NDLI: A Genetic Algorithms Approach to Non-coding RNA Gene Searches

Content Provider	IEEE Xplore Digital Library
Author	Smith, S.F.
Copyright Year	2006
Description	Author affiliation: Dept. of Electr. & Comput. Eng., Boise State Univ. (Smith, S.F.)
Abstract	A genetic algorithm is proposed as an alternative to the traditional linear programming method for scoring covariance models in non-coding RNA (ncRNA) gene searches. The standard method is guaranteed to find the best score, but it is too slow for general use. The observation that most of the search space investigated by the linear programming method does not even remotely resemble any observed sequence in real sequence data can be used to motivate the use of genetic algorithms (GAs) to quickly reject regions of the search space. A search space with many local minima makes gradient decent an unattractive alternative. It is shown that a fixed-length representation for alignment of two sequences taken from the protein threading literature can be adapted for use with covariance models
Starting Page	48
Ending Page	53
File Size	7372922
Page Count	6
File Format	PDF
ISBN	1424401666
DOI	10.1109/SMCALS.2006.250691
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2006-07-24
Publisher Place	USA
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Genetic algorithms RNA Sequences Hidden Markov models Databases Proteins Linear programming DNA Binary trees Upper bound
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

A Genetic Algorithms Approach to Non-coding RNA Gene Searches