A development of allele specific analysis QuASAR (quantitative allele-specific analysis of reads)(https://github.com/piquelab/QuASAR). QuASAR-MPRA analyzes allele specific signals in barcoded read counts data from MPRAs. It accounts for the uncertainty on the original plasmid proportions, over-dispersion, and sequencing errors.
Genetics, Statistics and probability, Sequencing, Genotyping experiment, RNA, RNA-seq
Kalita CA, Moyerbrailean GA, Brown C, Wen X, Luca F, Pique-Regi R "QuASAR-MPRA: accurate allele-specific analysis for massively parallel reporter assays." Bioinformatics 2018; 34(5):787-794 https://doi.org/10.1093/bioinformatics/btx598
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