Predicting Host-Pathogen Gene Interaction Networks
1
1
Entering edit mode
10.8 years ago
a1ultima ▴ 850

Background

What we have are:

  • ~20 genome sequences for a host species that come with gene annotations
  • Several sequenced genomes for parasite/pathogens of these hosts

Question

What are the possible ways of predicting gene-to-gene interactions or gene regulatory networks between hosts and parasites?

genomics interaction network • 3.0k views
ADD COMMENT
1
Entering edit mode

Are your "genomes" actually transcriptomes, or are they truly DNA?

ADD REPLY
0
Entering edit mode

They are fully assembled genomes, coding and non coding dna

ADD REPLY
1
Entering edit mode
10.8 years ago

Gene/gene interactions and gene regulatory networks are largely inferred from gene expression profiling; I do not know of a way to do that from DNA. You may be able to infer some functionality based on DNA sequence and perhaps even about gene-gene interactions based on interactions in other species, but I don't think that is what you are asking.

ADD COMMENT
1
Entering edit mode

Do you have some methods in mind on how to infer gene/gene interactions from gene expression profiling? I have a co-culture system and expression profiling had been done. Now I want to do similar work, thanks!

ADD REPLY

Login before adding your answer.

Traffic: 1702 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6