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    Daniel R Caffrey PHD

    TitleAssistant Professor
    InstitutionUniversity of Massachusetts Medical School
    DepartmentMedicine
    AddressUniversity of Massachusetts Medical School
    364 Plantation Street, LRB
    Worcester MA 01605
      Other Positions
      InstitutionUMMS - Graduate School of Biomedical Sciences
      DepartmentBiochemistry and Molecular Pharmacology

      InstitutionUMMS - Graduate School of Biomedical Sciences
      DepartmentBioinformatics and Computational Biology

      InstitutionUMMS - Programs, Centers and Institutes
      DepartmentBioinformatics and Integrative Biology

        Bibliographic 
        selected publications
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        1. Bossaller L, Rathinam VA, Bonegio R, Chiang PI, Busto P, Wespiser AR, Caffrey DR, Li QZ, Mohan C, Fitzgerald KA, Latz E, Marshak-Rothstein A. Overexpression of membrane-bound fas ligand (CD95L) exacerbates autoimmune disease and renal pathology in pristane-induced lupus. J Immunol. 2013 Sep 1; 191(5):2104-14.
          View in: PubMed
        2. Carpenter S, Aiello D, Atianand MK, Ricci EP, Gandhi P, Hall LL, Byron M, Monks B, Henry-Bezy M, Lawrence JB, O'Neill LA, Moore MJ, Caffrey DR, Fitzgerald KA. A long noncoding RNA mediates both activation and repression of immune response genes. Science. 2013 Aug 16; 341(6147):789-92.
          View in: PubMed
        3. Ermler ME, Yerukhim E, Schriewer J, Schattgen S, Traylor Z, Wespiser AR, Caffrey DR, Chen ZJ, King CH, Gale M, Colonna M, Fitzgerald KA, Buller RM, Hise AG. RNA Helicase Signaling Is Critical for Type I Interferon Production and Protection against Rift Valley Fever Virus during Mucosal Challenge. J Virol. 2013 May; 87(9):4846-60.
          View in: PubMed
        4. Aiello D, Caffrey DR. Evolution of specific protein-protein interaction sites following gene duplication. J Mol Biol. 2012 Oct 19; 423(2):257-72.
          View in: PubMed
        5. Caffrey DR, Fitzgerald KA. Immunology. Select inflammasome assembly. Science. 2012 Apr 27; 336(6080):420-1.
          View in: PubMed
        6. Caffrey DR, Zhao J, Song Z, Schaffer ME, Haney SA, Subramanian RR, Seymour AB, Hughes JD. siRNA Off-Target Effects Can Be Reduced at Concentrations That Match Their Individual Potency. PLoS One. 2011; 6(7):e21503.
          View in: PubMed
        7. Hornung V, Ablasser A, Charrel-Dennis M, Bauernfeind F, Horvath G, Caffrey DR, Latz E, Fitzgerald KA. AIM2 recognizes cytosolic dsDNA and forms a caspase-1-activating inflammasome with ASC. Nature. 2009 Mar 26; 458(7237):514-8.
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        8. Caffrey DR, Lunney EA, Moshinsky DJ. Prediction of specificity-determining residues for small-molecule kinase inhibitors. BMC Bioinformatics. 2008; 9:491.
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        9. Caffrey DR, Dana PH, Mathur V, Ocano M, Hong EJ, Wang YE, Somaroo S, Caffrey BE, Potluri S, Huang ES. PFAAT version 2.0: a tool for editing, annotating, and analyzing multiple sequence alignments. BMC Bioinformatics. 2007; 8:381.
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        10. Cheng AC, Coleman RG, Smyth KT, Cao Q, Soulard P, Caffrey DR, Salzberg AC, Huang ES. Structure-based maximal affinity model predicts small-molecule druggability. Nat Biotechnol. 2007 Jan; 25(1):71-5.
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        11. Lauw FN, Caffrey DR, Golenbock DT. Of mice and man: TLR11 (finally) finds profilin. Trends Immunol. 2005 Oct; 26(10):509-11.
          View in: PubMed
        12. Caffrey DR, Somaroo S, Hughes JD, Mintseris J, Huang ES. Are protein-protein interfaces more conserved in sequence than the rest of the protein surface? Protein Sci. 2004 Jan; 13(1):190-202.
          View in: PubMed
        13. Fitzgerald KA, Rowe DC, Barnes BJ, Caffrey DR, Visintin A, Latz E, Monks B, Pitha PM, Golenbock DT. LPS-TLR4 signaling to IRF-3/7 and NF-kappaB involves the toll adapters TRAM and TRIF. J Exp Med. 2003 Oct 6; 198(7):1043-55.
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        14. Hokamp K, Shields DC, Wolfe KH, Caffrey DR. Wrapping up BLAST and other applications for use on Unix clusters. Bioinformatics. 2003 Feb 12; 19(3):441-2.
          View in: PubMed
        15. Cotter PJ, Caffrey DR, Shields DC. Improved database searches for orthologous sequences by conditioning on outgroup sequences. Bioinformatics. 2002 Jan; 18(1):83-91.
          View in: PubMed
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