DocumentCode :
1085633
Title :
Fuzzy-Adaptive-Subspace-Iteration-Based Two-Way Clustering of Microarray Data
Author :
Shaik, Jahangheer ; Yeasin, Mohammed
Author_Institution :
Dept. of Pathology & Immunology, Washington Univ., St. Louis, MO
Volume :
6
Issue :
2
fYear :
2009
Firstpage :
244
Lastpage :
259
Abstract :
This paper presents fuzzy-adaptive-subspace-iteration-based two-way clustering (FASIC) of microarray data for finding differentially expressed genes (DEGs) from two-sample microarray experiments. The concept of fuzzy membership is introduced to transform the hard adaptive subspace iteration (ASI) algorithm into a fuzzy-ASI algorithm to perform two-way clustering. The proposed approach follows a progressive framework to assign a relevance value to genes associated with each cluster. Subsequently, each gene cluster is scored and ranked based on its potential to provide a correct classification of the sample classes. These ranks are converted into P values using the R-test, and the significance of each gene is determined. A fivefold validation is performed on the DEGs selected using the proposed approach. Empirical analyses on a number of simulated microarray data sets are conducted to quantify the results obtained using the proposed approach. To exemplify the efficacy of the proposed approach, further analyses on different real microarray data sets are also performed.
Keywords :
biology computing; biotechnology; data mining; fuzzy systems; genetics; iterative methods; differentially expressed genes; fuzzy-ASI algorithm; fuzzy-adaptive-subspace-iteration algorithm; microarray data; two-way clustering; Algorithm design and analysis; Analytical models; Association rules; Bioinformatics; Clustering algorithms; Data mining; Data visualization; Diseases; Feature extraction; Performance analysis; Clustering; Data and knowledge visualization; Data mining; Feature extraction or construction; and association rules; classification; classification and association rules; data and knowledge visualization; data mining; feature extraction or construction.; Algorithms; Cluster Analysis; Colonic Neoplasms; Computer Simulation; Databases, Genetic; Fuzzy Logic; Gene Expression; Humans; Leukemia; Multigene Family; Neoplasms; Oligonucleotide Array Sequence Analysis; Reproducibility of Results; Stomach Neoplasms;
fLanguage :
English
Journal_Title :
Computational Biology and Bioinformatics, IEEE/ACM Transactions on
Publisher :
ieee
ISSN :
1545-5963
Type :
jour
DOI :
10.1109/TCBB.2008.15
Filename :
4459302
Link To Document :
بازگشت