High tissue specificity of lncRNAs maximises the prediction of tissue of origin of circulating DNA.

ABSTRACT: Several studies have made it possible to envision a translational application of plasma DNA sequencing in cancer diagnosis and monitoring. However, the extremely low concentration of circulating tumour DNA (ctDNA) fragments among the total cell-free DNA (cfDNA) remains a formidable challenge to overcome and statistical models have yet to be improved enough to become of practical use. In this study, we set about appraising the predictive value of a variety of binary classification models based on cfDNA sequencing using fragmentation features extracted around transcription start sites (TSSs). We investigated (1) features summarising mapped fragment density around each TSS, (2) long non-coding RNA (lncRNA) genes versus coding genes and (3) selection criteria to generate gene classes to be ass

SUBMITTER: Mouhou E 

PROVIDER: S-EPMC12000428 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature