Publications by authors named "Nicholas Banovich"

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SpatialRNA: a Python package for easy application of Graph Neural Network models on single-molecule spatial transcriptomics dataset.
Ruqian Lyu, Annika Vannan, Jonathan A Kropski, Nicholas E Banovich, Davis J McCarthy

Bioinformatics· December 2025

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Denoising image-based spatial transcriptomics data with DenoIST.
Aaron Wing Cheung Kwok, Annika Vannan, Nicholas E Banovich, Jonathan A Kropski, Heejung Shim

bioRxiv· November 2025

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A spatial transcriptomic atlas of acute neonatal lung injury across development and disease severity.
Saahithi Mallapragada, Ruqian Lyu, Arianna L Williams-Katek, Brandon K Fischer, Annika Vannan, Nicholas E Banovich

Am J Physiol Lung Cell Mol Physiol· September 2025

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A spatial transcriptomic atlas of acute neonatal lung injury across development and disease severity.
Saahithi Mallapragada, Ruqian Lyu, Arianna L Williams-Katek, Brandon K Fischer, Annika Vannan, Nicholas E Banovich

bioRxiv· June 2025

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Overcoming myeloid-driven resistance to CAR T therapy by targeting SPP1.
Sharareh Gholamin, Heini M Natri, Yuqi Zhao, Shengchao Xu, Maryam Aftabizadeh, Nicholas Banovich

bioRxiv· May 2025

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Bronchopulmonary dysplasia with pulmonary hypertension associates with semaphorin signaling loss and functionally decreased FOXF1 expression.
Shawyon P Shirazi, Nicholas M Negretti, Christopher S Jetter, Alexandria L Sharkey, Shriya Garg, Nicholas E Banovich

Nat Commun· May 2025

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Spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.
Annika Vannan, Ruqian Lyu, Arianna L Williams, Nicholas M Negretti, Evan D Mee, Nicholas E Banovich

Nat Genet· March 2025

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Dynamic responses to rejection in the transplanted human heart revealed through spatial transcriptomics.
Kaushik Amancherla, Angela M Taravella Oill, Xavier Bledsoe, Arianna L Williams, Nelson Chow, Nicholas Banovich

bioRxiv· March 2025

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Precision-Cut Lung Slices: Emerging Tools for Preclinical and Translational Lung Research: An Official American Thoracic Society Workshop Report.
Mareike Lehmann, Ramaswamy Krishnan, Jennifer Sucre, Hrishikesh S Kulkarni, Ricardo H Pineda, Nicholas E Banovich

Am J Respir Cell Mol Biol· January 2025

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Hypoxia-inducible factor 2 regulates alveolar regeneration after repetitive injury in three-dimensional cellular and in vivo models.
A Scott McCall, Sergey Gutor, Hari Tanjore, Ankita Burman, Taylor Sherrill, Nicholas E Banovich

Sci Transl Med· January 2025

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A prognostic molecular signature of hepatic steatosis is spatially heterogeneous and dynamic in human liver.
Andrew S Perry, Niran Hadad, Emeli Chatterjee, Maria Jimenez-Ramos, Eric Farber-Eger, Nicholas E Banovich

Cell Rep Med· December 2024

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Bronchopulmonary Dysplasia with Pulmonary Hypertension Associates with Loss of Semaphorin Signaling and Functional Decrease in FOXF1 Expression.
Shawyon P Shirazi, Nicholas M Negretti, Christopher S Jetter, Alexandria L Sharkey, Shriya Garg, Nicholas E Banovich

bioRxiv· September 2024

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Pulmonary osteoclast-like cells in silica induced pulmonary fibrosis.
Yoshihiro Hasegawa, Jennifer M Franks, Yusuke Tanaka, Yasuaki Uehara, David F Read, Nicholas E Banovich

Sci Adv· July 2024

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Proteomic Biomarkers of Quantitative Interstitial Abnormalities in COPDGene and CARDIA Lung Study.
Bina Choi, Gabrielle Y Liu, Quanhu Sheng, Kaushik Amancherla, Andrew Perry, Nicholas E Banovich

Am J Respir Crit Care Med· May 2024

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Publisher Correction: Advancing T cell-based cancer therapy with single-cell technologies.
Samantha L Bucktrout, Nicholas E Banovich, Lisa H Butterfield, Cansu Cimen-Bozkus, Josephine R Giles

Nat Med· May 2024

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Author Correction: Locoregional delivery of IL-13Rα2-targeting CAR-T cells in recurrent high-grade glioma: a phase 1 trial.
Christine E Brown, Jonathan C Hibbard, Darya Alizadeh, M Suzette Blanchard, Heini M Natri, Nicholas E Banovich

Nat Med· May 2024

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Author Correction: Cell-type-specific and disease-associated expression quantitative trait loci in the human lung.
Heini M Natri, Christina B Del Azodi, Lance Peter, Chase J Taylor, Sagrika Chugh, Nicholas E Banovich

Nat Genet· May 2024

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Association between mosaic loss of chromosome Y and pulmonary fibrosis susceptibility and severity.
Dapeng Wang, Niran Hadad, Samuel Moss, Elena Lopez-Jimenez, Simon R Johnson, Nicholas E Banovich

bioRxiv· May 2024

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Locoregional delivery of IL-13Rα2-targeting CAR-T cells in recurrent high-grade glioma: a phase 1 trial.
Christine E Brown, Jonathan C Hibbard, Darya Alizadeh, M Suzette Blanchard, Heini M Natri, Nicholas E Banovich

Nat Med· April 2024

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Cell-type-specific and disease-associated expression quantitative trait loci in the human lung.
Heini M Natri, Christina B Del Azodi, Lance Peter, Chase J Taylor, Sagrika Chugh, Nicholas E Banovich

Nat Genet· April 2024

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Targeting Wnt signaling for improved glioma immunotherapy.
Margarita Gutova, Jonathan C Hibbard, Eric Ma, Heini M Natri, Vikram Adhikarla, Nicholas E Banovich

Front Immunol· March 2024

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A prognostic molecular signature of hepatic steatosis is spatially heterogeneous and dynamic in human liver.
Andrew S Perry, Niran Hadad, Emeli Chatterjee, Maria Jimenez Ramos, Eric Farber-Eger, Nicholas E Banovich

medRxiv· January 2024

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Spatial Transcriptomics Resolve an Emphysema-specific Lymphoid Follicle B Cell Signature in COPD.
Joselyn Rojas-Quintero, Scott A Ochsner, Felicia New, Prajan Divakar, Chen Xi Yang, Nicholas E Banovich

Am J Respir Crit Care Med· December 2023

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Image-based spatial transcriptomics identifies molecular niche dysregulation associated with distal lung remodeling in pulmonary fibrosis.
Annika Vannan, Ruqian Lyu, Arianna L Williams, Nicholas M Negretti, Evan D Mee, Nicholas E Banovich

bioRxiv· December 2023

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Expansion of endogenous T cells in CSF of pediatric CNS tumor patients undergoing locoregional delivery of IL13R〿2-targeting CAR T cells: an interim analysis.
Leo Wang, Angela Taravella Oill, M Blanchard, Melody Wu, Jonathan Hibbard, Nicholas Banovich

Res Sq· October 2023

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