Publications

 

Petit MJ, Shah PS. Mapping Arbovirus-Vector Interactions Using Systems Biology Approaches. Frontiers in Cellular and Infection Microbiology. 2019 Jan 7. doi.org/10.3389/fcimb.2018.00440

 

Shah PS, Link N, Jang GM, Sharp PP, Zhu T, Swaney DL, Johnson JR, Von Dollen J, Ramage HR, Satkamp L, Newton B, Hüttenhain R, Petit MJ, Baum T, Everitt A, Laufman O, Tassetto M, Shales M, Stevenson E, Iglesias GN, Shokat L, Tripathi S, Balasubramaniam V, Webb LG, Aguirre S, Willsey AJ, Garcia-Sastre A, Pollard KS, Cherry S, Gamarnik AV, Marazzi I, Taunton J, Fernandez-Sesma A, Bellen HJ, Andino R, Krogan NJ. Comparative Flavivirus-Host Protein Interaction Mapping Reveals Mechanisms of Dengue and Zika Virus Pathogenesis. Cell. 2018 Dec 13. doi: 10.1016/j.cell.2018.11.028 PMID 30550790.

 

Fontaine KA, Leon KE, Khalid MM, Tomar S, Jimenez-Morales D, Dunlap M, Kaye JA, Shah PS, Finkbeiner S, Krogan NJ, Ott M.The Cellular NMD Pathway Restricts Zika Virus Infection and Is Targeted by the Viral Capsid Protein. MBio. 2018 Nov 6. doi: 10.1128/mBio.02126-18. PMID 29191913.

 

Eckhardt M, Zhang W, Gross AM, Von Dollen J, Johnson JR, Franks-Skiba KE, Swaney DL, Johnson TL, Jang GM, Shah PS, Brand TM, Archambault J, Kreisberg JF, Grandis JR, Ideker T, Krogan NJ. Multiple Routes to Oncogenesis Are Promoted by the Human Papillomavirus-Host Protein Network. Cancer Discov. 2018 Sep 12. doi: 10.1158/2159-8290.CD-17-1018. PMID 30209081.

 

De Maio FA, Risso G, Iglesias NG, Shah P, Pozzi B, Gebhard LG, Mammi P, Mancini E1 Yanovsky MJ, Andino R, Krogan N, Srebrow A,Gamarnik AV. The Dengue Virus NS5 Protein Intrudes in the Cellular Spliceosome and Modulates Splicing. PLoS Pathogens. 2016 Aug 30;12(8):e1005841 PMID 27575636.

 

Heaton NS, Moshinka N, Fenouil R, Gardner TJ, Aguirre S, Shah PS, Zhao N, Manganaro L, Hultquist J, Noel J, Sachs D, Hamilton J, Leon PE, Chawdury A, Tripathy S, Melegari C, Campisi L, Hai R, Metreveli G, Gamarnik AV, Garcia-Sastre A, Greenbaum B, Simo V, Fernandez-Sesma A, Krogan NJ, Mulder LCF, van Bakel H, Tortorella D, Taunton J, Palese P, Marazzi I. Limiting influenza virus, HIV and dengue virus infection by targeting viral proteostasis. Immunity. 2016 Feb 16;44(2):438 PMID 26789921.

 

Shah PSWojcechowskyj JA, Eckhardt M, Krogan NJ. Comparative mapping of host-pathogen protein-protein interactions. Current Opinion in Microbiology. 2015 Oct;27:62-8. PMID 26275922

 

Ramage HR, Kumar GR, Verschueren E, Johnson JR, Von Dollen J, Johnson T, Newton B, Shah P, Horner J, Krogan NJ, Ott M. A combined proteomics/genomics approach links hepatitis C virus infection with nonsense-mediated mRNA decay. Molecular Cell . 2015 Jan 22;57(2):329-40. PMID 25616068.

 

Miller-Jensen K, Skupsky R, Shah PSArkin AP, Schaffer DV. Genetic Selection for Context-Dependent Stochastic Phenotypes: Sp1 and TATA Mutations Increase Phenotypic Noise in HIV-1 Gene Expression. PLoS Computational Biology. 2013 July (7) e1003135; PMID 23874178.

 

Ashton RS, Conway A, Pangarkar C, Bergen J, Lim KI, Shah P, Bissell M, Schaffer DV. Astrocytes regulate adult hippocampal neurogenesis through ephrin-B signaling. Nature Neuroscience. 2012 Oct;15(10):1399-406. PMID 22983209.

 

Shah PS, Pham NP, Schaffer DV. HIV Develops Indirect Cross-resistance to Combinatorial RNAi Targeting Two Distinct and Spatially Distant Sites. Molecular Therapy. 2012 Apr;20(4):840-8. PMID 22294151.

 

Shah PSSchaffer DV. Antiviral RNAi: Translating Science Towards Therapeutic Success. Pharmaceutical Research. 2011 Dec;28(12):2966-82. PMID 21826573.

 

Aviran S, Shah PSSchaffer DV, Arkin AP. Computational Models of HIV-1 Resistance to Gene Therapy Elucidate Therapy Design Principles. PLoS Computational Biology. 2010 Aug 12;6(8) e1000883. PMID 20711350.

 

Shah PSSchaffer DV. Gene therapy takes a cue from HAART: Combinatorial antiviral therapeutics reach the clinic. Science Translational Medicine.2010 Jun:2(36). PMID 20555021

 

Burnett JC, Miller-Jensen K, Shah PS, Arkin AP, Schaffer DV. Control of stochastic gene expression by host factors at the HIV promoter. PLoS Pathogens. 2009 Jan;5(1) e1000260. PMID 19132086.

 

Leonard JN (co-first author), Shah PS (co-first author), Burnett JC, Schaffer DV. HIV evades RNA interference directed at TAR by an indirect compensatory mechanism. Cell Host and Microbe. 2008 Nov 13;4(5):484-94.*   *Featured open-access article. PMID 18996348.

 

Liu, S, Pereira NA, Teo JJ, Miller P, Shah P, Song Z.  Mitochondrially targeted Bcl-2 and Bcl-X(L) chimeras elicit different apoptotic responses.  Molecules and Cells, 2007 Dec 31;24(3):378-87. PMID 18182854

 

Vahedi-Faridi A, Brault PA, Shah P, Kim YW, Dunham WR, Funk MO Jr.  Interaction between non-heme iron of lipoxygenases and cumene hydroperoxide: basis for enzyme activation, inactivation, and inhibition.  Journal of the American Chemical Society. 2004 Feb 25;126(7):2006-15. PMID 14971933

 

Brault PA, Kariapper MS, Pham CV, Flowers RA 2nd, Gunning WT, Shah P, Funk MO Jr.  Protein micelles from lipoxygenase 3.  Biomacromolecules. 2002 Jul-Aug;3(4):649-54. PMID 12099806.