title: ProfDistS: (profile-) distance based phylogeny on sequence--structure alignments.
abstract: BACKGROUND
  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.
  
  
  RESULTS
  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.
authors: Department of Bioinformatics, Biocenter, University of Würzburg, Am Hubland, 97074 Würzburg, Germany. matthias.wolf@biozentrum.uni-wuerzburg.de
authors: Matthias
authors: M
authors: Wolf
authors: Benjamin
authors: B
authors: Ruderisch
authors: Thomas
authors: T
authors: Dandekar
authors: Jörg
authors: J
authors: Schultz
authors: Tobias
authors: T
authors: Müller
mesh_terms: D000465:Algorithms; D010802:Phylogeny; D012313:RNA / Q000737:chemistry*; D016415:Sequence Alignment; D017423:Sequence Analysis, RNA / Q000379:methods*; D012984:Software
chemical_list: D012313:RNA