Stability of ABC-Transporter Protein Alignments and Phylogenetic Trees
Author Information
Author(s): Wagner Holger, Morgenstern Burkhard, Dress Andreas
Primary Institution: Bielefeld University
Hypothesis
How do different alignment methods affect the stability of phylogenetic trees for ABC transporter proteins?
Conclusion
The study found that using specific alignment options can improve the stability of phylogenetic trees derived from ABC transporter sequences.
Supporting Evidence
- Instabilities in phylogenetic trees were linked to the underlying alignment methods used.
- New options in DIALIGN improved alignment stability for sequences with repeats.
- CLUSTAL W produced less stable alignments compared to DIALIGN for the same sequences.
Takeaway
Scientists looked at how well different computer programs can line up DNA sequences and found that some methods work better than others, especially when the sequences have repeated parts.
Methodology
The study compared alignments and phylogenetic trees generated by CLUSTAL W and DIALIGN for a set of ABC transporter sequences.
Potential Biases
Potential biases may arise from the choice of alignment methods and the scoring functions used.
Limitations
The study focused only on a small set of ABC transporters, which may not represent all cases.
Statistical Information
P-Value
p<0.05
Statistical Significance
p<0.05
Digital Object Identifier (DOI)
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