NDLI: Gene regulatory network model identification using artificial bee colony and swarm intelligence

Content Provider	IEEE Xplore Digital Library
Author	Forghany, Z. Davarynejad, M. Snaar-Jagalska, B.E.
Copyright Year	2012
Description	Author affiliation: Gorlaeus Laboratory, Institute of Biology, Leiden University, The Netherlands (Forghany, Z.; Snaar-Jagalska, B.E.) \|\| Systems Engineering Section, Faculty of Technology, Policy and Management, Delft University of Technology, The Netherlands (Davarynejad, M.)
Abstract	Gene association/interaction networks have complex structures that provide a better understanding of mechanisms at the molecular level that govern essential processes inside the cell. The interaction mechanisms are conventionally modeled by nonlinear dynamic systems of coupled differential equations (S-systems) adhering to the power-law formalism. Our implementation adopts an S-system that is rich enough in structure to capture the dynamics of the gene regulatory networks (GRN) of interest. A comparison of three widely used population-based techniques, namely evolutionary algorithms (EAs), local best particle swarm optimization (PSO) with random topology, and artificial bee colony (ABC) are performed in this study to rapidly identify a solution to inverse problem of GRN reconstruction for understanding the dynamics of the underlying system. A simple yet effective modification of the ABC algorithm, shortly ABC* is proposed as well and tested on the GRN problem. Simulation results on two small-size and a medium size hypothetical gene regulatory networks confirms that the proposed ABC* is superior to all other search schemes studied here.
Starting Page	1
Ending Page	6
File Size	897700
Page Count	6
File Format	PDF
ISBN	9781467315104
e-ISBN	9781467315098
e-ISBN	9781467315081
DOI	10.1109/CEC.2012.6256461
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2012-06-10
Publisher Place	Australia
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Mathematical model Topology Particle swarm optimization Genetics Computer architecture Optimization
Content Type	Text
Resource Type	Article

Sl.	Authority	Responsibilities	Communication Details
1	Ministry of Education (GoI), Department of Higher Education	Sanctioning Authority	https://www.education.gov.in/ict-initiatives
2	Indian Institute of Technology Kharagpur	Host Institute of the Project: The host institute of the project is responsible for providing infrastructure support and hosting the project	https://www.iitkgp.ac.in
3	National Digital Library of India Office, Indian Institute of Technology Kharagpur	The administrative and infrastructural headquarters of the project	Dr. B. Sutradhar bsutra@ndl.gov.in
4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
5	Website/Portal (Helpdesk)	Queries regarding NDLI and its services	support@ndl.gov.in
6	Contents and Copyright Issues	Queries related to content curation and copyright issues	content@ndl.gov.in
7	National Digital Library of India Club (NDLI Club)	Queries related to NDLI Club formation, support, user awareness program, seminar/symposium, collaboration, social media, promotion, and outreach	clubsupport@ndl.gov.in
8	Digital Preservation Centre (DPC)	Assistance with digitizing and archiving copyright-free printed books	dpc@ndl.gov.in
9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in