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MacBeath Lab Publications

Research

Chang BH, Gujral TS, Karp ES, BuKhalid R, Grantcharova VP, & MacBeath G (2011). A systematic, family-wide investigation reveals that ~30% of mammalian PDZ domains engage in PDZ-PDZ interactions. Chem. Biol., in press.

Jung AS, Kaushansky A, MacBeath G, & Kaushansky K (2010). Tensin2 is a novel mediator in thrombopoietin (TPO)-induced cellular proliferation by promoting Akt signaling. Cell Cycle, 10: 1838-1844. abstract

Sevecka M, Wolf-Yadlin A, & MacBeath G (2011). Lysate microarrays enable high-throughput, quantitative investigations of cellular signaling. Mol. Cell. Proteomics, 10: M110.005363. abstract

Krall JA, Beyer EM, & MacBeath G (2011). High- and low-affinity Epidermal Growth Factor Receptor–ligand interactions activate distinct signaling pathways. PLoS ONE 6: e15945.1-10. full text

Gujral TS & MacBeath G (2010). A system-wide investigation of the dynamics of Wnt signaling reveals novel phases of transcriptional regulation. PLoS ONE 5: e10024.1-10. full text

Mehlitz A, Banhart S, Mäurer AP, Kaushansky A, Gordus AG, Zielecki J, MacBeath G, & Meyer TF (2010). Tarp regulates early Chlamydia-induced host cell survival through interactions with the human adapter protein SHC1. J. Cell Biol. 190: 143-157. abstract

Boettcher JP, Kirchner M, Churin Y, Kaushansky A, Pompaiah M, Thorn H, Brinkmann V, MacBeath G, & Meyer TF. (2010). Tyrosine-phosphorylated caveolin-1 blocks bacterial uptake by inducing Vav2-RhoA-mediated cytoskeletal rearrangements. PLoS Biology 8: e1000457.1-12. abstract full text

Shalek AK, Robinson JT, Karp ES, Lee JS, Ahn D-R, Yoon M-H, Sutton A, Jorgolli M, Gertner RS, Gujral TS, MacBeath G, Yang EG, & Park H (2010). Vertical silicon nanowires as a universal platform for delivering biomolecules into living cells. Proc. Nat. Acad. Sci. USA 107: 1870-1875. abstract full text

Kaushansky A, Allen JE, Gordus A, Stiffler MA, Karp ES, Chang BH, & MacBeath G (2009). Quantifying protein–protein interactions in high throughput using protein domain microarrays. Nature Protocols 5: 773-790. abstract

Gordus A, Krall JA, Beyer E, Kaushansky A, Wolf-Yadlin A, Sevecka M, Chang BH, Rush J, & MacBeath G (2009). Linear combinations of docking affinities explain quantitative differences in RTK signaling. Mol. Syst. Biol. 5: 235.1-10. abstract full text

Chen JR, Chang BH, Allen JE, Stiffler MA, & MacBeath G (2008). Predicting PDZ Domain–Peptide Interactions from Primary Sequences. Nat. Biotechnol. 26: 1041-1045. abstract full text

Kaushansky A, Gordus A, Budnik BA, Lane WS, Rush J, & MacBeath G (2008). System-wide investigation of ErbB4 reveals 19 sites of Tyr phosphorylation that are unusually selective in their recruitment properties. Chem. Biol., 15: 808-817. abstract full text

Kaushansky A, Gordus A, Chang B, Rush J, & MacBeath G (2008). A quantitative study of the recruitment potential of all intracellular tyrosine residues on EGFR, FGFR1 and IGF1R. Mol. BioSyst. 4: 643-653. abstract

Stiffler MA, Chen JR, Grantcharova VP, Lei Y, Fuchs D, Allen JE, Zaslavskaia LA, MacBeath G (2007). PDZ domain binding selectivity is optimized across the mouse proteome. Science 317: 364-369. abstract full text

Knickerbocker T, Chen JR, Thadhani R, & MacBeath G (2007). An integrated approach to prognosis using protein microarrays and nonparametric methods. Mol. Syst. Biol. 3: 123.1-8; online publication, 26 June 2007 (doi:10.1038/msb4100167). abstract full text

Gordus A & MacBeath G (2006). Circumventing the problems caused by protein diversity in microarrays: implications for protein interaction networks. J. Am. Chem. Soc. 128: 13668-13669. abstract

Sevecka M & MacBeath G (2006). State-based discovery: a multidimensional screen for small molecule modulators of EGF signaling. Nat. Methods 3: 825-831. abstract

