Graduate Studies

Graduate Publications


Bosse JB, Tanneti NS, Hogue IB, Enquist LW. Open LED Illuminator: A Simple and Inexpensive LED Illuminator for Fast Multicolor Particle Tracking in Neurons. PLoS One. 2015;10(11):e0143547. PMCID: PMC4658086

Crow MS, Javitt A, Cristea IM. A proteomics perspective on viral DNA sensors in host defense and viral immune evasion mechanisms. J Mol Biol. Jun 5, 2015;427(11):1995-2012. PMCID: PMC4669196

Budayeva HG, Rowland EA, Cristea IM. Intricate Roles of Mammalian Sirtuins in Defense against Viral Pathogens. J Virol. 2015;90(1):5-8. PMCID: PMC4702534

Diner BA, Cristea IM. Blowing Off Steam: Virus Inhibition of cGAS DNA Sensing. Cell Host Microbe. Sep 9, 2015;18(3):270-2. Pubmed

Diner BA, Lum KK, Cristea IM. The emerging role of nuclear viral DNA sensors. J Biol Chem. Oct 30, 2015;290(44):26412-21. PMCID: PMC4646299

Diner BA, Lum KK, Javitt A, Cristea IM. Interactions of the Antiviral Factor Interferon Gamma-Inducible Protein 16 (IFI16) Mediate Immune Signaling and Herpes Simplex Virus-1 Immunosuppression. Mol Cell Proteomics. Sep, 2015;14(9):2341-56. PMCID: PMC4563720

Douam F, Gaska JM, Winer BY,Ding Q, von Schaewen M, Ploss A. (2015) Genetic Dissection of the Host Tropism of Human-Tropic Pathogens. Annu Rev Genet.  49:21-45. PMID: 26407032.

Maksimov MO, Koos JD, Zong C, Lisko B, Link AJ. (2015) Elucidating the specificity determinants of the AtxE2 Lasso Peptide Isopeptidase. J Biol Chem. 290(52):30806-12. PMCID: 4692210.

DiLoreto R, Murphy CT. (2015) The cell biology of aging. Mol Biol Cell. 26(25):4524-31. PMID:26668170.

Hahm JH, Kim S, DiLoreto R, Shi C, Lee SJ, Murphy CT, Nam HG. C. elegans maximum velocity correlates with healthspan and is maintained in worms with an insulin receptor mutation. Nat Commun. 2015;6:8919. PMCID: PMC4656132

Suckling RJ, Poon PP, Travis SM, Majoul IV, Hughson FM, Evans PR, Duden R, Owen DJ (2015) Structural basis for the binding of tryptophan-based motifs by δ-COP. Proc.Natl.Acad.Sci. USA  112, 14242-14247.  PMCID: 4655537.

Engel EA, Song R, Koyuncu OO, Enquist LW. Investigating the biology of alpha herpesviruses with MS-based proteomics. Proteomics. Jun, 2015;15(12):1943-56. PMCID: PMC4482226

Giguere SS, Guise AJ, Jean Beltran PM, Joshi PM, Greco TM, Quach OL, Kong J, Cristea IM. The proteomic profile of deleted in breast cancer 1 (DBC1) interactions points to a multi-faceted regulation of gene expression. Mol Cell Proteomics. Dec 9, 2015. Pubmed

Greene CS, Krishnan A, Wong AK, Ricciotti E, Zelaya RA, Himmelstein DS, Zhang R, Hartmann BM, Zaslavsky E, Sealfon SC, Chasman DI, FitzGerald GA, Dolinski K, Grosser T, Troyanskaya OG. Understanding multicellular function and disease with human tissue-specific networks. Nat Genet. Jun, 2015;47(6):569-76. Pubmed

Orzalli MH, Broekema NM, Diner BA, Hancks DC, Elde NC, Cristea IM, Knipe DM. cGAS-mediated stabilization of IFI16 promotes innate signaling during herpes simplex virus infection. Proc Natl Acad Sci U S A. Apr 7, 2015;112(14):E1773-81. PMCID: PMC4394261

Rath S, Donovan J, Whitney G, Chitrakar A, Wang W, Korennykh A. Human RNase L tunes gene expression by selectively destabilizing the microRNA-regulated transcriptome. Proc Natl Acad Sci U S A. Dec 29, 2015;112(52):15916-21. PMCID: PMC4702973

