Publications by authors named "Martin Aryee"

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Integrating single-cell biophysical and transcriptomic features to resolve functional heterogeneity in mantle cell lymphoma.
Ye Zhang, Lydie Debaize, Adam Langenbucher, Jenalyn Weekes, Ioulia Vogiatzi, Martin Aryee

Sci Adv· December 2025

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Intraductal Papillary Mucinous Neoplasm Cellular Plasticity is Linked with Repeat Element Dysregulation.
Amaya Pankaj, Michael J Raabe, M Lisa Zhang, Yuhui Song, Bidish K Patel, Martin J Aryee

bioRxiv· November 2025

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Bone Marrow Adipokine Mediates Hematopoietic Regeneration and Stem Cell Fitness.
Parash Prasad, Angelo D'Alessandro, Abhishek K Singh, Yi Zheng, John Manis, Martin J Aryee

bioRxiv· September 2025

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Single Cell Spatial Transcriptomic Profiling Identifies a LINE1 Associated Disarrayed Immune Microenvironment in Hepatocellular Carcinoma.
Avril K Coley, Cole Nawrocki, Bidish K Patel, Amaya Pankaj, Zhoubo Guo, Martin J Aryee

bioRxiv· May 2025

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High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion.
Corriene E Sept, Y Esther Tak, Viraat Goel, Mital S Bhakta, Christian G Cerda-Smith, Martin J Aryee

Nat Commun· May 2025

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Integrating Single-Cell Biophysical and Transcriptomic Features to Resolve Functional Heterogeneity in Mantle Cell Lymphoma.
Ye Zhang, Lydie Debaize, Adam Langenbucher, Jenalyn Weekes, Ioulia Vogiatzi, Martin Aryee

bioRxiv· May 2025

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Risk of bleeding in patients with essential thrombocythemia and extreme thrombocytosis.
Rathnam K Venkat, Robert A Redd, Amyah C Harris, Martin J Aryee, Anna E Marneth

Blood Adv· December 2024

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Disruption of cellular plasticity by repeat RNAs in human pancreatic cancer.
Eunae You, Patrick Danaher, Chenyue Lu, Siyu Sun, Luli Zou, Martin J Aryee

Cell· December 2024

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HCC spatial transcriptomic profiling reveals significant and potentially targetable cancer-endothelial interactions.
Chenyue Lu, Amaya Pankaj, Michael Raabe, Cole Nawrocki, Ann Liu, Martin J Aryee

Hepatol Commun· October 2024

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Detection of allele-specific expression in spatial transcriptomics with spASE.
Luli S Zou, Dylan M Cable, Irving A Barrera-Lopez, Tongtong Zhao, Evan Murray, Martin J Aryee

Genome Biol· July 2024

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A CTCF-binding site in the Mdm1-Il22-Ifng locus shapes cytokine expression profiles and plays a critical role in early Th1 cell fate specification.
Chunhong Liu, Hiroyuki Nagashima, Nilisha Fernando, Victor Bass, Jaanam Gopalakrishnan, Martin J Aryee

Immunity· May 2024

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Human lung cancer harbors spatially organized stem-immunity hubs associated with response to immunotherapy.
Jonathan H Chen, Linda T Nieman, Maxwell Spurrell, Vjola Jorgji, Liad Elmelech, Martin J Aryee

Nat Immunol· April 2024

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Spatial transcriptomics reveals distinct tissue niches linked with steroid responsiveness in acute gastrointestinal GVHD.
Bidish K Patel, Michael J Raabe, Evan R Lang, Yuhui Song, Chenyue Lu, Martin J Aryee

Blood· November 2023

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High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion dynamics.
Corriene E Sept, Y Esther Tak, Christian G Cerda-Smith, Haley M Hutchinson, Viraat Goel, Martin J Aryee

bioRxiv· October 2023

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Author Correction: Massively parallel single-cell mitochondrial DNA genotyping and chromatin profiling.
Caleb A Lareau, Leif S Ludwig, Christoph Muus, Satyen H Gohil, Tongtong Zhao, Martin J Aryee

Nat Biotechnol· September 2023

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Integrative Enhancer Discovery Reveals a New Model of Enhancer Organization.
Christian G Cerda-Smith, Haley M Hutchinson, Annie Liu, Viraat Y Goel, Corriene Sept, Martin J Aryee

bioRxiv· September 2023

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DNA hypomethylation silences anti-tumor immune genes in early prostate cancer and CTCs.
Hongshan Guo, Joanna A Vuille, Ben S Wittner, Emily M Lachtara, Yu Hou, Martin J Aryee

Cell· June 2023

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Spatial analysis of human lung cancer reveals organized immune hubs enriched for stem-like CD8 T cells and associated with immunotherapy response.
Jonathan H Chen, Linda T Nieman, Maxwell Spurrell, Vjola Jorgji, Peter Richieri, Martin Aryee

bioRxiv· April 2023

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Highly connected 3D chromatin networks established by an oncogenic fusion protein shape tumor cell identity.
Rajendran Sanalkumar, Rui Dong, Lukuo Lee, Yu-Hang Xing, Sowmya Iyer, Martin Aryee

Sci Adv· March 2023

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Epigenetic clocks, aging, and cancer.
Sarah E Johnstone, Vadim N Gladyshev, Martin J Aryee, Bradley E Bernstein

Science· December 2022

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Single-nucleus and spatial transcriptome profiling of pancreatic cancer identifies multicellular dynamics associated with neoadjuvant treatment.
William L Hwang, Karthik A Jagadeesh, Jimmy A Guo, Hannah I Hoffman, Payman Yadollahpour, Martin J Aryee

Nat Genet· August 2022

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Author Correction: Augmenting and directing long-range CRISPR-mediated activation in human cells.
Y Esther Tak, Joy E Horng, Nicholas T Perry, Hayley T Schultz, Sowmya Iyer, Martin J Aryee

Nat Methods· July 2022

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Polycomb-lamina antagonism partitions heterochromatin at the nuclear periphery.
Allison P Siegenfeld, Shelby A Roseman, Heejin Roh, Nicholas Z Lue, Corin C Wagen, Martin J Aryee

Nat Commun· July 2022

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CRISPR-Cas9 treatment partially restores amyloid-β 42/40 in human fibroblasts with the Alzheimer's disease M146L mutation.
Evangelos Konstantinidis, Agnieszka Molisak, Florian Perrin, Linn Streubel-Gallasch, Sarah Fayad, Martin J Aryee

Mol Ther Nucleic Acids· June 2022

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EWSR1-ATF1 dependent 3D connectivity regulates oncogenic and differentiation programs in Clear Cell Sarcoma.
Emely Möller, Viviane Praz, Sanalkumar Rajendran, Rui Dong, Alexandra Cauderay, Martin Aryee

Nat Commun· April 2022

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