Stiffler MA, Grantcharova VP, Sevecka M, & MacBeath G (2006). Uncovering quantitative protein interaction networks for mouse PDZ domains using protein microarrays. J. Am. Chem. Soc. 128: 5913-5922. abstract

Jones RB, Gordus A, Krall JA, MacBeath G (2006). A quantitative protein interaction network for the ErbB receptors using protein microarrays. Nature 439: 168-174; advance online publication, 6 November 2005 (doi:10.1038/nature04177). abstract

Nielsen UB, Cardone MH, Sinskey AJ, MacBeath G, & Sorger PK (2003). Profiling receptor tyrosine kinase activation by using Ab microarrays. Proc. Natl. Acad. Sci. USA 100: 9330-9335. abstract full text

MacBeath G & Schreiber SL (2000). Printing proteins as microarrays for high throughput function determination. Science 289(5485): 1760-1763. abstract

Reviews, Opinions, Commentaries, and Protocols

Knickerbocker T & MacBeath G (2011). Detecting and quantifying multiple proteins in clinical samples in high-throughput using antibody microarrays. Methods Mol. Biol. 723: 3-13. abstract

Gujral TS & MacBeath G (2009). Emerging miniaturized proteomic technologies to study cell signaling in clinical samples. Sci. Signal. 2: pe65.1-3. abstract

MacBeath G & Saghatelian A (2009). The promise and challenge of ‘-omic’ approaches. Curr. Opin. Chem. Biol., 14: 1-2. abstract

Wolf-Yadlin A, Sevecka M, & MacBeath G (2009). Dissecting protein function and signaling using protein microarrays. Curr. Opin. Chem. Biol., 13: 398-405. abstract

Albeck JG, MacBeath G, White FM, Sorger PK, Lauffenburger DA, & Gaudet S (2006). Collecting and organizing systematic sets of protein data. Nature Reviews | Molecular Cell Biology 7: 803-812. abstract

MacBeath G (2002). Protein microarrays and proteomics. Nature Genetics 32 Suppl 2: 526-532. abstract

MacBeath G (2002). Protein microarrays facilitate the large-scale study of proteins; and Protocols 10-14.  In Proteins and Proteomics: A Laboratory Manual (Richard Simpson), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, NY, pp 691-700, 772-786.

MacBeath G (2001). Proteomics comes to the surface. Nature Biotechnology 19(9): 828-829.

MacBeath G (2001). Chemical genomics: What will it take and who gets to play? Genome Biology 2(6): 2005.1-2005.6. abstract full text

Pre-MacBeath Lab Publications

Research

MacBeath G, Koehler AN, & Schreiber SL (1999). Printing small molecules as microarrays and detecting protein-ligand interactions en masse. J. Am. Chem. Soc. 121: 7967-7968.

MacBeath G, Kast P, & Hilvert D (1998). Redesigning enzyme topology by directed evolution. Science 279(5358): 1958-1961. abstract

MacBeath G, Kast P, & Hilvert D (1998). A small, thermostable, and monofunctional chorismate mutase from the archeon Methanococcus jannaschii. Biochemistry 37(28): 10062-10073. abstract

MacBeath G, Kast P, & Hilvert D (1998). Probing enzyme quaternary structure by combinatorial mutagenesis and selection. Protein Science 7: 1757-1767. abstract full text

MacBeath G & Kast P (1998). UGA read-through artifacts – when popular gene expression systems need a pATCH. BioTechniques 24(5) : 789-794. abstract

MacBeath G, Kast P, & Hilvert D (1998). Exploring sequence constraints on an interhelical turn using in vivoselection for catalytic activity. Protein Science 7(2): 325-335. abstract full text

MacBeath G & Hilvert D (1994). Monitoring catalytic activity by immunoassay: implications for screening. J. Am. Chem. Soc. 116: 6101-6106.

LéJohn HB, Cameron LE, Yang B, MacBeath G, Barker DS & Williams SA (1994). Cloning and analysis of a constitutive heat shock (cognate) protein 70 gene inducible by L-glutamine. J. Biol. Chem. 269(6): 4513-4522. abstract full text

Reviews, Opinions, Commentaries, and Protocols

Hilvert D, Shin J, & MacBeath G (1998). The Structural Basis of Antibody Catalysis. In Peptides and Proteins. (S.M. Hecht, ed), Oxford University Press, New York, pp. 335-366.

MacBeath G & Hilvert D (1996). Hydrolytic antibodies: variations on a theme. Chemistry & Biology 3(6): 433-445. abstract