Graduate MCO

Student Publications

Publications 2007

43 publications listed for 2007

  1. Wright, AJ, Poland, SP, Girkin, JM,Freudiger, CW, Evans, CL, and Xie, XS. (2007) Adaptive optics for enhanced signal in CARS microscopy. Opt Express, 15(26):18209-19. PMID: 19551119
    X. Sunney Xie Lab (CCB)
  2. Huang, K, Ferrin-O’Connell, I, Zhang, W, Leonard, GA, O’Shea, EK, and Quiocho, FA. (2007) Structure of the Pho85-Pho80 CDK-cyclin complex of the phosphate-responsive signal transduction pathway. Mol. Cell, 28(4):614-23. PMID: 18042456PMC2175173
    Erin O’Shea Lab (MCB)
  3. Indjeian, VB, and Murray, AW. (2007) Budding yeast mitotic chromosomes have an intrinsic bias to biorient on the spindle. Curr. Biol., 17(21):1837-46. PMID:17980598
    Andrew Murray Lab (MCB)
  4. Livet, J, Weissman, TA, Kang, H, Draft, RW, Lu, J, Bennis, RA, Sanes, JR, andLichtman, JW. (2007) Transgenic strategies for combinatorial expression of fluorescent proteins in the nervous system. Nature, 450(7166):56-62. PMID: 17972876
    Jeff Lichtman Lab (MCB)
  5. Kim, SH, Holway, AH, Wolff, S, Dillin, A, and Michael, WM. (2007) SMK-1/PPH-4.1-mediated silencing of the CHK-1 response to DNA damage in early C. elegans embryos. J. Cell Biol., 179(1):41-52. PMID:17908915 PMC2064732
    Matthew Michael Lab (MCB)
  6. Andzelm, MM, Chen, X, Krzewski, K, Orange, JS, and Strominger, JL. (2007) Myosin IIA is required for cytolytic granule exocytosis in human NK cells. J. Exp. Med., 204(10):2285-91. PMID: 17875677PMC2118468
    Jack Strominger Lab (MCB)
  7. Zhang, YB, Kanungo, M, Ho, AJ, Freimuth, P, van der Lelie, D, Chen, M, Khamis, SM,Datta, SS, Johnson, AT, Misewich, JA, and Wong, SS. (2007) Functionalized carbon nanotubes for detecting viral proteins. Nano Lett., 7(10):3086-91. PMID: 17894517
    David Weitz Lab (SEAS)
  8. Wykoff, DD, Rizvi, AH, Raser, JM, Margolin, B, and O’Shea, EK. (2007) Positive feedback regulates switching of phosphate transporters in S. cerevisiae. Mol. Cell, 27(6):1005-13. PMID: 17889672PMC2034509
    Erin O’Shea Lab (MCB)
  9. Vegas, AJ, Bradner, JE, Tang, W, McPherson, OM, Greenberg, EF, Koehler, AN, and Schreiber, SL. (2007) Fluorous-based small-molecule microarrays for the discovery of histone deacetylase inhibitors. Angew. Chem. Int. Ed. Engl., 46(42):7960-4. PMID: 17868168 PMC2790065
    Stuart Schreiber Lab (CCB)
  10. Deeds, EJ, Ashenberg, O, Gerardin, J, andShakhnovich, EI. (2007) Robust protein protein interactions in crowded cellular environments. Proc. Natl. Acad. Sci. U.S.A., 104(38):14952-7. PMID: 17848524PMC1986594
    Eugene Shakhnovich Lab (CCB)
  11. Vislay-Meltzer, RL, and Stopfer, M. (2007) Olfactory coding: a plastic approach to timing precision. Curr. Biol., 17(18):R797-9. PMID: 17878046
    Florian Engert Lab (MCB)
  12. Leimkuhler, C, Fridman, M, Lupoli, T, Walker, S, Walsh, CT, and Kahne, D. (2007) Characterization of rhodosaminyl transfer by the AknS/AknT glycosylation complex and its use in reconstituting the biosynthetic pathway of aclacinomycin A. J. Am. Chem. Soc., 129(34):10546-50. PMID:17685523 PMC2580061
