from each other; for DNA-RNA matches, the cutoff was 25%. We verified RNA-DNA matching within samples. Finally, we predicted gender for each sample based on the fraction of total reads aligning to the Y chromosome; if the log(fraction) was ≤ −7.4, the sample was called female, otherwise male. This called gender was evaluated to ensure it matched the reported gender from the corresponding brain bank manifest. By this process, we identified one sample mix-up (wrong sample sent for RNA-seq), and three samples were likely contaminated with other samples (high degree of genotype matching). These four samples were removed.
