Spectral similarity for analysis of DNA microarray time-series data
International Journal of Data Mining and Bioinformatics
Spectral analysis of microarray gene expression time series data of Plasmodium falciparum
International Journal of Bioinformatics Research and Applications
Detecting Periodically Expression in Unevenly Spaced Microarray Time Series
ICCS '07 Proceedings of the 7th international conference on Computational Science, Part I: ICCS 2007
International Journal of Data Mining and Bioinformatics
Method of regulatory network that can explore protein regulations for disease classification
Artificial Intelligence in Medicine
A clustering algorithm for multiple data streams based on spectral component similarity
Information Sciences: an International Journal
Extracting gene regulation information from microarray time-series data using hidden markov models
ISCIS'06 Proceedings of the 21st international conference on Computer and Information Sciences
Parametric spectral analysis of malaria gene expression time series data
CompLife'06 Proceedings of the Second international conference on Computational Life Sciences
A new method to mine gene regulation relationship information
FSKD'05 Proceedings of the Second international conference on Fuzzy Systems and Knowledge Discovery - Volume Part II
Efficient matching and retrieval of gene expression time series data based on spectral information
ICCSA'05 Proceedings of the 2005 international conference on Computational Science and Its Applications - Volume Part III
Hi-index | 3.84 |
Motivation: Microarray time-series data provides us a possible means for identification of transcriptional regulation relationships among genes. Currently, the most commonly used method in determining whether or not two genes have a potential regulatory relationship is to measure their expressional similarity using Pearson's correlation coefficient. Although this traditional correlation method has been successfully applied to find functionally correlated genes, it does have many limitations. In the hope of overcoming such circumstances and getting more insights into the transcriptional regulatory issue, we propose an autoregressive (AR)-based technique for detection of potential regulated gene pairs from time-series microarray measurements. Results: We use the well-known AR modeling technique to characterize temporal gene expression data from the Spellman's α-synchronized yeast cell-cycle experiment. In this method, time-series expression profiles are decomposed into spectral components and correlations between profiles are then computed in a component-wise sense. We show how these component-wise correlations reveal possible regulatory relationships. Our technique is applied on known transcriptional regulations and is able to identify many of those missed by the traditional correlation method.