Skip Navigation

This Article
Right arrow FREE Full Text (Print PDF) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in ISI Web of Science
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Search for citing articles in:
ISI Web of Science (20)
Right arrowRequest Permissions
Google Scholar
Right arrow Articles by Eckman, B. A.
Right arrow Articles by Blevins, R. A.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Eckman, B. A.
Right arrow Articles by Blevins, R. A.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

Bioinformatics, Vol 14, 2-13, Copyright © 1998 by Oxford University Press

ARTICLES

The Merck Gene Index browser: an extensible data integration system for gene finding, gene characterization and EST data mining

BA Eckman, JS Aaronson, JA Borkowski, WJ Bailey, KO Elliston, AR Williamson and RA Blevins
Department of Bioinformatics, Merck Research Laboratories, West Point, PA, USA. barbara_eckman@sbphrd.com

MOTIVATION: To make effective use of the vast amounts of expressed sequence tag (EST) sequence data generated by the Merck-sponsored EST project and other similar efforts, sequences must be organized into gene classes, and scientists must be able to 'mine' the gene class data in the context of related genomic data. RESULTS: This paper presents the Merck Gene Index browser, an easily extensible, World Wide Web- based system for mining the Merck Gene Index (MGI) and related genomic data. The MGI is a non-redundant set of clones and sequences, each representing a distinct gene, constructed from all high-quality 3' EST sequences generated by the Merck-sponsored EST project. The MGI browser integrates data from a variety of sources and storage formats, both local and remote, using an eclectic integration strategy, including a federation of relational databases, a local data warehouse and simple hypertext links. Data currently integrated include: LENS cDNA clone and EST data, dbEST protein and non-EST nucleic acid similarity data, WashU sequence chromatograms. Entrez sequence and Medline entries, and UniGene gene clusters. Flatfile sequence data are accessed using the Bioapps server, an internally developed client-server system that supports generic sequence analysis applications. Browser data are retrieved and formatted by means of the Bioinformatics Data Integration Toolkit (B-DIT), a new suite of Perl routines.
Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Genome ResHome page
I. Abdrakhmanov, D. Lodygin, P. Geroth, H. Arakawa, A. Law, J. Plachy, B. Korn, and J.-M. Buerstedde
A Large Database of Chicken Bursal ESTs as a Resource for the Analysis of Vertebrate Gene Function
Genome Res., December 1, 2000; 10(12): 2062 - 2069.
[Abstract] [Full Text]

Home page
 Genome ResHome page
J. Burke, D. Davison, and W. Hide
d2_cluster: A Validated Method for Clustering EST and Full-Length cDNA Sequences
Genome Res., November 1, 1999; 9(11): 1135 - 1142.
[Abstract] [Full Text]

Home page
 ScienceHome page
P. Deloukas, G. D. Schuler, G. Gyapay, E. M. Beasley, C. Soderlund, P. Rodriguez-Tomé, L. Hui, T. C. Matise, K. B. McKusick, J. S. Beckmann, et al.
A Physical Map of 30,000 Human Genes
Science, October 23, 1998; 282(5389): 744 - 746.
[Abstract] [Full Text]


Disclaimer:
Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.