Are DEMETER2 suitable for screening without repliated siRNAs?

Q&A
,
1

Hi,
we had performed genome-wide sceening. But each gene only have one siRNA. Can we use DEMETR2 to remove the off-targeting effects?

Thanks!

2

Hi Yajing,
I’ve never tested DEMETER2 in that scenario. If you have screened many cell lines with this library I think it’s possible you could remove some of the seed-sequence effects with this sort of model. However, I think you’d need to be very careful to interpret the output. I’d probably advise using a simpler analysis approach as I haven’t tested DEMETER2 in that regime and it may not work at all without further modification.
Hope that helps,
James