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Scott Gerber

TitleResearch Assistant Professor
InstitutionSchool of Medicine and Dentistry
DepartmentMicrobiology and Immunology
AddressUniversity of Rochester Medical Center
School of Medicine and Dentistry
601 Elmwood Ave, Box 672
Rochester NY 14642
 
 Selected Publications
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  1. Gilmore JM, Milloy JA, Gerber SA. SILAC Surrogates: Rescue of Quantitative Information for Orphan Analytes in Spike-In SILAC Experiments. Anal Chem. 2013 Nov 19; 85(22):10812-9.
    View in: PubMed
  2. Hofmann AP, Gerber SA, Croy BA. Uterine natural killer cells pace early development of mouse decidua basalis. Mol Hum Reprod. 2014 Jan; 20(1):66-76.
    View in: PubMed
  3. Sedlacek AL, Gerber SA, Randall TD, van Rooijen N, Frelinger JG, Lord EM. Generation of a dual-functioning antitumor immune response in the peritoneal cavity. Am J Pathol. 2013 Oct; 183(4):1318-28.
    View in: PubMed
  4. Schweppe DK, Rigas JR, Gerber SA. Quantitative phosphoproteomic profiling of human non-small cell lung cancer tumors. J Proteomics. 2013 Oct 8; 91:286-96.
    View in: PubMed
  5. Yokota SJ, Facciponte JG, Kelleher RJ, Shultz LD, Loyall JL, Parsons RR, Odunsi K, Frelinger JG, Lord EM, Gerber SA, Balu-Iyer SV, Bankert RB. Changes in ovarian tumor cell number, tumor vasculature, and T cell function monitored in vivo using a novel xenograft model. Cancer Immun. 2013; 13:11.
    View in: PubMed
  6. Soundararajan M, Roos AK, Savitsky P, Filippakopoulos P, Kettenbach AN, Olsen JV, Gerber SA, Eswaran J, Knapp S, Elkins JM. Structures of Down Syndrome Kinases, DYRKs, Reveal Mechanisms of Kinase Activation and Substrate Recognition. Structure. 2013 Jun 4; 21(6):986-96.
    View in: PubMed
  7. Gerber SA, Sedlacek AL, Cron KR, Murphy SP, Frelinger JG, Lord EM. IFN-? Mediates the Antitumor Effects of Radiation Therapy in a Murine Colon Tumor. Am J Pathol. 2013 Jun; 182(6):2345-54.
    View in: PubMed
  8. Gerber SA, Sorensen EW, Sedlacek AL, Lim JY, Skrombolas D, Frelinger JG, Lord EM. Local expression of interleukin-2 by B16 melanoma cells results in decreased tumour growth and long-term tumour dormancy. Immunology. 2013 Mar; 138(3):280-92.
    View in: PubMed
  9. McNamara CR, Ahuja R, Osafo-Addo AD, Barrows D, Kettenbach A, Skidan I, Teng X, Cuny GD, Gerber S, Degterev A. Akt Regulates TNFa Synthesis Downstream of RIP1 Kinase Activation during Necroptosis. PLoS One. 2013; 8(3):e56576.
    View in: PubMed
  10. Croy BA, Chen Z, Hofmann AP, Lord EM, Sedlacek AL, Gerber SA. Imaging of vascular development in early mouse decidua and its association with leukocytes and trophoblasts. Biol Reprod. 2012 Nov; 87(5):125.
    View in: PubMed
  11. Cummings RJ, Gerber SA, Judge JL, Ryan JL, Pentland AP, Lord EM. Exposure to Ionizing Radiation Induces the Migration of Cutaneous Dendritic Cells by a CCR7-Dependent Mechanism. J Immunol. 2012 Nov 1; 189(9):4247-57.
    View in: PubMed
  12. Rice KP, Klinkerch EJ, Gerber SA, Schleicher TR, Kraus TJ, Buros CM. Thioredoxin reductase is inhibited by the carbamoylating activity of the anticancer sulfonylhydrazine drug laromustine. Mol Cell Biochem. 2012 Nov; 370(1-2):199-207.
    View in: PubMed
  13. Christofferson DE, Li Y, Hitomi J, Zhou W, Upperman C, Zhu H, Gerber SA, Gygi S, Yuan J. A novel role for RIP1 kinase in mediating TNFa production. Cell Death Dis. 2012; 3:e320.
