I am going to do allele specific expression analysis onto human genome. Previously I had done ASE on mouse genome successfully as the SNP data of the mouse strains were available and parental genomes were created using that. But in human's case that's not possible. So i'm not sure how to go about it. For the human cell line I have SNP0.6 Array CEL file and feature intensity info csv file as well as the RNA seq data of the human cell line. Does anyone has any idea how to do allele specific analysis for human genomes?
Thanks in advance Susmita