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LABS: linear amplification-based bisulfite sequencing for ultrasensitive cancer detection from cell-free DNA.
Cui, Xiao-Long; Nie, Ji; Zhu, Houxiang; Kowitwanich, Krissana; Beadell, Alana V; West-Szymanski, Diana C; Zhang, Zhou; Dougherty, Urszula; Kwesi, Akushika; Deng, Zifeng; Li, Yan; Meng, Danqing; Roggin, Kevin; Barry, Teresa; Owyang, Ryan; Fefferman, Ben; Zeng, Chang; Gao, Lu; Zhao, Carolyn W T; Malina, Yuri; Wei, Jiangbo; Weigert, Melanie; Kang, Wenjun; Goel, Ajay; Chiu, Brian C-H; Bissonnette, Marc; Zhang, Wei; Chen, Mengjie; He, Chuan.
Afiliação
  • Cui XL; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Nie J; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Zhu H; Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.
  • Kowitwanich K; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Beadell AV; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • West-Szymanski DC; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Zhang Z; Department of Human Genetics, The University of Chicago, Chicago, IL, USA.
  • Dougherty U; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Kwesi A; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Deng Z; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Li Y; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Meng D; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Roggin K; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Barry T; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Owyang R; Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.
  • Fefferman B; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Zeng C; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Gao L; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Zhao CWT; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Malina Y; Department of Human Genetics, The University of Chicago, Chicago, IL, USA.
  • Wei J; Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA.
  • Weigert M; Department of Surgery, The University of Chicago, Chicago, IL, USA.
  • Kang W; Department of Medicine, The University of Chicago, Chicago, IL, USA.
  • Goel A; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Chiu BC; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Bissonnette M; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
  • Zhang W; Howard Hughes Medical Institute, The University of Chicago, Chicago, IL, USA.
  • Chen M; Department of Preventive Medicine, Northwestern University Feinberg School of Medicine, Chicago, IL, USA.
  • He C; Department of Chemistry, Department of Biochemistry and Molecular Biology, Institute for Biophysical Dynamics, The University of Chicago, Chicago, IL, USA.
Genome Biol ; 25(1): 157, 2024 06 14.
Article em En | MEDLINE | ID: mdl-38877540
ABSTRACT
Methylation-based liquid biopsies show promises in detecting cancer using circulating cell-free DNA; however, current limitations impede clinical application. Most assays necessitate substantial DNA inputs, posing challenges. Additionally, underrepresented tumor DNA fragments may go undetected during exponential amplification steps of traditional sequencing methods. Here, we report linear amplification-based bisulfite sequencing (LABS), enabling linear amplification of bisulfite-treated DNA fragments in a genome-wide, unbiased fashion, detecting cancer abnormalities with sub-nanogram inputs. Applying LABS to 100 patient samples revealed cancer-specific patterns, copy number alterations, and enhanced cancer detection accuracy by identifying tissue-of-origin and immune cell composition.
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Texto completo: 1 Base de dados: MEDLINE Assunto principal: Sulfitos / Análise de Sequência de DNA / Metilação de DNA / Neoplasias Limite: Humans Idioma: En Ano de publicação: 2024 Tipo de documento: Article
Texto completo
Imprimir
XML
PubMed Links
Buscar no Google

Texto completo: 1 Base de dados: MEDLINE Assunto principal: Sulfitos / Análise de Sequência de DNA / Metilação de DNA / Neoplasias Limite: Humans Idioma: En Ano de publicação: 2024 Tipo de documento: Article