    View in: PubMed
  14. Milloy JA, Faherty BK, Gerber SA. Tempest: GPU-CPU computing for high-throughput database spectral matching. J Proteome Res. 2012 Jul 6; 11(7):3581-91.
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  15. Kettenbach AN, Wang T, Faherty BK, Madden DR, Knapp S, Bailey-Kellogg C, Gerber SA. Rapid determination of multiple linear kinase substrate motifs by mass spectrometry. Chem Biol. 2012 May 25; 19(5):608-18.
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  16. Hatta K, MacLeod RJ, Gerber SA, Croy BA. Emerging themes in uterine natural killer cell heterogeneity and function. Am J Reprod Immunol. 2012 Oct; 68(4):282-9.
    View in: PubMed
  17. Zhang A, Petrov KO, Hyun ER, Liu Z, Gerber SA, Myers LC. The Tlo proteins are stoichiometric components of Candida albicans mediator anchored via the Med3 subunit. Eukaryot Cell. 2012 Jul; 11(7):874-84.
    View in: PubMed
  18. Hood EA, Kettenbach AN, Gerber SA, Compton DA. Plk1 regulates the kinesin-13 protein Kif2b to promote faithful chromosome segregation. Mol Biol Cell. 2012 Jun; 23(12):2264-74.
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  19. Wang T, Kettenbach AN, Gerber SA, Bailey-Kellogg C. MMFPh: a maximal motif finder for phosphoproteomics datasets. Bioinformatics. 2012 Jun 15; 28(12):1562-70.
    View in: PubMed
  20. Gilmore JM, Kettenbach AN, Gerber SA. Increasing phosphoproteomic coverage through sequential digestion by complementary proteases. Anal Bioanal Chem. 2012 Jan; 402(2):711-20.
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  21. Liu M, Kang S, Ray S, Jackson J, Zaitsev AD, Gerber SA, Cuny GD, Glicksman MA. Kinetic, mechanistic, and structural modeling studies of truncated wild-type leucine-rich repeat kinase 2 and the G2019S mutant. Biochemistry. 2011 Nov 1; 50(43):9399-408.
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  22. Kettenbach AN, Gerber SA. Rapid and reproducible single-stage phosphopeptide enrichment of complex peptide mixtures: application to general and phosphotyrosine-specific phosphoproteomics experiments. Anal Chem. 2011 Oct 15; 83(20):7635-44.
    View in: PubMed
  23. Yore MM, Kettenbach AN, Sporn MB, Gerber SA, Liby KT. Proteomic analysis shows synthetic oleanane triterpenoid binds to mTOR. PLoS One. 2011; 6(7):e22862.
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  24. Kettenbach AN, Schweppe DK, Faherty BK, Pechenick D, Pletnev AA, Gerber SA. Quantitative phosphoproteomics identifies substrates and functional modules of Aurora and Polo-like kinase activities in mitotic cells. Sci Signal. 2011; 4(179):rs5.
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  25. Sano H, Peck GR, Kettenbach AN, Gerber SA, Lienhard GE. Insulin-stimulated GLUT4 protein translocation in adipocytes requires the Rab10 guanine nucleotide exchange factor Dennd4C. J Biol Chem. 2011 May 13; 286(19):16541-5.
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  26. Kettenbach AN, Rush J, Gerber SA. Absolute quantification of protein and post-translational modification abundance with stable isotope-labeled synthetic peptides. Nat Protoc. 2011 Feb; 6(2):175-86.
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  27. Faherty BK, Gerber SA. MacroSEQUEST: efficient candidate-centric searching and high-resolution correlation analysis for large-scale proteomics data sets. Anal Chem. 2010 Aug 15; 82(16):6821-9.
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  28. Choi SH, Wright JB, Gerber SA, Cole MD. Myc protein is stabilized by suppression of a novel E3 ligase complex in cancer cells. Genes Dev. 2010 Jun 15; 24(12):1236-41.
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  29. Harding MJ, Lepus CM, Gibson TF, Shepherd BR, Gerber SA, Graham M, Paturzo FX, Rahner C, Madri JA, Bothwell AL, Lindenbach BD, Pober JS. An implantable vascularized protein gel construct that supports human fetal hepatoblast survival and infection by hepatitis C virus in mice. PLoS One. 2010; 5(4):e9987.
