Wakhan: reconstruction of chromosome-scale copy number profiles of tumor genomes with long-read sequencing
Year: 2025
Type: article
Topic: Genomic variations and chromosomal abnormalities
Authors and affiliations:
raw_author_name: Tanveer Ahmad
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Ayse G. Keskus
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Sergey Aganezov
raw_affiliation_strings: Oxford Nanopore Technologies, Inc, USA;
Oxford Nanopore Technologies, Inc, USA
raw_author_name: Anton Goretsky
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA
raw_author_name: Isabel Rodriguez
raw_affiliation_strings: Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA;
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA
raw_author_name: Byunggil Yoo
raw_affiliation_strings: Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA;
Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA
raw_author_name: Lisa A. Lansdon
raw_affiliation_strings: Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA;
Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA
raw_author_name: Elena A. Repnikova
raw_affiliation_strings: Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA;
Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA
raw_author_name: Lei Zhang
raw_affiliation_strings: Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA;
Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA
raw_author_name: Yuelin Liu
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA
raw_author_name: Ataberk Donmez
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA, Department of Computer Science, University of Maryland, College Park, MD, USA
raw_author_name: Asher Bryant
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Sonam Tulsyan
raw_affiliation_strings: Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA;
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA
raw_author_name: Jimin Park
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Joshua Gardner
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Brandy McNulty
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Samuel Sacco
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Jyoti Shetty
raw_affiliation_strings: Frederick Sequencing and Genomics Core, Cancer Research Technology Program, Frederick National Laboratory for Cancer Research, Frederick, MD, USA;
Frederick Sequencing and Genomics Core, Cancer Research Technology Program, Frederick National Laboratory for Cancer Research, Frederick, MD, USA
raw_author_name: Yongmei Zhao
raw_affiliation_strings: Frederick Sequencing and Genomics Core Bioinformatics , Biomedical Informatics and Data Science Directorate, Frederick National Laboratory for Cancer Research, Frederick, MD, USA
raw_author_name: Bao Tran
raw_affiliation_strings: Frederick Sequencing and Genomics Core, Cancer Research Technology Program, Frederick National Laboratory for Cancer Research, Frederick, MD, USA;
Frederick Sequencing and Genomics Core, Cancer Research Technology Program, Frederick National Laboratory for Cancer Research, Frederick, MD, USA
raw_author_name: Salem Malikic
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Chi-Ping Day
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Karen Miga
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Benedict Paten
raw_affiliation_strings: UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA;
UC Santa Cruz Genomics Institute, Santa Cruz, CA, USA
raw_author_name: Cenk Sahinalp
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA
raw_author_name: Midhat S. Farooqi
raw_affiliation_strings: Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA;
Children's Mercy Hospital, University of Missouri-Kansas City School of Medicine, Kansas City, MO, USA
raw_author_name: Michael Dean
raw_affiliation_strings: Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA;
Division of Cancer Epidemiology and Genetics, National Cancer Institute, National Institutes of Health, Rockville, MD, USA
raw_author_name: Mikhail Kolmogorov
raw_affiliation_strings: Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA;
Cancer Data Science Laboratory, Center for Cancer Research, National Cancer Institute, National Institutes of Health, Bethesda, MD, USA