Cart (Loading....) | Create Account
Close category search window

A computational approach to reconstructing gene regulatory networks

Sign In

Cookies must be enabled to login.After enabling cookies , please use refresh or reload or ctrl+f5 on the browser for the login options.

The purchase and pricing options are temporarily unavailable. Please try again later.
2 Author(s)
Xutao Deng ; Dept. of Comput. Sci., Nebraska Univ., Omaha, NE, USA ; Ali, H.

With the rapid accumulation of gene expression data in publicly accessible databases, computational study of gene regulation has become an obtainable goal Intrinsic to this task will be data mining tools for inferring knowledge from biological data. In this project, we have developed a new data mining technique in which we adapt the connectivity of a recurrent neural network model by indexing regulatory elements and including nonlinear interaction terms. The new technique reduces the number of parameters by O(n), therefore increasing the chance of recovering the underlying regulatory network. In order to fit the model from data, we have developed a genetic fitting algorithm with O(n) time complexity and that adapts the connectivity during the fitting process until a satisfactory fit is obtained. We have implemented this fitting algorithm and applied it to two data sets: rat central nervous system development (CNS) data with 112 genes, and yeast whole genome data with 2467 genes. With multiple runs of the fitting algorithm, we were able to efficiently generate a statistical pattern of the model parameters from the data. Because of its adaptive features, this method will be especially useful for reconstructing coarse-grained gene regulatory network from large scale or genome scale gene expression data sets.

Published in:

Bioinformatics Conference, 2003. CSB 2003. Proceedings of the 2003 IEEE

Date of Conference:

11-14 Aug. 2003

Need Help?

IEEE Advancing Technology for Humanity About IEEE Xplore | Contact | Help | Terms of Use | Nondiscrimination Policy | Site Map | Privacy & Opting Out of Cookies

A not-for-profit organization, IEEE is the world's largest professional association for the advancement of technology.
© Copyright 2014 IEEE - All rights reserved. Use of this web site signifies your agreement to the terms and conditions.