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  30. Sorensen EW, Gerber SA, Frelinger JG, Lord EM. IL-12 suppresses vascular endothelial growth factor receptor 3 expression on tumor vessels by two distinct IFN-gamma-dependent mechanisms. J Immunol. 2010 Feb 15; 184(4):1858-66.
    View in: PubMed
  31. Wai SC, Gerber SA, Li R. Multisite phosphorylation of the guanine nucleotide exchange factor Cdc24 during yeast cell polarization. PLoS One. 2009; 4(8):e6563.
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  32. Lyons PD, Peck GR, Kettenbach AN, Gerber SA, Roudaia L, Lienhard GE. Insulin stimulates the phosphorylation of the exocyst protein Sec8 in adipocytes. Biosci Rep. 2009 Aug; 29(4):229-35.
    View in: PubMed
  33. Gerber SA, Yatsula B, Maier CL, Sadler TJ, Whittaker LW, Pober JS. Interferon-gamma induces prolyl hydroxylase (PHD)3 through a STAT1-dependent mechanism in human endothelial cells. Arterioscler Thromb Vasc Biol. 2009 Sep; 29(9):1363-9.
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  34. Lepus CM, Gibson TF, Gerber SA, Kawikova I, Szczepanik M, Hossain J, Ablamunits V, Kirkiles-Smith N, Herold KC, Donis RO, Bothwell AL, Pober JS, Harding MJ. Comparison of human fetal liver, umbilical cord blood, and adult blood hematopoietic stem cell engraftment in NOD-scid/gammac-/-, Balb/c-Rag1-/-gammac-/-, and C.B-17-scid/bg immunodeficient mice. Hum Immunol. 2009 Oct; 70(10):790-802.
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  35. Baker CL, Kettenbach AN, Loros JJ, Gerber SA, Dunlap JC. Quantitative proteomics reveals a dynamic interactome and phase-specific phosphorylation in the Neurospora circadian clock. Mol Cell. 2009 May 15; 34(3):354-63.
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  36. Chhabra ES, Ramabhadran V, Gerber SA, Higgs HN. INF2 is an endoplasmic reticulum-associated formin protein. J Cell Sci. 2009 May 1; 122(Pt 9):1430-40.
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  37. Sorensen EW, Gerber SA, Sedlacek AL, Rybalko VY, Chan WM, Lord EM. Omental immune aggregates and tumor metastasis within the peritoneal cavity. Immunol Res. 2009 Dec; 45(2-3):185-94.
    View in: PubMed
  38. Motamedi MR, Hong EJ, Li X, Gerber S, Denison C, Gygi S, Moazed D. HP1 proteins form distinct complexes and mediate heterochromatic gene silencing by nonoverlapping mechanisms. Mol Cell. 2008 Dec 26; 32(6):778-90.
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  39. Bakalarski CE, Elias JE, Villén J, Haas W, Gerber SA, Everley PA, Gygi SP. The impact of peptide abundance and dynamic range on stable-isotope-based quantitative proteomic analyses. J Proteome Res. 2008 Nov; 7(11):4756-65.
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  40. Suárez Y, Fernández-Hernando C, Yu J, Gerber SA, Harrison KD, Pober JS, Iruela-Arispe ML, Merkenschlager M, Sessa WC. Dicer-dependent endothelial microRNAs are necessary for postnatal angiogenesis. Proc Natl Acad Sci U S A. 2008 Sep 16; 105(37):14082-7.
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  41. Gerber SA, Pober JS. IFN-alpha induces transcription of hypoxia-inducible factor-1alpha to inhibit proliferation of human endothelial cells. J Immunol. 2008 Jul 15; 181(2):1052-62.
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  42. Degterev A, Hitomi J, Germscheid M, Ch'en IL, Korkina O, Teng X, Abbott D, Cuny GD, Yuan C, Wagner G, Hedrick SM, Gerber SA, Lugovskoy A, Yuan J. Identification of RIP1 kinase as a specific cellular target of necrostatins. Nat Chem Biol. 2008 May; 4(5):313-21.
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  43. Lugade AA, Sorensen EW, Gerber SA, Moran JP, Frelinger JG, Lord EM. Radiation-induced IFN-gamma production within the tumor microenvironment influences antitumor immunity. J Immunol. 2008 Mar 1; 180(5):3132-9.
