Alterations of multiple oncogenic signaling pathways are enriched
in HLA-I LOH patients
We further analyzed the alteration frequencies of DDR pathways and 10
canonical oncogenic signaling pathways in advanced pan-cancer cohort. A
signaling pathway was considered as altered if one or more genes in this
pathway have non-synonymous mutations (Sanchez-Vega et al., 2018). The
alteration frequencies of CPF pathway, FA pathway, p53 pathway, RTK/RAS
pathway, Notch pathway, Hippo pathway and Nrf2 pathway in the HLA-I LOH
group were significantly higher than that in HLA-I stable group
(p<0.0001, p=0.023, p<0.0001, p<0.0001,
p=0.032, p=0.013, p=0.003, respectively). Among these signaling
pathways, the CPF pathway, p53 pathway and RTK/RAS pathway were most
frequently mutated in the study cohort, in which the differences between
the HLA-I LOH group and HLA-I group were the most significant (Fig.4A,
Fig.4B). Consistent result was obtained in the NSCLC cohort, where the
most frequently altered pathways had the most significant differences
between groups (p53 pathway in LUSC and RTK/RAS pathway in Non-SqCC
NSCLC, Supplementary Figure 4A, Supplementary Figure 4B).