    Daniel Kahne Lab (CCB)
  13. Ferguson, CC, Camp, AH, and Losick, R. (2007) gerT, a newly discovered germination gene under the control of the sporulation transcription factor sigmaK in Bacillus subtilis. J. Bacteriol., 189(21):7681-9. PMID: 17720779 PMC2168713
    Richard Losick Lab (MCB)
  14. Fuerstman, MJ, Lai, A, Thurlow, ME, Shevkoplyas, SS, Stone, HA, and Whitesides, GM. (2007) The pressure drop along rectangular microchannels containing bubbles. Lab Chip, 7(11):1479-89. PMID:17960275
    James Anderson Lab (CCB)
  15. Floto, RA, Sarkar, S, Perlstein, EO, Kampmann, B, Schreiber, SL, and Rubinsztein, DC. (2007) Small molecule enhancers of rapamycin-induced TOR inhibition promote autophagy, reduce toxicity in Huntington’s disease models and enhance killing of mycobacteria by macrophages. Autophagy, 3(6):620-2. PMID: 17786022
    Stuart Schreiber Lab (CCB)
  16. Liu, S, Bokinsky, G, Walter, NG, andZhuang, X. (2007) Dissecting the multistep reaction pathway of an RNA enzyme by single-molecule kinetic “fingerprinting”. Proc. Natl. Acad. Sci. U.S.A., 104(31):12634-9. PMID: 17496145 PMC1937518
    Xiaowei Zhuang Lab (CCB)
  17. Stiffler, MA, Chen, JR, Grantcharova, VP, Lei, Y, Fuchs, D, Allen, JE, Zaslavskaia, LA, and MacBeath, G. (2007) PDZ domain binding selectivity is optimized across the mouse proteome. Science, 317(5836):364-9. PMID: 17641200 PMC2674608
    Gavin MacBeath Lab (HMS SYSBIO)
  18. Fridman, M, Balibar, CJ, Lupoli, T, Kahne, D, Walsh, CT, and Garneau-Tsodikova, S. (2007) Chemoenzymatic formation of novel aminocoumarin antibiotics by the enzymes CouN1 and CouN7. Biochemistry, 46(28):8462-71. PMID: 17580964
    Daniel Kahne Lab (CCB)
  19. Phelps, CB, Procko, E, Lishko, PV, Wang, RR, and Gaudet, R. (2007) Insights into the roles of conserved and divergent residues in the ankyrin repeats of TRPV ion channels. Channels (Austin), 1(3):148-51. PMID:18690026
    Rachelle Gaudet Lab (MCB)
  20. Lishko, PV, Procko, E, Jin, X, Phelps, CB, and Gaudet, R. (2007) The ankyrin repeats of TRPV1 bind multiple ligands and modulate channel sensitivity. Neuron, 54(6):905-18. PMID: 17582331
    Rachelle Gaudet Lab (MCB)
  21. Perlstein, EO, Deeds, EJ, Ashenberg, O, Shakhnovich, EI, and Schreiber, SL. (2007) Quantifying fitness distributions and phenotypic relationships in recombinant yeast populations. Proc. Natl. Acad. Sci. U.S.A., 104(25):10553-8. PMID: 17566105PMC1965551
    Stuart Schreiber Lab (CCB)
  22. Egli, D, Rosains, J, Birkhoff, G, and Eggan, K. (2007) Developmental reprogramming after chromosome transfer into mitotic mouse zygotes. Nature, 447(7145):679-85. PMID: 17554301
    Susan Mango Lab (MCB)
  23. Maherali, N, Sridharan, R, Xie, W, Utikal, J, Eminli, S, Arnold, K, Stadtfeld, M, Yachechko, R, Tchieu, J, Jaenisch, R, Plath, K, and Hochedlinger, K. (2007) Directly reprogrammed fibroblasts show global epigenetic remodeling and widespread tissue contribution. Cell Stem Cell, 1(1):55-70. PMID: 18371336
