Question: Help wanted interpreting a pathway analysis table
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gravatar for barryfic
4.9 years ago by
barryfic0
barryfic0 wrote:

Help would be greatly appreciated, and probably very easy for someone with knowledge in the field of pathway analysis.

I am at a loss as to how to interpret a table of pathway analysis in a study I'm reading. http://journals.plos.org/plosone/article/figure?id=10.1371/journal.pone.0091006.t001 Does this mean the relative risk of Alzheimer's, Huntington's, and Parkinson's is increased or decreased, and to what extent? Thanks in advance.

ADD COMMENTlink modified 4.9 years ago by Steven Lakin1.5k • written 4.9 years ago by barryfic0
1
gravatar for Steven Lakin
4.9 years ago by
Steven Lakin1.5k
Fort Collins, CO, USA
Steven Lakin1.5k wrote:

They overexpressed this protein in transgenic mice, then did a comparison of the genes expressed in that overexpressed group vs. wild-type. They took the genes, classified them into known pathways, and what you're seeing in the table are the p-values associated with up-regulation (these pathways are more expressed in the transgenic mice than in WT).

You should interpret this as an implication that the overexpressed protein (PGC-1a) could be related to the gene expression/modulation of known Alzheimer's, Huntington's, and Parkinson's disease genes/gene pathways. It's an association, not relative risk; to get odds or relative risk, they would have to do a study in clinical cases.

ADD COMMENTlink written 4.9 years ago by Steven Lakin1.5k

Thanks so much. Modulation would not seem to imply whether it is an increase or decrease in the disease/gene pathway, only that it is relative to said pathway.

I hesitate to read much into this research as it pertains to humans, as murine models seem poor representatives of human PPAR activity.

Thanks again.

ADD REPLYlink written 4.9 years ago by barryfic0
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