Question: Null hypothesis (significance) of synteny/collinear block
gravatar for S
5.3 years ago by
United States
S90 wrote:


I have a number of synteny blocks from two genomes comparison and I would like to conduct some kind of a statistical test on how each block is significant as opposed to being there by chance. 

Now, if this was the only case, I can perform a permutation test on how likely to get x number of genes from one genome as a group of homologs with respect to the other genome, right? However, the synteny from each genome could contain some few genes that are not homologous, and I am not sure how to incorporate these into the test? I don't think that the test is valid if I will ignore these non homologous genes and consider only homologous genes.

I hope my question is clear (if not please let me know) and I am looking forward to any suggestions or ideas in approaching this.

Thanks in advance.

synteny null hypothesis • 1.2k views
ADD COMMENTlink modified 12 months ago by Biostar ♦♦ 20 • written 5.3 years ago by S90
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1916 users visited in the last hour