Results 81 to 90 of about 907 (150)

A standardized framework for robust fragmentomic feature extraction from cell-free DNA sequencing data

Genome Biology
Fragmentomics features of cell-free DNA represent promising non-invasive biomarkers for cancer diagnosis. A lack of systematic evaluation of biases in feature quantification hinders the adoption of such applications.
Haichao Wang, Paulius D. Mennea, Yu Kiu Elkie Chan, Zhao Cheng, Maria C. Neofytou, Arif Anwer Surani, Aadhitthya Vijayaraghavan, Emma-Jane Ditter, Richard Bowers, Matthew D. Eldridge, Dmitry S. Shcherbo, Christopher G. Smith, Florian Markowetz, Wendy N. Cooper, Tommy Kaplan, Nitzan Rosenfeld, Hui Zhao   +16 more
doaj   +1 more source

Integrating multi‐omics features enables non‐invasive early diagnosis and treatment response prediction of diffuse large B‐cell lymphoma

Clinical and Translational Medicine
Background Multi‐omics features of cell‐free DNA (cfDNA) can effectively improve the performance of non‐invasive early diagnosis and prognosis of cancer. However, multimodal characterization of cfDNA remains technically challenging.
Weilong Zhang, Bangquan Ye, Yang Song, Ping Yang, Wenzhe Si, Hairong Jing, Fan Yang, Dan Yuan, Zhihong Wu, Jiahao Lyu, Kang Peng, Xu Zhang, Lingli Wang, Yan Li, Yan Liu, Chaoling Wu, Xiaoyu Hao, Yuqi Zhang, Wenxin Qi, Jing Wang, Fei Dong, Zijian Zhao, Hongmei Jing, Yanzhao Li   +23 more
doaj   +1 more source

Epigenetic modifications of cfDNA in liquid biopsy for the cancer care continuum

Biomedical Journal
This review provides a comprehensive overview of the latest advancements in the clinical utility of liquid biopsy, with a particular focus on epigenetic approaches aimed at overcoming challenges in cancer diagnosis and treatment. It begins by elucidating
Jodie Wong, Rohit Muralidhar, Liang Wang, Chiang-Ching Huang   +3 more
doaj   +1 more source

pyfraglib : An integrated cfDNA fragmentomics platform

Abstract Summary Cell-free DNA (cfDNA) fragmentomics is the analysis of a diverse set of cfDNA fragment features, e.g. fragment length profiles, windowed protection scores, and end motifs. As such it requires software tooling for fragment extraction, statistical feature modeling,
Daniel Schuette, Laura K. Godfrey, Jessica Schneider, Sven Borchmann, Jan-Michel Heger, Roland F. Schwarz   +5 more
openaire   +1 more source

Advances of nanopore direct sequencing technology and bioinformatics analysis for cell-free DNA detection and its clinical applications in cancer liquid biopsy

Frontiers in Molecular Biosciences
Cell-free DNA (cfDNA) containing cancer information has become a key biomarker for cancer liquid biopsy. Current next-generation sequencing (NGS) technology for cfDNA detection often fail to capture multiomics information, such as fragmentomics ...
Jiaxin Tan, Jiaxin Tan, Zetong Wu, Yunya Zhu, Biyuan Miao, Biyuan Miao, Daofeng Xu, Jia Gu, Maohong Hu, Pingping Xu, Shaogui Wan   +10 more
doaj   +1 more source

Author Correction: Quantitative fragmentomics allow affinity mapping of interactomes

Nature Communications, 2022
Gergo Gogl, Boglarka Zambo, Camille Kostmann, Alexandra Cousido-Siah, Bastien Morlet, Fabien Durbesson, Luc Negroni, Pascal Eberling, Pau Jané, Yves Nominé, Andras Zeke, Søren Østergaard, Élodie Monsellier, Renaud Vincentelli, Gilles Travé   +14 more
doaj   +1 more source

fRagmentomics: an R package for integrating cell-free DNA fragment features with mutational status to support liquid biopsy interpretation. [PDF]

Bioinformatics
Maudet K, Samaniego J, Pradat Y, Bernard E.   +3 more
europepmc   +1 more source

From concept to clinic: emerging paradigms and novel insights into liquid biopsy. [PDF]

Cancer Biol Med
Guo W, Liu Y, Dong H, Li X, Guo X, Guo H, Zhou K, Xing J.   +7 more
europepmc   +1 more source

Emerging Role of ctDNA Fragmentomics and Epigenetic Signatures in the Early Detection, Minimal Residual Disease Assessment, and Precision Monitoring of Renal Cell Carcinoma. [PDF]

J Cell Mol Med
Kamli H, Khan NU.
europepmc   +1 more source

Circulating cell-free mtDNA fragmentomics for early detection of gastric cancer and precancerous lesions. [PDF]

Cell Rep Med
Dang M, Wang S, Zhang H, Xu H, Lu L, Liu Y, Jiao H, Yang W, Peng F, Gao X, Lin F, Dong K, Pan K, Li W, Lu R, Nie Y, Liu Y, Xing J.   +17 more
europepmc   +1 more source