Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence
Joint Authors
Khan, Abhinandan
Mandal, Sudip
Pal, Rajat Kumar
Saha, Goutam
Source
Issue
Vol. 2016, Issue 2016 (31 Dec. 2016), pp.1-14, 14 p.
Publisher
Hindawi Publishing Corporation
Publication Date
2016-05-19
Country of Publication
Egypt
No. of Pages
14
Main Subjects
Abstract EN
We have proposed a methodology for the reverse engineering of biologically plausible gene regulatory networks from temporal genetic expression data.
We have used established information and the fundamental mathematical theory for this purpose.
We have employed the Recurrent Neural Network formalism to extract the underlying dynamics present in the time series expression data accurately.
We have introduced a new hybrid swarm intelligence framework for the accurate training of the model parameters.
The proposed methodology has been first applied to a small artificial network, and the results obtained suggest that it can produce the best results available in the contemporary literature, to the best of our knowledge.
Subsequently, we have implemented our proposed framework on experimental (in vivo) datasets.
Finally, we have investigated two medium sized genetic networks (in silico) extracted from GeneNetWeaver, to understand how the proposed algorithm scales up with network size.
Additionally, we have implemented our proposed algorithm with half the number of time points.
The results indicate that a reduction of 50% in the number of time points does not have an effect on the accuracy of the proposed methodology significantly, with a maximum of just over 15% deterioration in the worst case.
American Psychological Association (APA)
Khan, Abhinandan& Mandal, Sudip& Pal, Rajat Kumar& Saha, Goutam. 2016. Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence. Scientifica،Vol. 2016, no. 2016, pp.1-14.
https://search.emarefa.net/detail/BIM-1117518
Modern Language Association (MLA)
Khan, Abhinandan…[et al.]. Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence. Scientifica No. 2016 (2016), pp.1-14.
https://search.emarefa.net/detail/BIM-1117518
American Medical Association (AMA)
Khan, Abhinandan& Mandal, Sudip& Pal, Rajat Kumar& Saha, Goutam. Construction of Gene Regulatory Networks Using Recurrent Neural Networks and Swarm Intelligence. Scientifica. 2016. Vol. 2016, no. 2016, pp.1-14.
https://search.emarefa.net/detail/BIM-1117518
Data Type
Journal Articles
Language
English
Notes
Includes bibliographical references
Record ID
BIM-1117518