Following a previous post on Multiple sequence alignment, celebration of the 20th anniversary of my first publication in the alignment field continues, with a new publication:
- Morrison DA, Morgan MJ, Kelchner SA (2015) Molecular homology and multiple sequence alignment: an analysis of concepts and practice. Australian Systematic Botany 28: 46-62.
This paper places sequence alignment within the larger picture of detecting homologies in molecular data, emphasizing the hierarchical nature of homologies. Surprisingly, this relationships has not been emphasized before. It also points out why nucleotide alignments are a unique form of homology assessment, even within this framework. Indeed, the only genotypic data are nucleotides, since everything else is an expression of the nucleotide sequences, rather than being inherited.
The article is Open Access.