Extraction of informative genes from integrated microarray data

Dongwan Hong, Jongkeun Lee, Sangkyoon Hong, Jeehee Yoon, Sanghyun Park

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

Abstract

We have recently proposed a rank-based approach as a new microarray data integration method. The rank-based approach, which converts the expression value of each sample into a rank value within the sample, enables us to directly integrate samples generated by different laboratories and microarray technologies. In this study, we show that a non-parametric scoring method can be efficiently employed for the rank-based data, and informative genes can be effectively extracted from the integrated rank-based data. To verify the statistical significance of the scoring results from the rank-based data, we compared the distribution of the score statistics to a set of distributions obtained from the randomly column-permuted data. We also validate our methods with experimental study using publicly available prostate microarray data. We compared the informative genes extracted from each individual data to the informative genes extracted from the integrated data. The results show that we can extract important prostate marker genes by directly integrating inter-study microarray data, which are missed in either single analysis.

Original languageEnglish
Title of host publicationFoundations of Intelligent Systems - 17th International Symposium, ISMIS 2008, Proceedings
Pages618-627
Number of pages10
DOIs
Publication statusPublished - 2008 Jun 10
Event17th International Symposium on Methodologies for Intelligent Systems, ISMIS 2008 - Toronto, Canada
Duration: 2008 May 202008 May 23

Publication series

NameLecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume4994 LNAI
ISSN (Print)0302-9743
ISSN (Electronic)1611-3349

Other

Other17th International Symposium on Methodologies for Intelligent Systems, ISMIS 2008
CountryCanada
CityToronto
Period08/5/2008/5/23

All Science Journal Classification (ASJC) codes

  • Theoretical Computer Science
  • Computer Science(all)

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    Hong, D., Lee, J., Hong, S., Yoon, J., & Park, S. (2008). Extraction of informative genes from integrated microarray data. In Foundations of Intelligent Systems - 17th International Symposium, ISMIS 2008, Proceedings (pp. 618-627). (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); Vol. 4994 LNAI). https://doi.org/10.1007/978-3-540-68123-6_68