Epigenetics, fragmentomics, and topology of cell-free DNA in liquid biopsies

YMD Lo, DSC Han, P Jiang, RWK Chiu - Science, 2021 - science.org
BACKGROUND Liquid biopsies that are based on analysis of cell-free DNA from plasma
offer diagnostic information that is otherwise accessible conventionally through invasive …

Clinical relevance of blood-based ctDNA analysis: mutation detection and beyond

L Keller, Y Belloum, H Wikman, K Pantel - British journal of cancer, 2021 - nature.com
Cell-free DNA (cfDNA) derived from tumours is present in the plasma of cancer patients. The
majority of currently available studies on the use of this circulating tumour DNA (ctDNA) deal …

Deep whole-genome ctDNA chronology of treatment-resistant prostate cancer

C Herberts, M Annala, J Sipola, SWS Ng, XE Chen… - Nature, 2022 - nature.com
Circulating tumour DNA (ctDNA) in blood plasma is an emerging tool for clinical cancer
genoty** and longitudinal disease monitoring. However, owing to past emphasis on …

Inferring gene expression from cell-free DNA fragmentation profiles

MS Esfahani, EG Hamilton, M Mehrmohamadi… - Nature …, 2022 - nature.com
Profiling of circulating tumor DNA (ctDNA) in the bloodstream shows promise for
noninvasive cancer detection. Chromatin fragmentation features have previously been …

Unravelling tumour heterogeneity by single-cell profiling of circulating tumour cells

L Keller, K Pantel - Nature Reviews Cancer, 2019 - nature.com
Single-cell technologies have contributed to unravelling tumour heterogeneity, now
considered a hallmark of cancer and one of the main causes of tumour resistance to cancer …

Bridging biological cfDNA features and machine learning approaches

T Moser, S Kühberger, I Lazzeri, G Vlachos, E Heitzer - Trends in Genetics, 2023 - cell.com
Liquid biopsies (LBs), particularly using circulating tumor DNA (ctDNA), are expected to
revolutionize precision oncology and blood-based cancer screening. Recent technological …

Plasma DNA end-motif profiling as a fragmentomic marker in cancer, pregnancy, and transplantation

P Jiang, K Sun, W Peng, SH Cheng, M Ni… - Cancer …, 2020 - aacrjournals.org
Plasma DNA fragmentomics is an emerging area of research covering plasma DNA sizes,
end points, and nucleosome footprints. In the present study, we found a significant increase …

Multimodal analysis of cell-free DNA whole-genome sequencing for pediatric cancers with low mutational burden

P Peneder, AM Stütz, D Surdez, M Krumbholz… - Nature …, 2021 - nature.com
Sequencing of cell-free DNA in the blood of cancer patients (liquid biopsy) provides
attractive opportunities for early diagnosis, assessment of treatment response, and minimally …

[HTML][HTML] The nexus of cfDNA and nuclease biology

DSC Han, YMD Lo - Trends in Genetics, 2021 - cell.com
Cell-free DNA (cfDNA) is a widely used noninvasive biomarker for diagnosis and prognosis
of multiple disease states. Emerging evidence suggests that cfDNA might not just be passive …

Epigenetic analysis of cell-free DNA by fragmentomic profiling

Q Zhou, G Kang, P Jiang, R Qiao, WKJ Lam… - Proceedings of the …, 2022 - pnas.org
Cell-free DNA (cfDNA) fragmentation patterns contain important molecular information
linked to tissues of origin. We explored the possibility of using fragmentation patterns to …