Ren G, Esposito M, Kang Y. Bone metastasis and the metastatic niche. J Mol Med (Berl). Nov, 2015;93(11):1203-12. PMCID: PMC4636917

Sandvik EL, Fazen CH, Henry TC, Mok WW, Brynildsen MP. Non-Monotonic Survival of Staphylococcus aureus with Respect to Ciprofloxacin Concentration Arises from Prophage-Dependent Killing of Persisters. Pharmaceuticals (Basel). 2015;8(4):778-92. PMCID: PMC4695809

Schaap P, Barrantes I, Minx P, Sasaki N, Anderson RW, Benard M, Biggar KK, Buchler NE, Bundschuh R, Chen X, Fronick C, Fulton L, Golderer G, Jahn N, Knoop V, Landweber LF, Maric C, Miller D, Noegel AA, Peace R, Pierron G, Sasaki T, Schallenberg-Rudinger M, Schleicher M, Singh R, Spaller T, Storey KB, Suzuki T, Tomlinson C, Tyson JJ, Warren WC, Werner ER, Werner-Felmayer G, Wilson RK, Winckler T, Gott JM, Glockner G, Marwan W. The Physarum polycephalum Genome Reveals Extensive Use of Prokaryotic Two-Component and Metazoan-Type Tyrosine Kinase Signaling. Genome Biol Evol. 2015;8(1):109-25. Pubmed

Scull MA, Shi C, de Jong YP, Gerold G, Ries M, von Schaewen M, Donovan BM, Labitt RN, Horwitz JA, Gaska JM, Hrebikova G, Xiao JW, Flatley B, Fung C, Chiriboga L, Walker CM, Evans DT, Rice CM, Ploss A. Hepatitis C virus infects rhesus macaque hepatocytes and simianized mice. Hepatology. Jul, 2015;62(1):57-67. PMCID: PMC4482775

Alfaro-Aco R, Petry S. (2015) Building the microtubule cytoskeleton piece by piece. J Biol Chem. PMCID: 4498055

Winer BY, Ploss A. (2015) Determinants of hepatitis B and delta virus host tropism. Curr Opin Virol. 13:109-16. PMCID: 4550528.

Barr J, Gordon D, Schedl P, Deshpande G. Xenotransplantation exposes the etiology of azoospermia factor (AZF) induced male sterility. Bioessays. Mar, 2015;37(3):278-83. PMCID: PMC4362778

Stein RA, Smith JA, Rose MD. (2015) An Amphiphysin-like Domain in Fus2p is Required for Rvs161p Interaction and Cortical Localization. G3 (Bethesda). [Epub ahead of print]

Shrestha R, Little KA, Tamayo JV, Li W, Perlman DH, Devenport D (2015) “Mitotic Control of Planar Cell Polarity by Polo-like Kinase 1.” Dev Cell Jun 8;33(5):522-34. PMCID: 4464975

Esposito M, Kang Y. (2015) RAI2: Linking retinoic acid signaling with metastasis suppression. Cancer Discov. 5: 466-8. PMCID: 4422076

Alečković M, Kang Y. (2015) “Bone marrow stroma-derived miRNAs as regulators, biomarkers and therapeutic targets of bone metastasis.” Bonekey Rep. Apr 15;4:671. PMCID: 4398005

Erlich JC, Brunton BW, Duan CA, Hanks TD, Brody CD. (2015) “Distinct effects of prefrontal and parietal cortex inactivations on an accumulation of evidence task in the rat.” Elife. Apr 14;4. PMCID: 4392479

Gaska JM, Ploss A. "Study of viral pathogenesis in humanized mice." Curr Opin Virol. 2015 Apr;11:14-20. PMCID: 4456257

Donovan J, Whitney G, Rath S, Korennykh A. (2015) “Structural mechanism of sensing long dsRNA via a noncatalytic domain in human oligoadenylate synthetase 3.” Mar 31;112 (13):3949-54 Proc Natl Acad Sci U S A. PMCID: 4386348

Koyuncu OO, Song R, Greco TM, Cristea IM, Enquist LW. (2015) “The number of alphaherpesvirus particles infecting axons and the axonal protein repertoire determines the outcome of neuronal infection.” MBio. Mar 24;6(2). PMCID: 4453538

