Publications by authors named "Boyang Zhao"

24Publications

Effect of cytosine hydroxymethylation on DNA charge transport.

Mol Cell Biochem 2021 Jan 6. Epub 2021 Jan 6.

Department of Physics, Institute of Science, Nagpur, 440008, India.

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January 2021

Multi-scale Predictions of Drug Resistance Epidemiology Identify Design Principles for Rational Drug Design.

Cell Rep 2020 03;30(12):3951-3963.e4

The Pennsylvania State University, Department of Biomedical Engineering, University Park, PA 16802, USA; The Huck Institute for the Life Sciences, Center for Resistance Evolution, The Pennsylvania State University, University Park, PA 16802, USA. Electronic address:

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March 2020

Evolution of the nonsense-mediated decay pathway is associated with decreased cytolytic immune infiltration.

PLoS Comput Biol 2019 10 28;15(10):e1007467. Epub 2019 Oct 28.

Department of Biomedical Engineering, College of Engineering, The Pennsylvania State University, University Park, Pennsylvania, United States of America.

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October 2019

Human VP8* mAbs neutralize rotavirus selectively in human intestinal epithelial cells.

J Clin Invest 2019 08 12;129(9):3839-3851. Epub 2019 Aug 12.

Departments of Medicine and Microbiology and Immunology, School of Medicine, Stanford University, Stanford, California, USA.

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August 2019

GII.4 Norovirus Protease Shows pH-Sensitive Proteolysis with a Unique Arg-His Pairing in the Catalytic Site.

J Virol 2019 03 5;93(6). Epub 2019 Mar 5.

The Verna and Marrs McLean Department of Biochemistry and Molecular Biology, Baylor College of Medicine, Houston, Texas, USA

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March 2019

Modeling Tumor Clonal Evolution for Drug Combinations Design.

Trends Cancer 2016 03;2(3):144-158

The David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139.

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March 2016

Differential selective pressure alters rate of drug resistance acquisition in heterogeneous tumor populations.

Sci Rep 2016 11 7;6:36198. Epub 2016 Nov 7.

Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139, USA.

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November 2016

Inherited Disease Genetics Improves the Identification of Cancer-Associated Genes.

PLoS Genet 2016 06 15;12(6):e1006081. Epub 2016 Jun 15.

Discovery/Translational Biology, ARIAD Pharmaceuticals, Cambridge, Massachusetts, United States of America.

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June 2016

Exploiting Temporal Collateral Sensitivity in Tumor Clonal Evolution.

Cell 2016 Mar 25;165(1):234-246. Epub 2016 Feb 25.

The David H. Koch Institute for Integrative Cancer Research, Massachusetts Institute of Technology, Cambridge, MA 02139, USA; Department of Biology, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address:

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March 2016

Reply to Azuaje: Predicting effective combined therapies for heterogeneous tumors.

Proc Natl Acad Sci U S A 2014 Oct 24;111(41):E4288. Epub 2014 Sep 24.

The David H. Koch Institute for Integrative Cancer Research, and Departments of Biology and Biological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139

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October 2014

Intratumor heterogeneity alters most effective drugs in designed combinations.

Proc Natl Acad Sci U S A 2014 Jul 7;111(29):10773-8. Epub 2014 Jul 7.

The David H. Koch Institute for Integrative Cancer Research, andDepartments of Biology andBiological Engineering, Massachusetts Institute of Technology, Cambridge, MA 02139

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July 2014

Addressing genetic tumor heterogeneity through computationally predictive combination therapy.

Cancer Discov 2014 Feb 6;4(2):166-74. Epub 2013 Dec 6.

1Computational and Systems Biology Program, 2The David H. Koch Institute for Integrative Cancer Research, Departments of 3Biology, and 4Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts.

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February 2014

Updates on the web-based VIOLIN vaccine database and analysis system.

Nucleic Acids Res 2014 Jan 19;42(Database issue):D1124-32. Epub 2013 Nov 19.

Unit for Laboratory Animal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA, Department of Microbiology and Immunology, University of Michigan Medical School, Ann Arbor, MI 48109, USA, Center for Computational Medicine and Biology, University of Michigan Medical School, Ann Arbor, MI 48109, USA, Comprehensive Cancer Center, University of Michigan Medical School, Ann Arbor, MI 48109, USA, College of Pharmacy, University of Michigan, Ann Arbor, MI 48109, USA, School of Public Health, University of Michigan, Ann Arbor, MI 48109, USA, Division of Comparative Medicine, University of South Florida, Tampa, FL 33612, USA, Department of Neurology, University of Michigan, 48109, Ann Arbor, MI, USA, College of Literature, Science, and the Arts, University of Michigan, Ann Arbor, MI 48109, USA, Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI 48109, USA, Department of Internal Medicine, University of Michigan Medical School, Ann Arbor, MI 48109, USA and Department of Biological Chemistry, University of Michigan Medical School, Ann Arbor, MI 48109, USA.

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January 2014

CPhos: a program to calculate and visualize evolutionarily conserved functional phosphorylation sites.

Proteomics 2012 Nov 29;12(22):3299-303. Epub 2012 Oct 29.

National Heart, Lung, and Blood Institute, Epithelial Systems Biology Laboratory, National Institutes of Health, Bethesda, MD 20892-1603, USA.

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November 2012

Large-scale phosphotyrosine proteomic profiling of rat renal collecting duct epithelium reveals predominance of proteins involved in cell polarity determination.

Am J Physiol Cell Physiol 2012 Jan 21;302(1):C27-45. Epub 2011 Sep 21.

Epithelial Systems Biology Laboratory, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, Maryland 20892-1603, USA.

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January 2012

Kinetic mechanism for the excision of hypoxanthine by Escherichia coli AlkA and evidence for binding to DNA ends.

Biochemistry 2011 May 28;50(20):4350-9. Epub 2011 Apr 28.

Department of Biomedical Engineering, University of Michigan, Ann Arbor, MI 48109, USA.

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May 2011

Large-scale phosphoproteomic analysis of membrane proteins in renal proximal and distal tubule.

Am J Physiol Cell Physiol 2011 Apr 5;300(4):C755-70. Epub 2011 Jan 5.

Epithelial Systems Biology Laboratory, National Heart, Lung, and Blood Institute, National Institutes of Health, Bethesda, Maryland, USA.

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April 2011

VIOLIN: vaccine investigation and online information network.

Nucleic Acids Res 2008 Jan 19;36(Database issue):D923-8. Epub 2007 Nov 19.

Unit for Laboratory Animal Medicine, Department of Microbiology and Immunology, Center for Computational Medicine and Biology, University of Michigan, Ann Arbor, MI 48109, USA.

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January 2008