Closed alexvpickering closed 5 years ago
This came up working with SJIA data where
1) There are a small subset of genes regulated in the same direction across multiple studies.
2) The direction of regulation of some of the genes in (1) are desirable (e.g. an IFNy negative feedback regulator).
For these situations, I think the easiest solution is to just allow the input of two sets of genes: genes to downregulate and genes to upregulate.
To start I plan to order drug/genetics perts by decreasing average effect size (multiplied by -1 for genes to downregulate).
This came up working with SJIA data where
1) There are a small subset of genes regulated in the same direction across multiple studies.
2) The direction of regulation of some of the genes in (1) are desirable (e.g. an IFNy negative feedback regulator).
For these situations, I think the easiest solution is to just allow the input of two sets of genes: genes to downregulate and genes to upregulate.
To start I plan to order drug/genetics perts by decreasing average effect size (multiplied by -1 for genes to downregulate).