References
- 1. . Clonal Heterogeneity and Tumor Evolution: Past, Present, and the Future. Cell 168(4), 613–628 (2017).
- 2. Liquid Biopsy for Advanced NSCLC: A Consensus Statement From the International Association for the Study of Lung Cancer. J. Thorac. Oncol. 16(10), 1647–1662 (2021).
- 3. Clinical Potential of Circulating Cell-Free DNA (cfDNA) for Longitudinally Monitoring Clinical Outcomes in the First-Line Setting of Non-Small-Cell Lung Cancer (NSCLC): A Real-World Prospective Study. Cancers (Basel) 14(23), 6013 (2022).
- 4. The molecular profiling of solid tumors by liquid biopsy: a position paper of the AIOM–SIAPEC-IAP–SIBioC–SIC–SIF Italian Scientific Societies. ESMO Open 6(3), 100164 (2021).
- 5. Detection of circulating tumor DNA in early- and late-stage human malignancies. Sci. Transl. Med. 6(224), 224ra24 (2014).
- 6. Prognostic value of plasma circulating tumor DNA fraction across four common cancer types: a real-world outcomes study. Ann. Oncol. 34(1), 111–120 (2023).
- 7. . Methods for genome-wide DNA methylation analysis in human cancer. Brief. Funct. Genomics 15(6), 432–442 (2016).
- 8. . Methylation of cell-free circulating DNA in the diagnosis of cancer. Front. Mol. Biosci. 2, 13 (2015).
- 9. . Epi proColon® 2.0 CE: A Blood-Based Screening Test for Colorectal Cancer. Mol. Diagnosis Ther. 2, 225–232 (2017).
- 10. Navigating the liquid biopsy Minimal Residual Disease (MRD) in non-small cell lung cancer: making the invisible visible. Crit. Rev. Oncol. Hematol. 182, 103899 (2023).
- 11. Identifying recurrent mutations in cancer reveals widespread lineage diversity and mutational specificity. Nat. Biotechnol. (2), 155–63 (2016).
- 12. DNA Methylation Cancer Biomarkers: Translation to the Clinic. Front. Genet. 10, 1150 (2019).
- 13. Noninvasive detection of cancer-associated genomewide hypomethylation and copy number aberrations by plasma DNA bisulfite sequencing. Proc. Natl Acad. Sci. USA 110(47), 18761–18768 (2013).
- 14. . Identification of methylation haplotype blocks AIDS in deconvolution of heterogeneous tissue samples and tumor tissue-of-origin mapping from plasma DNA. Nat. Genet. 49, 635–642 (2017).
- 15. Whole genome bisulfite sequencing of cell-free DNA and its cellular contributors uncovers placenta hypomethylated domains. Genome Biol. 16(1), 78 (2015).
- 16. Sensitive and specific multi-cancer detection and localization using methylation signatures in cell-free DNA. Ann. Oncol. 6, 745–759 (2020).
- 17. Clinical validation of a targeted methylation-based multi-cancer early detection test using an independent validation set. Ann. Oncol. 9, 1167–1177 (2021).
- 18. . DNA methylation in cancer and aging. Cancer Res. 76(12), 3446–50 (2016).
- 19. . Comparative analysis of 12 different kits for bisulfite conversion of circulating cell-free DNA. Epigenetics 12(8), 626–636 (2017).
- 20. . Degradation of DNA by bisulfite treatment. Bioorganic Med. Chem. Lett. 17(7), 1912–5 (2007).
- 21. cfDNA methylome profiling for detection and subtyping of small cell lung cancers. Nat. Cancer 3, 1260–1270 (2022).
- 22. Enhanced detection of circulating tumor DNA by fragment size analysis. Sci. Transl. Med. 10(466), eaat4921 (2018).
- 23. Genome-wide cell-free DNA fragmentation in patients with cancer. Nature 570, 385–389 (2019).
- 24. . Non-random fragmentation patterns in circulating cell-free DNA reflect epigenetic regulation. BMC Genomics 16(Suppl. 13), S1 (2015).
- 25. Cell-Free DNA Fragmentomics: A Promising Biomarker for Diagnosis, Prognosis and Prediction of Response in Breast Cancer. Int. J. Mol. Sci. 23(22), 14197 (2022).
- 26. Detection and characterization of lung cancer using cell-free DNA fragmentomes. Nat. Commun. 12, 5060 (2021).
- 27. Detecting Liver Cancer Using Cell-Free DNA Fragmentomes. Cancer Discov. 13(3), 616–631 (2023).