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  44. Loring GL, Christensen KC, Gerber SA, Brenner C. Yeast Chfr homologs retard cell cycle at G1 and G2/M via Ubc4 and Ubc13/Mms2-dependent ubiquitination. Cell Cycle. 2008 Jan 1; 7(1):96-105.
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  45. Li X, Gerber SA, Rudner AD, Beausoleil SA, Haas W, Villén J, Elias JE, Gygi SP. Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae. J Proteome Res. 2007 Mar; 6(3):1190-7.
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  46. Villén J, Beausoleil SA, Gerber SA, Gygi SP. Large-scale phosphorylation analysis of mouse liver. Proc Natl Acad Sci U S A. 2007 Jan 30; 104(5):1488-93.
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  47. Gerber SA, Kettenbach AN, Rush J, Gygi SP. The absolute quantification strategy: application to phosphorylation profiling of human separase serine 1126. Methods Mol Biol. 2007; 359:71-86.
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  48. Gerber SA, Rybalko VY, Bigelow CE, Lugade AA, Foster TH, Frelinger JG, Lord EM. Preferential attachment of peritoneal tumor metastases to omental immune aggregates and possible role of a unique vascular microenvironment in metastatic survival and growth. Am J Pathol. 2006 Nov; 169(5):1739-52.
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  49. Hu X, Eszterhas S, Pallazzi N, Bouhassira EE, Fields J, Tanabe O, Gerber SA, Bulger M, Engel JD, Groudine M, Fiering S. Transcriptional interference among the murine beta-like globin genes. Blood. 2007 Mar 1; 109(5):2210-6.
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  50. Beausoleil SA, Villén J, Gerber SA, Rush J, Gygi SP. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat Biotechnol. 2006 Oct; 24(10):1285-92.
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  51. Everley PA, Bakalarski CE, Elias JE, Waghorne CG, Beausoleil SA, Gerber SA, Faherty BK, Zetter BR, Gygi SP. Enhanced analysis of metastatic prostate cancer using stable isotopes and high mass accuracy instrumentation. J Proteome Res. 2006 May; 5(5):1224-31.
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  52. Haas W, Faherty BK, Gerber SA, Elias JE, Beausoleil SA, Bakalarski CE, Li X, Villén J, Gygi SP. Optimization and use of peptide mass measurement accuracy in shotgun proteomics. Mol Cell Proteomics. 2006 Jul; 5(7):1326-37.
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  53. Moazed D, Bühler M, Buker SM, Colmenares SU, Gerace EL, Gerber SA, Hong EJ, Motamedi MR, Verdel A, Villén J, Gygi SP. Studies on the mechanism of RNAi-dependent heterochromatin assembly. Cold Spring Harb Symp Quant Biol. 2006; 71:461-71.
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  54. Dieguez-Acuna FJ, Gerber SA, Kodama S, Elias JE, Beausoleil SA, Faustman D, Gygi SP. Characterization of mouse spleen cells by subtractive proteomics. Mol Cell Proteomics. 2005 Oct; 4(10):1459-70.
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  55. Lugade AA, Moran JP, Gerber SA, Rose RC, Frelinger JG, Lord EM. Local radiation therapy of B16 melanoma tumors increases the generation of tumor antigen-specific effector cells that traffic to the tumor. J Immunol. 2005 Jun 15; 174(12):7516-23.
    View in: PubMed
  56. Gerber SA, Turner MJ, Lugade AA, Moran JP, Frelinger JG, Lord EM. Characterization of a lymph node within the mouse prostate: Detailed analysis using whole mount histology. Prostate. 2005 May 1; 63(2):105-16.
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  57. Kirkpatrick DS, Gerber SA, Gygi SP. The absolute quantification strategy: a general procedure for the quantification of proteins and post-translational modifications. Methods. 2005 Mar; 35(3):265-73.
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  58. Ballif BA, Roux PP, Gerber SA, MacKeigan JP, Blenis J, Gygi SP. Quantitative phosphorylation profiling of the ERK/p90 ribosomal S6 kinase-signaling cassette and its targets, the tuberous sclerosis tumor suppressors. Proc Natl Acad Sci U S A. 2005 Jan 18; 102(3):667-72.
