Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model

The goal of this study was to develop a method for whole genome cell-free DNA (cfDNA) methylation analysis in humans and mice with the ultimate goal to facilitate the identification of tumor derived DNA methylation changes in the blood. Plasma or serum from patients with pancreatic neuroendocrine tu...

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Autores principales: Maggi, Elaine C., Gravina, Silvia, Cheng, Haiying, Piperdi, Bilal, Yuan, Ziqiang, Dong, Xiao, Libutti, Steven K., Vijg, Jan, Montagna, Cristina
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Frontiers Media S.A. 2018
Materias:
Genetics
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5787102/
https://www.ncbi.nlm.nih.gov/pubmed/29410677
http://dx.doi.org/10.3389/fgene.2018.00006
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author Maggi, Elaine C.
Gravina, Silvia
Cheng, Haiying
Piperdi, Bilal
Yuan, Ziqiang
Dong, Xiao
Libutti, Steven K.
Vijg, Jan
Montagna, Cristina
author_facet Maggi, Elaine C.
Gravina, Silvia
Cheng, Haiying
Piperdi, Bilal
Yuan, Ziqiang
Dong, Xiao
Libutti, Steven K.
Vijg, Jan
Montagna, Cristina
author_sort Maggi, Elaine C.
collection PubMed
description The goal of this study was to develop a method for whole genome cell-free DNA (cfDNA) methylation analysis in humans and mice with the ultimate goal to facilitate the identification of tumor derived DNA methylation changes in the blood. Plasma or serum from patients with pancreatic neuroendocrine tumors or lung cancer, and plasma from a murine model of pancreatic adenocarcinoma was used to develop a protocol for cfDNA isolation, library preparation and whole-genome bisulfite sequencing of ultra low quantities of cfDNA, including tumor-specific DNA. The protocol developed produced high quality libraries consistently generating a conversion rate >98% that will be applicable for the analysis of human and mouse plasma or serum to detect tumor-derived changes in DNA methylation.
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spelling pubmed-57871022018-02-06 Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model Maggi, Elaine C. Gravina, Silvia Cheng, Haiying Piperdi, Bilal Yuan, Ziqiang Dong, Xiao Libutti, Steven K. Vijg, Jan Montagna, Cristina Front Genet Genetics The goal of this study was to develop a method for whole genome cell-free DNA (cfDNA) methylation analysis in humans and mice with the ultimate goal to facilitate the identification of tumor derived DNA methylation changes in the blood. Plasma or serum from patients with pancreatic neuroendocrine tumors or lung cancer, and plasma from a murine model of pancreatic adenocarcinoma was used to develop a protocol for cfDNA isolation, library preparation and whole-genome bisulfite sequencing of ultra low quantities of cfDNA, including tumor-specific DNA. The protocol developed produced high quality libraries consistently generating a conversion rate >98% that will be applicable for the analysis of human and mouse plasma or serum to detect tumor-derived changes in DNA methylation. Frontiers Media S.A. 2018-01-23 /pmc/articles/PMC5787102/ /pubmed/29410677 http://dx.doi.org/10.3389/fgene.2018.00006 Text en Copyright © 2018 Maggi, Gravina, Cheng, Piperdi, Yuan, Dong, Libutti, Vijg and Montagna. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) or licensor are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
spellingShingle Genetics
Maggi, Elaine C.
Gravina, Silvia
Cheng, Haiying
Piperdi, Bilal
Yuan, Ziqiang
Dong, Xiao
Libutti, Steven K.
Vijg, Jan
Montagna, Cristina
Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title_full Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title_fullStr Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title_full_unstemmed Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title_short Development of a Method to Implement Whole-Genome Bisulfite Sequencing of cfDNA from Cancer Patients and a Mouse Tumor Model
title_sort development of a method to implement whole-genome bisulfite sequencing of cfdna from cancer patients and a mouse tumor model
topic Genetics
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5787102/
https://www.ncbi.nlm.nih.gov/pubmed/29410677
http://dx.doi.org/10.3389/fgene.2018.00006
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