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 …

Current and future perspectives of liquid biopsies in genomics-driven oncology

E Heitzer, IS Haque, CES Roberts… - Nature Reviews …, 2019 - nature.com
Precision oncology seeks to leverage molecular information about cancer to improve patient
outcomes. Tissue biopsy samples are widely used to characterize tumours but are limited by …

Cell-free DNA and apoptosis: how dead cells inform about the living

E Heitzer, L Auinger, MR Speicher - Trends in molecular medicine, 2020 - cell.com
Cell-free DNA (cfDNA) is evolving into a widely used prognostic and predictive biomarker,
particularly in oncology. However, its versatile clinical use precedes a profound …

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 …

Cell-free DNA fragmentomics in liquid biopsy

SC Ding, YMD Lo - Diagnostics, 2022 - mdpi.com
Cell-free DNA (cfDNA) in bodily fluids has rapidly transformed the development of
noninvasive prenatal testing, cancer liquid biopsy, and transplantation monitoring. Plasma …

Orientation-aware plasma cell-free DNA fragmentation analysis in open chromatin regions informs tissue of origin

K Sun, P Jiang, SH Cheng, THT Cheng… - Genome …, 2019 - genome.cshlp.org
Cell-free DNA (cfDNA) in human plasma is a class of biomarkers with many current and
potential future diagnostic applications. Recent studies have shown that cfDNA molecules …

DNA methylation analysis explores the molecular basis of plasma cell-free DNA fragmentation

Y An, X Zhao, Z Zhang, Z Xia, M Yang, L Ma… - Nature …, 2023 - nature.com
Plasma cell-free DNA (cfDNA) are small molecules generated through a non-random
fragmentation procedure. Despite commendable translational values in cancer liquid biopsy …

Characteristics, origin, and potential for cancer diagnostics of ultrashort plasma cell-free DNA

I Hudecova, CG Smith, R Hänsel-Hertsch… - Genome …, 2022 - genome.cshlp.org
Current evidence suggests that plasma cell-free DNA (cfDNA) is fragmented around a mode
of 166 bp. Data supporting this view has been mainly acquired through the analysis of …

Dnase1l3 deletion causes aberrations in length and end-motif frequencies in plasma DNA

L Serpas, RWY Chan, P Jiang, M Ni… - Proceedings of the …, 2019 - National Acad Sciences
Circulating DNA in plasma consists of short DNA fragments. The biological processes
generating such fragments are not well understood. DNASE1L3 is a secreted DNASE1-like …

At the dawn: cell-free DNA fragmentomics and gene regulation

Y Liu - British Journal of Cancer, 2022 - nature.com
Epigenetic mechanisms play instrumental roles in gene regulation during embryonic
development and disease progression. However, it is challenging to non-invasively monitor …