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  59. Motamedi MR, Verdel A, Colmenares SU, Gerber SA, Gygi SP, Moazed D. Two RNAi complexes, RITS and RDRC, physically interact and localize to noncoding centromeric RNAs. Cell. 2004 Dec 17; 119(6):789-802.
    View in: PubMed
  60. Denison C, Rudner AD, Gerber SA, Bakalarski CE, Moazed D, Gygi SP. A proteomic strategy for gaining insights into protein sumoylation in yeast. Mol Cell Proteomics. 2005 Mar; 4(3):246-54.
    View in: PubMed
  61. Tanny JC, Kirkpatrick DS, Gerber SA, Gygi SP, Moazed D. Budding yeast silencing complexes and regulation of Sir2 activity by protein-protein interactions. Mol Cell Biol. 2004 Aug; 24(16):6931-46.
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  62. Verdel A, Jia S, Gerber S, Sugiyama T, Gygi S, Grewal SI, Moazed D. RNAi-mediated targeting of heterochromatin by the RITS complex. Science. 2004 Jan 30; 303(5658):672-6.
    View in: PubMed
  63. Vrabioiu AM, Gerber SA, Gygi SP, Field CM, Mitchison TJ. The majority of the Saccharomyces cerevisiae septin complexes do not exchange guanine nucleotides. J Biol Chem. 2004 Jan 23; 279(4):3111-8.
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  64. Moran JP, Gerber SA, Martin CA, Frelinger JG, Lord EM. Transfection of the genes for interleukin-12 into the K1735 melanoma and the EMT6 mammary sarcoma murine cell lines reveals distinct mechanisms of antitumor activity. Int J Cancer. 2003 Sep 20; 106(5):690-8.
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  65. Gerber SA, Rush J, Stemman O, Kirschner MW, Gygi SP. Absolute quantification of proteins and phosphoproteins from cell lysates by tandem MS. Proc Natl Acad Sci U S A. 2003 Jun 10; 100(12):6940-5.
    View in: PubMed
  66. Gerber SA, Moran JP, Frelinger JG, Frelinger JA, Fenton BM, Lord EM. Mechanism of IL-12 mediated alterations in tumour blood vessel morphology: analysis using whole-tissue mounts. Br J Cancer. 2003 May 6; 88(9):1453-61.
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  67. Hoppe GJ, Tanny JC, Rudner AD, Gerber SA, Danaie S, Gygi SP, Moazed D. Steps in assembly of silent chromatin in yeast: Sir3-independent binding of a Sir2/Sir4 complex to silencers and role for Sir2-dependent deacetylation. Mol Cell Biol. 2002 Jun; 22(12):4167-80.
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  68. Stemmann O, Zou H, Gerber SA, Gygi SP, Kirschner MW. Dual inhibition of sister chromatid separation at metaphase. Cell. 2001 Dec 14; 107(6):715-26.
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  69. Gerber SA, Turecek F, Gelb MH. Design and synthesis of substrate and internal standard conjugates for profiling enzyme activity in the Sanfilippo syndrome by affinity chromatography/electrospray ionization mass spectrometry. Bioconjug Chem. 2001 Jul-Aug; 12(4):603-15.
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  70. Witkin SS, Linhares IM, Gerber S, Caetano ME, Segurado AC. Interleukin-1 receptor antagonist gene polymorphism and circulating levels of human immunodeficiency virus type 1 RNA in Brazilian women. J Virol. 2001 Jul; 75(13):6242-4.
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  71. Gerber S, Lane C, Brown DM, Lord E, DiLorenzo M, Clements JD, Rybicki E, Williamson AL, Rose RC. Human papillomavirus virus-like particles are efficient oral immunogens when coadministered with Escherichia coli heat-labile enterotoxin mutant R192G or CpG DNA. J Virol. 2001 May; 75(10):4752-60.
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  72. Gerber SA, Scott CR, Turecek F, Gelb MH. Direct profiling of multiple enzyme activities in human cell lysates by affinity chromatography/electrospray ionization mass spectrometry: application to clinical enzymology. Anal Chem. 2001 Apr 15; 73(8):1651-7.
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  73. Gygi SP, Rist B, Gerber SA, Turecek F, Gelb MH, Aebersold R. Quantitative analysis of complex protein mixtures using isotope-coded affinity tags. Nat Biotechnol. 1999 Oct; 17(10):994-9.
    View in: PubMed

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