Publications by authors named "Thomas MacCarthy"

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Human and bats genome robustness under COSMIC mutational signatures.
Joon-Hyun Song, Ying Zeng, Liliana M Dávalos, Thomas MacCarthy, Mani Larijani

bioRxiv· September 2024

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Interpretable deep learning reveals the role of an E-box motif in suppressing somatic hypermutation of AGCT motifs within human immunoglobulin variable regions.
Abhik Tambe, Thomas MacCarthy, Rushad Pavri

Front Immunol· June 2024

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Fine-tuning spatial-temporal dynamics and surface receptor expression support plasma cell-intrinsic longevity.
Zhixin Jing, Phillip Galbo, Luis Ovando, Megan Demouth, Skylar Welte, Thomas MacCarthy

Elife· June 2024

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Fine-tuning spatial-temporal dynamics and surface receptor expression support plasma cell-intrinsic longevity.
Zhixin Jing, Phillip Galbo, Luis Ovando, Megan Demouth, Skylar Welte, Thomas MacCarthy

bioRxiv· April 2024

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Evolvability of cancer-associated genes under APOBEC3A/B selection.
Joon-Hyun Song, Liliana M Dávalos, Thomas MacCarthy, Mehdi Damaghi

iScience· April 2024

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Modular cytosine base editing promotes epigenomic and genomic modifications.
Julian Weischedel, Laurence Higgins, Sally Rogers, Anna Gramalla-Schmitz, Paulina Wyrzykowska, Thomas MacCarthy

Nucleic Acids Res· January 2024

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Evolvability of cancer-associated genes under APOBEC3A/B selection.
Joon-Hyun Song, Liliana M Dávalos, Thomas MacCarthy, Mehdi Damaghi

bioRxiv· December 2023

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Evolutionary potential of the monkeypox genome arising from interactions with human APOBEC3 enzymes.
Brenda Delamonica, Liliana Davalos, Mani Larijani, Simon J Anthony, Jia Liu, Thomas MacCarthy

Virus Evol· August 2023

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Evolutionary potential of the monkeypox genome arising from interactions with human APOBEC3 enzymes.
Brenda Delamonica, Liliana Davalos, Mani Larijani, Simon J Anthony, Jia Liu, Thomas MacCarthy

bioRxiv· June 2023

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Beta human papillomavirus 8E6 promotes alternative end joining.
Changkun Hu, Taylor Bugbee, Rachel Palinski, Ibukun A Akinyemi, Michael T McIntosh, Thomas MacCarthy

Elife· January 2023

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Role of EXO1 nuclease activity in genome maintenance, the immune response and tumor suppression in Exo1D173A mice.
Shanzhi Wang, Kyeryoung Lee, Stephen Gray, Yongwei Zhang, Catherine Tang, Thomas MacCarthy

Nucleic Acids Res· August 2022

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Deep learning model of somatic hypermutation reveals importance of sequence context beyond hotspot targeting.
Catherine Tang, Artem Krantsevich, Thomas MacCarthy

iScience· January 2022

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The role of HIRA-dependent H3.3 deposition and its modifications in the somatic hypermutation of immunoglobulin variable regions.
Guojun Yu, Yongwei Zhang, Varun Gupta, Jinghang Zhang, Thomas MacCarthy

Proc Natl Acad Sci U S A· December 2021

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Characterization of DNA G-Quadruplex Structures in Human Immunoglobulin Heavy Variable (IGHV) Genes.
Catherine Tang, Thomas MacCarthy

Front Immunol· October 2021

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A Bayesian model based computational analysis of the relationship between bisulfite accessible single-stranded DNA in chromatin and somatic hypermutation of immunoglobulin genes.
Guojun Yu, Yingru Wu, Zhi Duan, Catherine Tang, Haipeng Xing, Thomas MacCarthy

PLoS Comput Biol· September 2021

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Role of Dot1L and H3K79 methylation in regulating somatic hypermutation of immunoglobulin genes.
Zhi Duan, Linda B Baughn, Xiaohua Wang, Yongwei Zhang, Varun Gupta, Thomas MacCarthy

Proc Natl Acad Sci U S A· July 2021

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Correlations in Somatic Hypermutation Between Sites in IGHV Genes Can Be Explained by Interactions Between AID and/or Polη Hotspots.
Artem Krantsevich, Catherine Tang, Thomas MacCarthy

Front Immunol· June 2021

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Post-Transformation IGHV-IGHD-IGHJ Mutations in Chronic Lymphocytic Leukemia B Cells: Implications for Mutational Mechanisms and Impact on Clinical Course.
Davide Bagnara, Catherine Tang, Jennifer R Brown, Siddha Kasar, Stacey Fernandes, Thomas MacCarthy

Front Oncol· May 2021

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Mutational pressure by host APOBEC3s more strongly affects genes expressed early in the lytic phase of herpes simplex virus-1 (HSV-1) and human polyomavirus (HPyV) infection.
Maxwell Shapiro, Laurie T Krug, Thomas MacCarthy

PLoS Pathog· April 2021

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AID Overlapping and Polη Hotspots Are Key Features of Evolutionary Variation Within the Human Antibody Heavy Chain (IGHV) Genes.
Catherine Tang, Davide Bagnara, Nicholas Chiorazzi, Matthew D Scharff, Thomas MacCarthy

Front Immunol· March 2021

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STAT3 imparts BRCAness by impairing homologous recombination repair in Epstein-Barr virus-transformed B lymphocytes.
Michael T McIntosh, Siva Koganti, J Lucas Boatwright, Xiaofan Li, Salvatore V Spadaro, Thomas MacCarthy

PLoS Pathog· October 2020

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A-to-I editing of Malacoherpesviridae RNAs supports the antiviral role of ADAR1 in mollusks.
Umberto Rosani, Chang-Ming Bai, Lorenzo Maso, Maxwell Shapiro, Miriam Abbadi, Thomas MacCarthy

BMC Evol Biol· July 2019

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PD-1/PD-L1 immune checkpoint and p53 loss facilitate tumor progression in activated B-cell diffuse large B-cell lymphomas.
Marién Pascual, María Mena-Varas, Eloy Francisco Robles, Maria-Jose Garcia-Barchino, Carlos Panizo, Thomas MacCarthy

Blood· May 2019

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Evolutionary effects of the AID/APOBEC family of mutagenic enzymes on human gamma-herpesviruses.
Teresa Martinez, Maxwell Shapiro, Sumita Bhaduri-McIntosh, Thomas MacCarthy

Virus Evol· January 2019

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Combinatorial Loss of the Enzymatic Activities of Viral Uracil-DNA Glycosylase and Viral dUTPase Impairs Murine Gammaherpesvirus Pathogenesis and Leads to Increased Recombination-Based Deletion in the Viral Genome.
Qiwen Dong, Kyle R Smith, Darby G Oldenburg, Maxwell Shapiro, William R Schutt, Thomas MacCarthy

mBio· October 2018

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