NDLI: SEQOPTICS: A Protein Sequence Clustering Method

Content Provider	IEEE Xplore Digital Library
Author	Younghui Chen Reilly, K.D. Sprague, A.P. Zhijie Guan
Copyright Year	2006
Description	Author affiliation: Dept. of Comput. & Inf. Sci., Alabama Univ., Birmingham, AL (Younghui Chen; Reilly, K.D.; Sprague, A.P.)
Abstract	Protein sequence clustering has been widely used as a part of the analysis of protein structure and function. In most cases single link or graph-based clustering algorithms have been applied. In this paper, we demonstrate an approach of clustering proteins, SEQOPTICS (sequence clustering with OPTICS), which is based on OPTICS (ordering points to identify the clustering structure), an attractive approach due to its emphasis on visualization of results and support for interactive work, e.g., in choosing parameters. OPTICS has not been used, as far as we know, for protein sequence clustering. We have implemented a system with OPTICS at its core to perform protein sequence clustering. In this paper, we test SEQOPTICS with four data sets from different data sources. Visualization of the sequence clustering structure is demonstrated. Our system was evaluated by comparison with other existing methods. Analysis of the results demonstrates that our system perform better by the Jaccard coefficient evaluation criterion
Sponsorship	STEMES/IMSCCS Conference, USA The University of Iowa, USA Zhejing Univ., China Harbin Eng. Univ., China
Starting Page	69
Ending Page	75
File Size	343277
Page Count	7
File Format	PDF
ISBN	0769525814
DOI	10.1109/IMSCCS.2006.123
Language	English
Publisher	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Publisher Date	2006-06-20
Publisher Place	China
Access Restriction	Subscribed
Rights Holder	Institute of Electrical and Electronics Engineers, Inc. (IEEE)
Subject Keyword	Performance evaluation Biomedical optical imaging Databases Clustering methods Clustering algorithms Data visualization Protein sequence Performance analysis Information analysis Testing
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
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9	IDR Setup or Support	Queries related to establishment and support of Institutional Digital Repository (IDR) and IDR workshops	idr@ndl.gov.in

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