Multi-modal cell-free DNA genomic and fragmentomic patterns enhance cancer survival and recurrence analysis

N Moldovan, Y van der Pol, T van den Ende… - Cell Reports …, 2024 - cell.com
The structure of cell-free DNA (cfDNA) is altered in the blood of patients with cancer. From
whole-genome sequencing, we retrieve the cfDNA fragment-end composition using a new …

Machine learning enables detection of early-stage colorectal cancer by whole-genome sequencing of plasma cell-free DNA

N Wan, D Weinberg, TY Liu, K Niehaus, EA Ariazi… - BMC cancer, 2019 - Springer
Background Blood-based methods using cell-free DNA (cfDNA) are under development as
an alternative to existing screening tests. However, early-stage detection of cancer using …

Cell-free DNA provides a good representation of the tumor genome despite its biased fragmentation patterns

X Ma, L Zhu, X Wu, H Bao, X Wang, Z Chang… - PloS one, 2017 - journals.plos.org
Cell-free DNA (cfDNA) is short, extracellular, fragmented double-stranded DNA found in
plasma. Plasma of patients with solid tumor has been found to show significantly increased …

Detection and characterization of pancreatic and biliary tract cancers using cell-free DNA fragmentomics

X Shi, S Guo, Q Duan, W Zhang, S Gao, W Jing… - Journal of Experimental …, 2024 - Springer
Background Plasma cell-free DNA (cfDNA) fragmentomics has demonstrated significant
differentiation power between cancer patients and healthy individuals, but little is known in …

Size distribution of cell-free DNA in oncology

S Udomruk, S Orrapin, D Pruksakorn… - Critical reviews in …, 2021 - Elsevier
Tumor-specific, circulating cell-free DNA (cfDNA) in liquid biopsy test is a novel promising
biomarker in the advancement of cancer management, including early diagnosis, screening …

Integration of Cell-Free DNA End Motifs and Fragment Lengths Can Identify Active Genes in Liquid Biopsies

CT Maansson, LS Thomsen, P Meldgaard… - International Journal of …, 2024 - mdpi.com
Multiple studies have shown that cell-free DNA (cfDNA) from cancer patients differ in both
fragment length and fragment end motif (FEM) from healthy individuals, yet there is a lack of …

Multidimensional Fragmentomics Enables Early and Accurate Detection of Colorectal Cancer

Y Cao, N Wang, X Wu, W Tang, H Bao, C Si… - Cancer …, 2024 - aacrjournals.org
Colorectal cancer is frequently diagnosed in advanced stages, highlighting the need for
developing approaches for early detection. Liquid biopsy using cell-free DNA (cfDNA) …

A pocket companion to cell-free DNA (cfDNA) preanalytics

AJ Bronkhorst, S Holdenrieder - Tumor Biology, 2024 - content.iospress.com
The cumulative pool of cell-free DNA (cfDNA) molecules within bodily fluids represents a
highly dense and multidimensional information repository. This “biological mirror” provides …

Multidimensional fragmentomic profiling of cell-free DNA released from patient-derived organoids

J Kim, SP Hong, S Lee, W Lee, D Lee, R Kim, YJ Park… - Human Genomics, 2023 - Springer
Background Fragmentomics, the investigation of fragmentation patterns of cell-free DNA
(cfDNA), has emerged as a promising strategy for the early detection of multiple cancers in …

[HTML][HTML] Application of cell-free DNA for genomic tumor profiling: a feasibility study

LB Ahlborn, KS Rohrberg, M Gabrielaite, IV Tuxen… - Oncotarget, 2019 - ncbi.nlm.nih.gov
Purpose Access to genomic tumor material is required to select patients for targeted
therapies. However, tissue biopsies are not always feasible and therefore circulating cell …