Publications by authors named "David A Wheeler"

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Clinical experience of using integrated whole genome and transcriptome sequencing as a framework for pediatric and adolescent acute myeloid leukemia diagnosis and risk assessment.
Rebecca K Voss, Victor B Pastor Loyola, Maria F Cardenas, Priya Kumar, Jamie L Maciaszek, David A Wheeler

Leukemia· December 2025

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Fast and sensitive detection of targeted gene fusions using frequency minimizers and fuzzy pattern matching with Fuzzion2.
Stephen V Rice, Michael N Edmonson, Xiaolong Chen, Robert Greenhalgh, Michael Rusch, David A Wheeler

Cell Rep Methods· December 2025

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Integrative Proteogenomics and Forward Genetics Reveal a Novel Mitotic Vulnerability in Triple-Negative Breast Cancer.
Nicholas J Neill, Shankha Satpathy, Karsten Krug, Jitendra K Meena, Nivetha Ramesh Babu, David A Wheeler

Cancer Discov· November 2025

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CanID: A Robust and Accurate RNA-seq Expression-based Diagnostic Classification Scheme for Pediatric Malignancies.
Daniel K Putnam, Alexander M Gout, Delaram Rahbarinia, Meiling Jin, David Finkelstein, David A Wheeler

Genomics Proteomics Bioinformatics· November 2025

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Comparison of Molecular Testing Methodologies for CIC-Rearranged Sarcomas.
Selene C Koo, Maria Cardenas, Patricia Stow, Jennifer Neary, David A Wheeler

Arch Pathol Lab Med· October 2025

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FOXR2 activation is not exclusive of CNS neuroblastoma.
Alexa N Siskar, Emily Hanzlik, Maria F Cardenas, Mohammad K Eldomery, Soniya Pinto, David A Wheeler

Neuro Oncol· September 2025

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CanID: a robust and accurate RNAseq Expression-based diagnostic classification scheme for pediatric malignancies.
Daniel K Putnam, Alexander M Gout, Delaram Rahbarinia, Meiling Jin, David Finkelstein, David A Wheeler

bioRxiv· August 2025

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CRISPR/Cas9 gene therapy increases the risk of tumorigenesis in the mouse model of hereditary tyrosinemia type I.
Tong Chen, Mercedes Barzi, Nika Furey, Hyunjae R Kim, Francis P Pankowicz, David A Wheeler

JHEP Rep· April 2025

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The landscape of primary mismatch repair deficient gliomas in children, adolescents, and young adults: a multi-cohort study.
Logine Negm, Jiil Chung, Liana Nobre, Julie Bennett, Nicholas R Fernandez, David A Wheeler

Lancet Oncol· January 2025

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Evaluation of Bayesian point-based system on the variant classification of hereditary cancer predisposition genes.
Mohammad K Eldomery, Jamie L Maciaszek, Taylor Cain, Victor Pastor Loyola, Suraj Sarvode Mothi, David A Wheeler

Genet Med· December 2024

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The Cancer Genome Atlas Comprehensive Molecular Characterization of Renal Cell Carcinoma.
Christopher J Ricketts, Aguirre A De Cubas, Huihui Fan, Christof C Smith, Martin Lang, David A Wheeler

Cell Rep· April 2024

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Constitutional balanced translocations involving SMARCB1: A rare cause of rhabdoid tumor predisposition syndrome.
Patrick R Blackburn, Rose B McGee, Roya Mostafavi, Andrew J Carroll, Fady M Mikhail, David A Wheeler

Genes Chromosomes Cancer· January 2024

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Neonatal osteoblastic tumor with a novel PTBP1::FOSB fusion.
Patrick R Blackburn, David P Douglass, Raghu H Ramakrishnaiah, Corey O Montgomery, Zonggao Shi, David A Wheeler

Genes Chromosomes Cancer· October 2023

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Etiology of oncogenic fusions in 5,190 childhood cancers and its clinical and therapeutic implication.
Yanling Liu, Jonathon Klein, Richa Bajpai, Li Dong, Quang Tran, David A Wheeler

Nat Commun· April 2023

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Author Correction: Analyses of non-coding somatic drivers in 2,658 cancer whole genomes.
Esther Rheinbay, Morten Muhlig Nielsen, Federico Abascal, Jeremiah A Wala, Ofer Shapira, David A Wheeler

Nature· February 2023

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Author Correction: The repertoire of mutational signatures in human cancer.
Ludmil B Alexandrov, Jaegil Kim, Nicholas J Haradhvala, Mi Ni Huang, Alvin Wei Tian Ng, David A Wheeler

Nature· February 2023

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Detection and characterization of constitutive replication origins defined by DNA polymerase epsilon.
Roman Jaksik, David A Wheeler, Marek Kimmel

BMC Biol· February 2023

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Consensus subtypes of hepatocellular carcinoma associated with clinical outcomes and genomic phenotypes.
Sung Hwan Lee, Sun Young Yim, Yun Seong Jeong, Qi-Xiang Li, Sang-Hee Kang, David A Wheeler

Hepatology· December 2022

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Author Correction: Pathway and network analysis of more than 2500 whole cancer genomes.
Matthew A Reyna, David Haan, Marta Paczkowska, Lieven P C Verbeke, Miguel Vazquez, David A Wheeler

Nat Commun· December 2022

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A CTNNB1-altered medulloblastoma shows the immunophenotypic, DNA methylation and transcriptomic profiles of SHH-activated, and not WNT-activated, medulloblastoma.
Jason Chiang, Daniel C Moreira, Nicholas J Pytel, Yen-Chun Liu, Patrick R Blackburn, David A Wheeler

Neuropathol Appl Neurobiol· August 2022

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Glutathione peroxidase 2 is a metabolic driver of the tumor immune microenvironment and immune checkpoint inhibitor response.
Kazi Mokim Ahmed, Ratna Veeramachaneni, Defeng Deng, Nagireddy Putluri, Vasanta Putluri, David A Wheeler

J Immunother Cancer· August 2022

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RNAseqCNV: analysis of large-scale copy number variations from RNA-seq data.
Jan Bařinka, Zunsong Hu, Lu Wang, David A Wheeler, Delaram Rahbarinia

Leukemia· June 2022

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indelPost: harmonizing ambiguities in simple and complex indel alignments.
Kohei Hagiwara, Michael N Edmonson, David A Wheeler, Jinghui Zhang

Bioinformatics· January 2022

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Genomes for Kids: The Scope of Pathogenic Mutations in Pediatric Cancer Revealed by Comprehensive DNA and RNA Sequencing.
Scott Newman, Joy Nakitandwe, Chimene A Kesserwan, Elizabeth M Azzato, David A Wheeler

Cancer Discov· December 2021

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Novel Anaplastic Thyroid Cancer PDXs and Cell Lines: Expanding Preclinical Models of Genetic Diversity.
Anastasios Maniakas, Ying C Henderson, Hu Hei, Shaohua Peng, Yunyun Chen, David A Wheeler

J Clin Endocrinol Metab· October 2021

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