Dear all,

I am using ebioscience ic fix and perm buffers for the detection of intracellular cytokines. 

I want to sort these cytokine producing cells and extract genomic DNA from them.

Cell numbers will be low around 10,000 cells . (Tcells)

I have used half a million cells (PBMCs) to optimize using kits from zymoresearch d3021 and Qiagen DNAeasy.

So far the DNA quality is very poor as measured by nanodrop and possibly fragmented not suitable for downstream analyses.

It seems to me that these kits are not compatible with fixation and permeabilization.

Phenol based extraction may be hard due to low cell numbers (10,000 or less) not being compatible with ethanol precipitation.

Would appreciate your help.

Monera