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    Scott A Shaffer PhD

    TitleResearch Professor
    InstitutionUniversity of Massachusetts Medical School
    DepartmentBiochemistry and Molecular Pharmacology
    AddressUniversity of Massachusetts Medical School
    222 Maple Avenue
    Shrewsbury MA 01545
    Phone508-856-8917
      Other Positions
      InstitutionUMMS - Graduate School of Biomedical Sciences
      DepartmentBiochemistry and Molecular Pharmacology

      InstitutionUMMS - Programs, Centers and Institutes
      DepartmentBioinformatics and Integrative Biology

        Overview 
        Narrative
        Director, UMMS Proteomics and Mass Spectrometry Facility

        Dr.  Scott Shaffer



        Bibliographic 
        selected publications
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        1. Valencia A, Sapp E, Kimm JS, McClory H, Ansong KA, Yohrling G, Kwak S, Kegel KB, Green KM, Shaffer SA, Aronin N, Difiglia M. Striatal Synaptosomes from Hdh(140Q/140Q) Knock-in Mice have Altered Protein Levels, Novel Sites of Methionine Oxidation, and Excess Glutamate Release after Stimulation. J Huntingtons Dis. 2013 Oct 1; 2(4):459-475.
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        2. Jones KA, Kim PD, Patel BB, Kelsen SG, Braverman A, Swinton DJ, Gafken PR, Jones LA, Lane WS, Neveu JM, Leung HC, Shaffer SA, Leszyk JD, Stanley BA, Fox TE, Stanley A, Hall MJ, Hampel H, South CD, de la Chapelle A, Burt RW, Jones DA, Kopelovich L, Yeung AT. Immunodepletion Plasma Proteomics by TripleTOF 5600 and Orbitrap Elite/LTQ-Orbitrap Velos/Q Exactive Mass Spectrometers. J Proteome Res. 2013 Sep 4.
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        3. Deligiannidis KM, Sikoglu EM, Shaffer SA, Frederick B, Svenson AE, Kopoyan A, Kosma CA, Rothschild AJ, Moore CM. GABAergic neuroactive steroids and resting-state functional connectivity in postpartum depression: A preliminary study. J Psychiatr Res. 2013 Mar 14.
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        4. Ivanov AR, Colangelo C, Dufresne CP, Friedman DB, Lilley KS, Mechtler K, Phinney BS, Rose KL, Rudnick PA, Searle BC, Shaffer SA, Weintraub ST. Interlaboratory studies and initiatives developing standards for proteomics. Proteomics. 2013 Jan 14.
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        5. Zhao C, Gao Q, Roberts AG, Shaffer SA, Doneanu CE, Xue S, Goodlett DR, Nelson SD, Atkins WM. Cross-Linking Mass Spectrometry and Mutagenesis Confirm the Functional Importance of Surface Interactions between CYP3A4 and Holo/Apo Cytochrome b(5). Biochemistry. 2012 Nov 14.
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        6. Singh G, Kucukural A, Cenik C, Leszyk JD, Shaffer SA, Weng Z, Moore MJ. The Cellular EJC Interactome Reveals Higher-Order mRNP Structure and an EJC-SR Protein Nexus. Cell. 2012 Oct 17.
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        7. Rudra D, Deroos P, Chaudhry A, Niec RE, Arvey A, Samstein RM, Leslie C, Shaffer SA, Goodlett DR, Rudensky AY. Transcription factor Foxp3 and its protein partners form a complex regulatory network. Nat Immunol. 2012 Aug 26.
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        8. Paquette N, Conlon J, Sweet C, Rus F, Wilson L, Pereira A, Rosadini CV, Goutagny N, Weber AN, Lane WS, Shaffer SA, Maniatis S, Fitzgerald KA, Stuart L, Silverman N. Serine/threonine acetylation of TGFß-activated kinase (TAK1) by Yersinia pestis YopJ inhibits innate immune signaling. Proc Natl Acad Sci U S A. 2012 Jul 16.
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        9. Xie J, Peng M, Guillemette S, Quan S, Maniatis S, Wu Y, Venkatesh A, Shaffer SA, Brosh RM, Cantor SB. FANCJ/BACH1 Acetylation at Lysine 1249 Regulates the DNA Damage Response. PLoS Genet. 2012 Jul; 8(7):e1002786.
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        10. Li Y, Powell DA, Shaffer SA, Rasko DA, Pelletier MR, Leszyk JD, Scott AJ, Masoudi A, Goodlett DR, Wang X, Raetz CR, Ernst RK. LPS remodeling is an evolved survival strategy for bacteria. Proc Natl Acad Sci U S A. 2012 May 29; 109(22):8716-21.
