Publications by authors named "Katherine A Hoadley"

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ELViS: an R package for estimating copy number levels of viral genomic segments at base-resolution.
Jin Young Lee, Jeremiah R Holt, Xiaobei Zhao, Katherine A Hoadley, D Neil Hayes

Bioinformatics· December 2025

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Identifying locally recurrent versus second primary breast cancer: Genomic versus clinical criteria from Carolina Breast Cancer Study Phase III.
Sarah C Van Alsten, Michael I Love, Benjamin C Calhoun, Eboneé N Butler, Adam D Pfefferle, Katherine A Hoadley

Cancer Epidemiol Biomarkers Prev· December 2025

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The offonome reveals on and off states of gene expression near the detection limit of RNA-seq.
Won-Young Choi, Xiaobei Zhao, Jeremiah Holt, Richa Jain, Heejoon Jo, Katherine A Hoadley

Sci Rep· November 2025

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Prognostic significance of CD8+ T cell Spatial Biomarkers in ER+ and ER- breast cancer: A retrospective cohort study.
Andrew E Walker, Xiaohua Gao, Qichen Wang, Gabriela De la Cruz, Didong Li, Katherine A Hoadley

PLoS Med· October 2025

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Pan-cancer immune and stromal deconvolution predicts clinical outcomes and mutation profiles.
Bhavneet Bhinder, Verena Friedl, Sunantha Sethuraman, Davide Risso, Kami E Chiotti, Katherine A Hoadley

Sci Rep· July 2025

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Buenos Aires Breast Cancer Symposium 2024: bridging basic and clinical research in breast cancer.
Martín Abba, Fariba Behbod, Paolo Ceppi, Roger Chammas, Robert Clarke, Katherine A Hoadley

Medicina (B Aires)· June 2025

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Prognostic Significance of CD8 T-cell Spatial Biomarkers in ER+ and ER- Breast Cancer.
Andrew E Walker, Xiaohua Gao, Qichen Wang, Gabriela De la Cruz, Didong Li, Katherine A Hoadley

medRxiv· May 2025

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Genomic Analysis Reveals Racial and Age-Related Differences in the Somatic Landscape of Breast Cancer and the Association with Socioeconomic Factors.
Sarah C Van Alsten, Michael I Love, Benjamin C Calhoun, Eboneé N Butler, Charles M Perou, Katherine A Hoadley

Cancer Res· April 2025

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Prognostic and molecular multi-platform analysis of CALGB 40603 (Alliance) and public triple-negative breast cancer datasets.
Brooke M Felsheim, Aranzazu Fernandez-Martinez, Cheng Fan, Adam D Pfefferle, Michele C Hayward, Katherine A Hoadley

NPJ Breast Cancer· March 2025

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Classification of non-TCGA cancer samples to TCGA molecular subtypes using compact feature sets.
Kyle Ellrott, Christopher K Wong, Christina Yau, Mauro A A Castro, Jordan A Lee, Katherine A Hoadley

Cancer Cell· February 2025

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DAB2IP loss in luminal a breast cancer leads to NF-κB-associated aggressive oncogenic phenotypes.
Angana Mukherjee, Rasha T Kakati, Sarah Van Alsten, Tyler Laws, Aaron L Ebbs, Katherine A Hoadley

JCI Insight· December 2024

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Expanded detection and impact of alterations in cancer.
Ian R Sturgill, Jesse R Raab, Katherine A Hoadley

NAR Cancer· December 2024

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Multimodal genome-wide survey of progressing and non-progressing breast ductal carcinoma in-situ.
Marija Debeljak, Soonweng Cho, Bradley M Downs, Michael Considine, Brittany Avin-McKelvey, Katherine A Hoadley

Breast Cancer Res· December 2024

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Image analysis-based identification of high risk ER-positive, HER2-negative breast cancers.
Dong Neuck Lee, Yao Li, Linnea T Olsson, Alina M Hamilton, Benjamin C Calhoun, Katherine A Hoadley

Breast Cancer Res· December 2024

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Expanded detection and impact of alterations in cancer.
Ian R Sturgill, Jesse R Raab, Katherine A Hoadley

bioRxiv· July 2024

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Differences in 21-Gene and PAM50 Recurrence Scores in Younger and Black Women With Breast Cancer.
Sarah C Van Alsten, Sanah N Vohra, Joannie M Ivory, Alina M Hamilton, Xiaohua Gao, Katherine A Hoadley

JCO Precis Oncol· July 2024

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Harmonizing heterogeneous transcriptomics datasets for machine learning-based analysis to identify spaceflown murine liver-specific changes.
Hari Ilangovan, Prachi Kothiyal, Katherine A Hoadley, Robin Elgart, Greg Eley

NPJ Microgravity· June 2024

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Visual Intratumor Heterogeneity and Breast Tumor Progression.
Yao Li, Sarah C Van Alsten, Dong Neuck Lee, Taebin Kim, Benjamin C Calhoun, Katherine A Hoadley

Cancers (Basel)· June 2024

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Diffsig: Associating Risk Factors with Mutational Signatures.
Ji-Eun Park, Markia A Smith, Sarah C Van Alsten, Andrea Walens, Di Wu, Katherine A Hoadley

Cancer Epidemiol Biomarkers Prev· May 2024

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Tumor Intrinsic Subtypes and Gene Expression Signatures in Early-Stage ERBB2/HER2-Positive Breast Cancer: A Pooled Analysis of CALGB 40601, NeoALTTO, and NSABP B-41 Trials.
Aranzazu Fernandez-Martinez, Mattia Rediti, Gong Tang, Tomás Pascual, Katherine A Hoadley

JAMA Oncol· May 2024

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PAIRWISE NONLINEAR DEPENDENCE ANALYSIS OF GENOMIC DATA.
Siqi Xiang, Wan Zhang, Siyao Liu, Katherine A Hoadley, Charles M Perou

Ann Appl Stat· December 2023

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Association of PIK3CA Mutation With Pathologic Complete Response and Outcome by Hormone Receptor Status and Intrinsic Subtype in Early-Stage ERBB2/HER2-Positive Breast Cancer.
Paola Zagami, Aranzazu Fernandez-Martinez, Naim U Rashid, Katherine A Hoadley, Patricia A Spears

JAMA Netw Open· December 2023

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Measure of Strength of Evidence for Visually Observed Differences between Subpopulations.
Xi Yang, Jan Hannig, Katherine A Hoadley, Iain Carmichael, J S Marron

J Comput Graph Stat· December 2023

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Immunological and clinicopathological features predict HER2-positive breast cancer prognosis in the neoadjuvant NeoALTTO and CALGB 40601 randomized trials.
Mattia Rediti, Aranzazu Fernandez-Martinez, David Venet, Françoise Rothé, Katherine A Hoadley

Nat Commun· November 2023

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Predicting early breast cancer recurrence from histopathological images in the Carolina Breast Cancer Study.
Yifeng Shi, Linnea T Olsson, Katherine A Hoadley, Benjamin C Calhoun, J S Marron

NPJ Breast Cancer· November 2023

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