Adaptation in natural and artificial systems
Adaptation in natural and artificial systems
Analysis techniques for microarray time-series data
RECOMB '01 Proceedings of the fifth annual international conference on Computational biology
Biclustering of Expression Data
Proceedings of the Eighth International Conference on Intelligent Systems for Molecular Biology
d-Clusters: Capturing Subspace Correlation in a Large Data Set
ICDE '02 Proceedings of the 18th International Conference on Data Engineering
Time-frequency feature detection for time-course microarray data
Proceedings of the 2004 ACM symposium on Applied computing
A Time Series Analysis of Microarray Data
BIBE '04 Proceedings of the 4th IEEE Symposium on Bioinformatics and Bioengineering
Analyzing time series gene expression data
Bioinformatics
Discover Gene Specific Local Co-regulations Using Progressive Genetic Algorithm
ICTAI '06 Proceedings of the 18th IEEE International Conference on Tools with Artificial Intelligence
ICDM '06 Proceedings of the Sixth International Conference on Data Mining
ACSC '11 Proceedings of the Thirty-Fourth Australasian Computer Science Conference - Volume 113
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Discovering gene co-regulatory relationships is a new but important research problem in DNA microarray data analysis. The problem of gene specific co-regulation discovery is to, for a particular gene of interest, called the target gene , identify its strongly co-regulated genes and the condition subsets where such strong gene co-regulations are observed. The study on this problem can contribute to a better understanding and characterization of the target gene. The existing method, using the genetic algorithm (GA), is slow due to its expensive fitness evaluation and long individual representation. In this paper, we propose an improved method for finding gene specific co-regulations. Compared with the current method, our method features a notably improved efficiency. We employ k NN Search Table to substantially speed up fitness evaluation in the GA. We also propose a more compact representation scheme for encoding individuals in the GA, which contributes to faster crossover and mutation operations. Experimental results with a real-life gene microarray data set demonstrate the improved efficiency of our technique compared with the current method.