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Using SCOPE to Identify Potential Regulatory Motifs in Coregulated Genes
Published on: May 31, 2011
An exact algorithm to identify motifs in orthologous sequences from multiple species
M Blanchette1, B Schwikowski, M Tompa
1Department of Computer Science and Engineering, University of Washington, Seattle 98195-2350, USA. blanchem@cs.washington.edu
Proceedings. International Conference on Intelligent Systems for Molecular Biology
|September 8, 2000
Summary
This study introduces an exact algorithm to identify conserved sequence motifs in orthologous genes across species. The method aids in discovering biologically functional regions like gene promoters.
Area of Science:
- Bioinformatics
- Computational Biology
- Genomics
Background:
- Identifying sequence motifs is crucial for pinpointing functional genomic regions.
- Conserved motifs across species suggest biological importance.
Purpose of the Study:
- To develop and present an exact algorithm for identifying conserved sequence motifs.
- To apply this algorithm to find functional regions in real biological data.
Main Methods:
- Utilized a parsimony measure to assess motif conservation.
- Developed an exact algorithmic approach for motif identification.
- Applied the algorithm to orthologous sequences from multiple species.
Main Results:
- Successfully identified conserved motifs using the developed algorithm.
- Demonstrated effectiveness in finding gene promoters (rbcS, adh) and chloroplast genes.
- Experimental results validated the algorithm's capability.
Conclusions:
- The presented exact algorithm is effective for identifying conserved sequence motifs.
- This approach aids in the discovery of functionally important genomic elements across species.
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