CNAs in PTNFL. (A) CNAs in PTNFL and LSTFL. Copy number gains (blue) and copy number losses (red) for each of the PTNFLs (n = 17) and LSTFLs (n = 11) assessed with the MIP assay (bottom). Copy number gains and losses are superimposed to show aggregate CNAs for each cohort (top). There were fewer copy number changes in PTNFL vs LSTFL (P < .0001). (B) Percent genome altered by copy number in each case. A greater percentage of the genome was altered by CNAs for LSTFLs in comparison with PTNFLs (P < .05). (C) CN-LOH at chromosome 1p36 in PTNFL vs LSTFL. Foci of CN-LOH (yellow bars) overlapped the TNFRSF14 locus (black line). Each of the 3 LSTFLs and 2 PTNFLs with CN-LOH also harbored a mutation in TNFRSF14. Two additional LSTFLs (red bars) had copy number loss at this locus.