Graduate Publications

381 Publications

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Murashige D, Jang C, Neinast M, Edwards J, Cowan A, Hyman M, Rabinowitz J, Frankel D, Arany Z. Comprehensive quantification of fuel use by the failing and nonfailing human heart. Science. 2020;370(6514):364–368. PMCID: PMC7871704
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Murray L, Sheng X, Cristea I. Orchestration of protein acetylation as a toggle for cellular defense and virus replication. Nat Commun. 2018;9(1):4967. PMCID: PMC6251895
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Murray L, Combs A, Rekapalli P, Cristea I. Methods for characterizing protein acetylation during viral infection. Methods Enzymol. 2019;626:587–620. PMCID: PMC6889803
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Murray-Nerger L, Cristea I. Lamin post-translational modifications: emerging toggles of nuclear organization and function. Trends Biochem Sci. 2021;46(10):832–847. PMCID: PMC8793286
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Murray-Nerger L, Justice J, Rekapalli P, Hutton J, Cristea I. Lamin B1 acetylation slows the G1 to S cell cycle transition through inhibition of DNA repair. Nucleic Acids Res. 2021;49(4):2044–2064. PMCID: PMC7913768
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Murugan A, Husain K, Rust M, Hepler C, Bass J, Pietsch J, Swain P, Jena S, Toettcher J, Chakraborty A, Sprenger K, Mora T, Walczak A, Rivoire O, Wang S, Wood K, Skanata A, Kussell E, Ranganathan R, Shih H-Y, Goldenfeld N. Roadmap on biology in time varying environments. Phys Biol. 2021;18(4). PMCID: PMC8652373

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Neinast M, Jang C, Hui S, Murashige D, Chu Q, Morscher R, Li X, Zhan L, White E, Anthony T, Rabinowitz J, Arany Z. Quantitative Analysis of the Whole-Body Metabolic Fate of Branched-Chain Amino Acids. Cell Metab. 2019;29(2):417–429.e4. PMCID: PMC6365191
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Nelson C, Gleghorn J, Pang M-F, Jaslove J, Goodwin K, Varner V, Miller E, Radisky D, Stone H. Microfluidic chest cavities reveal that transmural pressure controls the rate of lung development. Development. 2017;144(23):4328–4335. PMCID: PMC5769635
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Nerger B, Jaslove J, Elashal H, Mao S, Košmrlj A, Link J, Nelson C. Local accumulation of extracellular matrix regulates global morphogenetic patterning in the developing mammary gland. Curr Biol. 2021;31(9):1903–1917.e6. PMCID: PMC8119325
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Nguyen T, Pappireddi N, Wühr M. Proteomics of nucleocytoplasmic partitioning. Curr Opin Chem Biol. 2019;48:55–63. PMCID: PMC6382543
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Nguyen T, Costa E, Deibert T, Reyes J, Keber F, Tomschik M, Stadlmeier M, Gupta M, Kumar C, Cruz E, Amodeo A, Gatlin J, Wühr M. Differential nuclear import sets the timing of protein access to the embryonic genome. Nat Commun. 2022;13(1):5887. PMCID: PMC9537182
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Niepielko M, Eagle W, Gavis E. Stochastic Seeding Coupled with mRNA Self-Recruitment Generates Heterogeneous Drosophila Germ Granules. Curr Biol. 2018;28(12):1872–1881.e3. PMCID: PMC6008217
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Nimgaonkar I, Archer N, Becher I, Shahrad M, LeDesma R, Mateus A, Caballero-Gómez J, Berneshawi A, Ding Q, Douam F, Gaska J, Savitski M, Kim H, Ploss A. Isocotoin suppresses hepatitis E virus replication through inhibition of heat shock protein 90. Antiviral Res. 2021;185:104997. PMCID: PMC8649941
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Nimgaonkar I, Ploss A. A porcine model for chronic hepatitis E. Hepatology. 2018;67(2):787–790. PMID: 28961321
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Nimgaonkar I, Ding Q, Schwartz R, Ploss A. Hepatitis E virus: advances and challenges. Nat Rev Gastroenterol Hepatol. 2018;15(2):96–110. PMID: 29162935
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Nirody J, Duran L, Johnston D, Cohen D. Tardigrades exhibit robust interlimb coordination across walking speeds and terrains. Proc Natl Acad Sci U S A. 2021;118(35). PMCID: PMC8536314
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Nofal M, Wang T, Yang L, Jankowski C, Li S, Han S, Parsons L, Frese A, Gitai Z, Anthony T, Wühr M, Sabatini D, Rabinowitz J. GCN2 adapts protein synthesis to scavenging-dependent growth. Cell Syst. 2022;13(2):158–172.e9. PMCID: PMC8961722

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Ochoa A, Storey J, Llinás M, Singh M. Beyond the E-Value: Stratified Statistics for Protein Domain Prediction. PLoS Comput Biol. 2015;11(11):e1004509. PMCID: PMC4648515
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Orman M, Henry T, DeCoste C, Brynildsen M. Analyzing Persister Physiology with Fluorescence-Activated Cell Sorting. Methods Mol Biol. 2016;1333:83–100. PMCID: PMC4908830
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Oslund R, Su X, Haugbro M, Kee J-M, Esposito M, David Y, Wang B, Ge E, Perlman D, Kang Y, Muir T, Rabinowitz J. Bisphosphoglycerate mutase controls serine pathway flux via 3-phosphoglycerate. Nat Chem Biol. 2017;13(10):1081–1087. PMCID: PMC5605442
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Ouzounov N, Nguyen J, Bratton B, Jacobowitz D, Gitai Z, Shaevitz J. MreB Orientation Correlates with Cell Diameter in Escherichia coli. Biophys J. 2016;111(5):1035–43. PMCID: PMC5018124
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Overman K, Choi D, Leung K, Shaevitz J, Berman G. Measuring the repertoire of age-related behavioral changes in Drosophila melanogaster. PLoS Comput Biol. 2022;18(2):e1009867. PMCID: PMC8903287

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Paczkowski J, McCready A, Cong J-P, Li Z, Jeffrey P, Smith C, Henke B, Hughson F, Bassler B. An Autoinducer Analogue Reveals an Alternative Mode of Ligand Binding for the LasR Quorum-Sensing Receptor. ACS Chem Biol. 2019;14(3):378–389. PMCID: PMC6601336
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Paczkowski J, Mukherjee S, McCready A, Cong J-P, Aquino C, Kim H, Henke B, Smith C, Bassler B. Flavonoids Suppress Virulence through Allosteric Inhibition of Quorum-sensing Receptors. J Biol Chem. 2017;292(10):4064–4076. PMCID: PMC5354481
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Pang M-F, Siedlik M, Han S, Stallings-Mann M, Radisky D, Nelson C. Tissue Stiffness and Hypoxia Modulate the Integrin-Linked Kinase ILK to Control Breast Cancer Stem-like Cells. Cancer Res. 2016;76(18):5277–87. PMCID: PMC5026611