Nature Communications (Dec 2022)
A framework for clinical cancer subtyping from nucleosome profiling of cell-free DNA
- Anna-Lisa Doebley,
- Minjeong Ko,
- Hanna Liao,
- A. Eden Cruikshank,
- Katheryn Santos,
- Caroline Kikawa,
- Joseph B. Hiatt,
- Robert D. Patton,
- Navonil De Sarkar,
- Katharine A. Collier,
- Anna C. H. Hoge,
- Katharine Chen,
- Anat Zimmer,
- Zachary T. Weber,
- Mohamed Adil,
- Jonathan B. Reichel,
- Paz Polak,
- Viktor A. Adalsteinsson,
- Peter S. Nelson,
- David MacPherson,
- Heather A. Parsons,
- Daniel G. Stover,
- Gavin Ha
Affiliations
- Anna-Lisa Doebley
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Minjeong Ko
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Hanna Liao
- Molecular and Cellular Biology Graduate Program, University of Washington
- A. Eden Cruikshank
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Katheryn Santos
- Dana-Farber Cancer Institute
- Caroline Kikawa
- Medical Scientist Training Program, University of Washington
- Joseph B. Hiatt
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Robert D. Patton
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Navonil De Sarkar
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Katharine A. Collier
- Ohio State University Comprehensive Cancer Center
- Anna C. H. Hoge
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Katharine Chen
- Molecular and Cellular Biology Graduate Program, University of Washington
- Anat Zimmer
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Zachary T. Weber
- Ohio State University Comprehensive Cancer Center
- Mohamed Adil
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Jonathan B. Reichel
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Paz Polak
- Department of Oncological Sciences, Icahn School of Medicine, Mount Sinai
- Viktor A. Adalsteinsson
- Broad Institute of MIT and Harvard
- Peter S. Nelson
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- David MacPherson
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- Heather A. Parsons
- Dana-Farber Cancer Institute
- Daniel G. Stover
- Ohio State University Comprehensive Cancer Center
- Gavin Ha
- Division of Public Health Sciences and Human Biology, Fred Hutchinson Cancer Center
- DOI
- https://doi.org/10.1038/s41467-022-35076-w
- Journal volume & issue
-
Vol. 13,
no. 1
pp. 1 – 18
Abstract
Nucleosome profiling from cell-free DNA (cfDNA) represents a potential approach for cancer detection and classification. Here, the authors develop Griffin, a computational framework for tumour subtype classification based on cfDNA nucleosome profiling that can work with ultra-low pass sequencing data.
