Automatic extraction of reliable regions from multiple sequence alignments
2007
Improving Multiple Sequence Alignments
publication
Evidence: moderate
Author Information
Author(s): Timo Lassmann, Erik L. L. Sonnhammer
Primary Institution: Karolinska Institutet
Hypothesis
Can we extract reliable regions from multiple sequence alignments to improve accuracy?
Conclusion
The new method increases the fraction of correctly aligned residues by 25 to 100 percent compared to original alignments.
Supporting Evidence
- The method improves alignment accuracy by focusing on reliable regions.
- It can produce output alignments in various formats including Fasta and Clustal.
- The running time of the new method is significantly lower than traditional alignment methods.
Takeaway
This study shows a way to make better alignments of DNA or protein sequences by focusing on the most reliable parts.
Methodology
An algorithm was developed to extract similarly aligned regions from multiple alignments and create a new consensus alignment.
Limitations
The method may not be suitable for all types of alignments and requires careful consideration of the stringency parameter.
Digital Object Identifier (DOI)
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