toward a gene panel for psychiatric violence

I recently developed a method for specifying a comprehensive gene list for investigating genes related to psychiatric violence, which I describe below. First though, here’s a cool picture from the analysis:

Method

I started by extracting a list of diseases involving violence from [1], removing epilepsy, dementia, mental retardation (is there a better word for this?), and Alzheimer’s disease. Also removed sexual sadism from the list as one might debate whether or not this qualifies as “disease”. I then matched those diseases by name–more accurately by components within each name–to diseases contained in DisGeNET [2] to determine genes associated with those diseases. Next, I built a network graph of the genes where an edge between two genes indicates one or more diseases in common. A tractable subset of this graph is pictured above for demonstration. Finally, I computed the size of the ego graph for each gene (node) and ranked them, as listed below. Greater ego network size indicates greater probable biological importance vis-a-vis psychiatric diseases having violence as a symptom.

I posted my code used for this analysis at [3].

References

  1. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2686644/
  2. http://www.disgenet.org
  3. https://github.com/whole-systems-enterprises/blog/tree/master/adoption_study/genetics

Results

Here is a portion of the gene list I put together:

Ego Network Size NCBI Gene Symbol NCBI Gene ID
1729008 NR3C1 2908
1723895 GRN 2896
1723751 PBRM1 55193
1721624 DAOA-AS1 282706
1721482 OPRM1 4988
1721103 LINC00273 649159
1720930 TDO2 6999
1720404 MTHFR 4524
. . . . . . . . .

Post Author: badassdatascience

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