RSMD-repeat searcher and motif detector
Udayakumar Mani1, Vaidhyanathan Mahaganapathy1, Sadhana Ravisankar1
1Department of Bioinformatics, School of Chemical and Biotechnology, SASTRA University, Thanjavur, Tamil Nadu 613401, India.
Journal of Biomedical Research
|October 22, 2014
Summary
A new toolkit, Repeat Searcher and Motif Detector (RSMD), aids in identifying gene repeats and motifs. This tool helps understand their role in protein function and disease causation.
Area of Science:
- Genomics
- Proteomics
- Bioinformatics
Background:
- Gene and protein functionality is influenced by codon repeats.
- These repeats are crucial for protein function and implicated in diseases.
- Identifying sequence repeats necessitates computational and informatics support.
Purpose of the Study:
- To introduce the Repeat Searcher and Motif Detector (RSMD) toolkit.
- To present novel approaches for identifying sequence repeats and motifs.
- To analyze the functional and disease-related aspects of these sequences.
Main Methods:
- Development of an offline, stand-alone toolkit named RSMD.
- Implementation of novel algorithms for repeat and motif identification.
- Design of a user-friendly graphical user interface (GUI) using Perl and PerlTK.
Main Results:
- RSMD effectively identifies sequence motifs and repeats.
- The toolkit can identify disease-associated repeats.
- RSMD provides insights into the functional significance of repeats at the sequence level.
Conclusions:
- RSMD offers a valuable tool for life science researchers.
- The toolkit facilitates the study of sequence repeats and their link to diseases.
- RSMD integrates computational biology theory with practical application.
