Title

Classification of DNA sequences based on thermal melting profiles

Authors

Edward Reese¹, V. V. Krishnan^{1,2,3, *}

Affiliation

¹Department of Chemistry, California State University Fresno, Fresno CA 93740; ²Department of Pathology & Laboratory Medicine, University of California Davis Medical Center, Sacramento, CA 95837 ; ³Department of Applied Science, University of California, Davis, CA, 95616.

Email

vvkrishnan@ucdavis.edu.

Article Type

Hypothesis

Date

Received December 03, 2009; accepted December 13, 2009; published April 30, 2010

Abstract

A classification scheme based on the melting profile of DNA sequences simulated thermal melting profiles. This method was applied in the classification of (a) several species of mammalian - β globin and (b) α-chain class II MHC genes. Comparison of the thermal melting profile with the molecular phylogenetic trees constructed using the sequences shows that the melting temperature based approach is able to reproduce most of the major features of the sequence based evolutionary tree. Melting profile method takes into account the inherent structure and dynamics of the DNA molecule, does not require sequence alignment prior to tree construction, and provides a means to verify the results experimentally. Therefore our results show that melting profile based classification of DNA sequences could be a useful tool for sequence analysis.
 

Keywords

DNA, hybridization, melting profiles, classification.

Citation

Reese et al. Bioinformation 4(10): 000-000 (2010)

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.