Statistical analyses were also conducted to assess associations between variants and tumor subtypes.<h4>Results</h4>Our study identified a total of 17 variants across <i>GTF2I</i>, <i>TP53</i>, and <i>NOTCH1</i>, in which the c.1271T>A variant in the <i>GTF2I</i> hotspot, predicted to be deleterious, was identified in 14.1% of indolent thymomas and showed a significant association with this subtype group (odds ratio: 0.048, adjusted <i>p</i>-value = 0.014). Here, TP53 is linked to neoplasm.