
Genes
Microarrays
Yeast
Functional groups

ASJC Scopus subject areas

  • Computer Vision and Pattern Recognition

Cite this

Zhang, M., Therneau, T. M., McKenzie, M. A., Li, P., & Yang, P. (2008). A fuzzy c-means algorithm using a correlation metrics and gene ontology. In Proceedings - International Conference on Pattern Recognition [4761672]

A fuzzy c-means algorithm using a correlation metrics and gene ontology. / Zhang, Mingrui; Therneau, Terry M; McKenzie, Michael A.; Li, Peter; Yang, Ping.

Proceedings - International Conference on Pattern Recognition. 2008. 4761672.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Zhang, M, Therneau, TM, McKenzie, MA, Li, P & Yang, P 2008, A fuzzy c-means algorithm using a correlation metrics and gene ontology. in Proceedings - International Conference on Pattern Recognition., 4761672, 2008 19th International Conference on Pattern Recognition, ICPR 2008, Tampa, FL, United States, 12/8/08.
Zhang M, Therneau TM, McKenzie MA, Li P, Yang P. A fuzzy c-means algorithm using a correlation metrics and gene ontology. In Proceedings - International Conference on Pattern Recognition. 2008. 4761672
Zhang, Mingrui ; Therneau, Terry M ; McKenzie, Michael A. ; Li, Peter ; Yang, Ping. / A fuzzy c-means algorithm using a correlation metrics and gene ontology. Proceedings - International Conference on Pattern Recognition. 2008.
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