Content deleted Content added
→Short-read sequence alignment: new section |
→Alternative interpretations of MSAs: new section |
||
Line 51:
Given the specific technological and algorithmic and biological significance of [[short-read sequence alignment]], I think this topic deserves its own page. For example, the differences between short read mapping and de-novo assembly in [[next-generation sequencing]] projects could be discussed on such a page. --[[User:dmb000006|Dan]]|<sup>[[User_talk:Dmb000006|(talk)]]</sup> 14:01, 22 January 2009 (UTC)
== Alternative interpretations of MSAs ==
The main use/interpretation of columns in MSAs is that residues in the same column are "related" by either point substitutions or no substitutions at all.
However, there are applications of MSAs where residues in the same column are assumed to be "structurally" equivalent but not necessarily evolutionarily equivalent e.g. http://www.ncbi.nlm.nih.gov/pubmed/16733545 - indeed in some of these applications the aim is to avoid including "homologous" sequences in the alignment e.g. http://www.ncbi.nlm.nih.gov/pubmed/9920390
At the moment this distinction isn't made on the MSA wikipedia page - although the top of the [[sequence alignment]] wikipedia page does highlight different interpretations.
First wikipedia post ever here - not quite ready to be bold yet! - so wanted to ask/check whether anyone disagrees with introducing some changes to reflect this distinction to the MSA page?
[[User:SiggyDood|SiggyDood]] ([[User talk:SiggyDood|talk]]) 12:45, 11 March 2009 (UTC)
| |||