From previous post (link below), I found what I did wrong in my experiment. Fortunately there was a publication using the same X-ray irradiator and I followed their settings, which includes 0.5mm aluminium filter. I was able to acheive >80% donor cell population after 6 weeks of irradiation. Although it is a huge improvement from ~20%, it is still not enough. And burns on the back of mice are still there. I guess the x-ray need more hardening, but my options are limited. I have 0.5mm and 1mm Al, and 0.1mm and 0,3mm Cu filters. The problem is that the irradiator can take only one filter at a time, while Thoraeus filter is made of tin, copper and aluminium. So now I am wondering which one I should use for the best result.
One more question, I may have made a mistake by building an animal cage for x-ray irradiation with 2mm acrylic. At that time I did not know that acrylics can interfere with the irradiation, but apparently it blocks x-ray in some way. What exact properties does acrylic have on x-ray?
https://www.researchgate.net/post/Is_skin_lesion_and_low_donor_cell_frequency_in_my_bone_marrow_transfer_model_normal