ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments.
other · Level V
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- Record sourced from PubMed, PMID 18723521.
- Also identified by DOI 10.1093/bioinformatics/btn453.
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Abstract
The Profile Neighbor Joining (PNJ) algorithm as implemented in the software ProfDist is computationally efficient in reconstructing very large trees. Besides the huge amount of sequence data the structure is important in RNA alignment analysis and phylogenetic reconstruction. For this ProfDistS provides a phylogenetic workflow that uses individual RNA secondary structures in reconstructing phylogenies based on sequence-structure alignments-using PNJ with manual or iterative and automatic profile definition. Moreover, ProfDistS can deal also with protein sequences.
Medical subject headings
- Algorithms
- Phylogeny
- RNA
- Sequence Alignment
- Sequence Analysis, RNA