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Title

Towards an efficient computational mining approach to identify EST-SSR markers

 

Authors

Jagajjit Sahu1, 2, Priyabrata Sen1, Manabendra Dutta Choudhury2, Madhumita Barooah1, Mahendra Kumar Modi1, Anupam Das Talukdar2*

 

Affiliation

1Department of Agricultural Biotechnology, AAU, Jorhat, Assam, India; 2Department of Life Science and Bioinformatics, Assam University, Silchar, Assam, India.

 

Email

anupam@bioinfoaus.ac.in; *Corresponding author

 

Article Type

Views & challenges

 

Date

Received February 09, 2012; Accepted February 11, 2012; Published February 28, 2012

Abstract

GMicrosatellites are the markers of choice due to their high abundance reproducibility, degree of polymorphism and co-dominant nature. These are mainly used for studying the genetic variability in different species and Marker assisted selection. Expressed Sequence Tags (ESTs) serve as the main resource for Simple Sequence Repeats (SSRs). The computational approach for detecting SSRs and developing SSR markers from EST-SSRs is preferred over the conventional methods as it reduces time and cost to a great extent. The available EST sequence databases, various web interfaces and standalone tools provide the platform for an easy analysis of the EST sequences leading to the development of potential EST-SSR Markers. This paper is an overview of in silico approach to develop SSR Markers from the EST sequence using some of the most efficient tools that are available freely for academic purpose.

 

Keywords

Bioinformatics, EST-SSR, in silico approach, Microsatellites, SSR Markers

Citation

Sahu et al. Bioinformation 8(4): 201-202 (2012)
 

Edited by

P Kangueane

 

ISSN

0973-2063

 

Publisher

Biomedical Informatics

 

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.