Wang J, Kaletsky R, Silva M, ... Murphy CT, Barr MM. (2015) Cell-Specific Transcriptional Profiling of Ciliated Sensory Neurons Reveals Regulators of Behavior and Extracellular Vesicle Biogenesis. Curr Biol. 25(24):3232-8. Pubmed

Alečković M, Kang Y. (2015) Welcoming treat: Astrocyte-Derived exosomes induce PTEN suppression to foster brain metastasis. Cancer Cell. 28(5):554-6. Pubmed

Wong KK, Li W, An Y, Duan Y, Li Z, Kang Y, Yan Y. beta-Spectrin regulates the hippo signaling pathway and modulates the basal actin network. J Biol Chem. Mar 6, 2015;290(10):6397-407. PMCID: PMC4358275

Zhu Q, Wong AK, Krishnan A, Aure MR, Tadych A, Zhang R, Corney DC, Greene CS, Bongo LA, Kristensen VN, Charikar M, Li K, Troyanskaya OG. Targeted exploration and analysis of large cross-platform human transcriptomic compendia. Nat Methods. Mar, 2015;12(3):211-4, 3 p following 214. PMCID: PMC4768301

DeHart CJ, Perlman DH, Flint SJ. (2015) “Impact of the Adenoviral E4 Orf3 Protein on the Activity and Posttranslational Modification of p53.” J Virol. Mar 15;89(6):3209-20. PMCID: 4337557.

Morgenstein RM, Bratton BP, Nguyen JP, Ouzounov N, Shaevitz JW, Gitai Z. (2015) RodZ links MreB to cell wall synthesis to mediate MreB rotation and robust morphogenesis. Proc Natl Acad Sci U S A.   PMCID:4603514

Mathias RA, Guise AJ, Cristea IM. (2015) “Post-translational Modifications Regulate Class IIa Histone Deacetylase (HDAC) Function in Health and Disease.” Mol Cell Proteomics. Mar;14(3):456-470. PMCID: 4349969.

Persikov AV, Wetzel JL, Rowland EF, Oakes BL, Xu DJ, Singh M, Noyes MB. (2015) “A systematic survey of the Cys2His2 zinc finger DNA-binding landscape.” Nucleic Acids Res. Feb 18;43(3):1965-84.PMCID: PMC4330361.

Miller LC, O'Loughlin CT, Zhang Z, Siryaporn A, Silpe JE, Bassler BL, Semmelhack MF. (2015) “Development of Potent Inhibitors of Pyocyanin Production in Pseudomonas aeruginosa.” J Med Chem. Feb 12;58(3):1298-306. PMCID: 4332565.

Diner BA, Li T, Greco TM, Crow MS, Fuesler JA, Wang J, Cristea IM. (2015) “The functional interactome of PYHIN immune regulators reveals IFIX is a sensor of viral DNA.” Mol Syst Biol. Feb 9;11:787. PMCID: 4358659.

LaRue KM, Clemens J, Berman GJ, Murthy M. (2015) Acoustic duetting in Drosophila virilis relies on the integration of auditory and tactile signals. 5;4. PMCID: 4456510

Lakhina V, Arey RN, Kaletsky R, Kauffman A, Stein G, Keyes W, Xu D, Murphy CT. (2015) “Genome-wide functional analysis of CREB/long-term memory-dependent transcription reveals distinct basal and memory gene expression programs.” Neuron. Jan 21;85(2):330-45. PMCID: 4340687.

Alečković M, Kang Y. (2015) “Regulation of cancer metastasis by cell-free miRNAs”. Biochim Biophys Acta. Jan;18 55 (1):24-42. PMCID: 4312713

Feng L, Rutherford ST, Papenfort K, Bagert JD, van Kessel JC, Tirrell DA, Wingreen NS, Bassler BL. (2015) “A qrr noncoding RNA deploys four different regulatory mechanisms to optimize quorum-sensing dynamics.” Cell. Jan 15;160(1-2):228-40. PMCID: 4313533.

 Ke X, Miller LC, Bassler BL. (2015) “Determinants governing ligand specificity of the Vibrio             harveyi LuxN quorum-sensing receptor.” Mol Microbiol. Jan;95(1):127-42. PMCID: 4275348

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