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        11. Keeler AM, Conlon T, Walter G, Zeng H, Shaffer SA, Dungtao F, Erger K, Cossette T, Tang Q, Mueller C, Flotte TR. Long-term Correction of Very Long-chain Acyl-CoA Dehydrogenase Deficiency in Mice Using AAV9 Gene Therapy. Mol Ther. 2012 Jun; 20(6):1131-8.
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        12. Chakrabarti L, Zahra R, Jackson SM, Kazemi-Esfarjani P, Sopher BL, Mason AG, Toneff T, Ryu S, Shaffer S, Kansy JW, Eng J, Merrihew G, MacCoss MJ, Murphy A, Goodlett DR, Hook V, Bennett CL, Pallanck LJ, La Spada AR. Mitochondrial dysfunction in NnaD mutant flies and Purkinje cell degeneration mice reveals a role for Nna proteins in neuronal bioenergetics. Neuron. 2010 Jun 24; 66(6):835-47.
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        13. Goo YA, Li Z, Pajkovic N, Shaffer S, Taylor G, Chen J, Campbell D, Arnstein L, Goodlett DR, van Breemen RB. Systematic investigation of lycopene effects in LNCaP cells by use of novel large-scale proteomic analysis software. Proteomics Clin Appl. 2007 May 1; 1(5):513-523.
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        14. Trute M, Gallis B, Doneanu C, Shaffer S, Goodlett D, Gallagher E. Characterization of hepatic glutathione S-transferases in coho salmon (Oncorhynchus kisutch). Aquat Toxicol. 2007 Feb 28; 81(2):126-36.
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        15. Singer JW, Shaffer S, Baker B, Bernareggi A, Stromatt S, Nienstedt D, Besman M. Paclitaxel poliglumex (XYOTAX; CT-2103): an intracellularly targeted taxane. Anticancer Drugs. 2005 Mar; 16(3):243-54.
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        16. Singer JW, Baker B, De Vries P, Kumar A, Shaffer S, Vawter E, Bolton M, Garzone P. Poly-(L)-glutamic acid-paclitaxel (CT-2103) [XYOTAX], a biodegradable polymeric drug conjugate: characterization, preclinical pharmacology, and preliminary clinical data. Adv Exp Med Biol. 2003; 519:81-99.
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        17. Shaffer SA, Tang K, Anderson GA, Prior DC, Udseth HR, Smith RD. A Novel Ion Funnel for Ion Focusing at Elevated Pressure Using Electrospray Ionization Mass Spectrometry. Rapid. Commun. Mass Spectrom. 1997; 11(16):1813-17.
        18. Shaffer SA, Wolken JK, Turecek F. Neutralization-Reionization of Alkenylammonium Cations. An Experimental and Ab Initio Study of Intramolecular N-H…C=C Interactions in Cations and Hypervalent Radicals. J Am Soc Mass Spectrom. 1997; 8(11):1111-23.
        19. Shaffer SA, Sadilek M, Turecek F, Hop CECA. Protonation of Isomeric Methoxyhexenes. Effects of Double Bond…H+…OCH3 Interaction. Int J Mass Spectrom. 1996; 160(1-3):137-55.
        20. Shaffer SA, Sadilek M, Turecek F. Hypervalent Ammonium Radicals. Effects of Alkyl Groups and Aromatic Substituents. J Org Chem. 1996; 61(16):5234-45.
        21. Shaffer SA, Turecek F. Hydrogen Bonding in Transient Bifunctional Hypervalent Radicals by Neutralization-Reionization Mass Spectrometry. J Am Soc Mass Spectrom. 1995; 6(11):1004-18.
        22. Nguyen VQ, Shaffer SA, Turecek F, Hop CECA. Franck-Condon Dominated Chemistry. Dissociations of Silicon-Centered Radicals Prepared by Femtosecond Reduction of Their Cations in the Gas Phase. J Phys Chem. 1995; 99(42):15454-64.
        23. Shaffer SA, Turecek F. Hydrogentrimethylammonium: A Marginally Stable Hypervalent Radical. J Am Chem Soc. 1994; 116(19):8647-53.
        24. Kuhns DW, Shaffer SA, Tran TB, Turecek F. The Methylthiomethyl Radical. A Variable-Time Neutralization-Reionization and Ab Initio Study. J Phys Chem. 1994; 98(18):4845-53.
        25. Shaffer SA, Cerny RL, Turecek F. The (Dimethylamino)methyl Radical. A Neutralization-Reionization and Ab Initio Study. J Am Chem Soc. 1993; 115(25):12117-24.
        26. Turecek F, Gu M, Shaffer SA. Novel tandem quadrupole-acceleration-deceleration mass spectrometer for neutralization-reionization studies. J Am Soc Mass Spectrom. 1992 Jul; 3(5):493-501.
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