Now being puzzled by a (maybe stupid) question. Any comments or suggestions would be appreciated.
A certain drug treatment on my cultured cells induces highly upregulated expresion of the APOBEC deaminase protein family. I would like to know whether this upregulation will lead to enhanced deamination targeting the cells' genome.
Since the deamination by APOBEC deaminase (inducing a C to T mutation) is expected in a random manner distributed within the whole genome, and with a relatively low frequency, so how to distinguish a real deamination from the common sequencing error (>0.1%, could be even much higher than the deamination mutation rate). I just feel it somehow a mission impossible.
I hope I explained the question well and thanks a lot for your help in advance!
A certain drug treatment on my cultured cells induces highly upregulated expresion of the APOBEC deaminase protein family. I would like to know whether this upregulation will lead to enhanced deamination targeting the cells' genome.
Since the deamination by APOBEC deaminase (inducing a C to T mutation) is expected in a random manner distributed within the whole genome, and with a relatively low frequency, so how to distinguish a real deamination from the common sequencing error (>0.1%, could be even much higher than the deamination mutation rate). I just feel it somehow a mission impossible.
I hope I explained the question well and thanks a lot for your help in advance!
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