    Konrad Hochedlinger Lab (HSCI)
  24. Miranda, JJ, King, DS, and Harrison, SC. (2007) Protein arms in the kinetochore-microtubule interface of the yeast DASH complex. Mol. Biol. Cell, 18(7):2503-10. PMID: 17460120 PMC1924804
    Stephen Harrison Lab (HMS)
  25. Ingolia, NT, and Murray, AW. (2007) Positive-feedback loops as a flexible biological module. Curr. Biol., 17(8):668-77. PMID: 17398098 PMC1914375
    Andrew Murray Lab (MCB)
  26. Sherwood, RI, Jitianu, C, Cleaver, O, Shaywitz, DA, Lamenzo, JO, Chen, AE, Golub, TR, and Melton, DA. (2007) Prospective isolation and global gene expression analysis of definitive and visceral endoderm. Dev. Biol., 304(2):541-55. PMID: 17328885
    Doug Melton Lab (SCRB)
  27. Chen, X, Trivedi, PP, Ge, B, Krzewski, K, and Strominger, JL. (2007) Many NK cell receptors activate ERK2 and JNK1 to trigger microtubule organizing center and granule polarization and cytotoxicity. Proc. Natl. Acad. Sci. U.S.A., 104(15):6329-34. PMID:17395718 PMC1851054
    Jack Strominger Lab (MCB)
  28. Gladyshev, EA, Meselson, M, and Arkhipova, IR. (2007) A deep-branching clade of retrovirus-like retrotransposons in bdelloid rotifers. Gene, 390(1-2):136-45. PMID: 17129685 PMC1839950
    Matthew Meselson Lab (MCB)
  29. Knickerbocker, T, Chen, JR, Thadhani, R, and MacBeath, G. (2007) An integrated approach to prognosis using protein microarrays and nonparametric methods. Mol. Syst. Biol., 3:123. PMID: 17593911PMC1911205
    Gavin MacBeath Lab (HMS SYSBIO)
  30. Radom, CT, Banerjee, A, and Verdine, GL. (2007) Structural characterization of human 8-oxoguanine DNA glycosylase variants bearing active site mutations. J. Biol. Chem., 282(12):9182-94. PMID:17114185
    Gregory Verdine Lab (SCRB)
  31. Stone, MD, Mihalusova, M, O’connor, CM, Prathapam, R, Collins, K, and Zhuang, X. (2007) Stepwise protein-mediated RNA folding directs assembly of telomerase ribonucleoprotein. Nature, 446(7134):458-61. PMID: 17322903 PMC2720403
    Xiaowei Zhuang Lab (CCB)
  32. Tenoever, BR, Ng, SL, Chua, MA, McWhirter, SM, García-Sastre, A, andManiatis, T. (2007) Multiple functions of the IKK-related kinase IKKepsilon in interferon-mediated antiviral immunity. Science, 315(5816):1274-8. PMID: 17332413
    Tom Maniatis Lab (MCB)
  33. Sarkar, S, Perlstein, EO, Imarisio, S, Pineau, S, Cordenier, A, Maglathlin, RL, Webster, JA, Lewis, TA, O’Kane, CJ,Schreiber, SL, and Rubinsztein, DC. (2007) Small molecules enhance autophagy and reduce toxicity in Huntington’s disease models. Nat. Chem. Biol., 3(6):331-8. PMID: 17486044 PMC2635561
    Stuart Schreiber Lab (CCB)
  34. Brennand, K, Huangfu, D, and Melton, D. (2007) All beta cells contribute equally to islet growth and maintenance. PLoS Biol., 5(7):e163. PMID: 17535113 PMC1877817
    Doug Melton Lab (SCRB)
  35. Willensdorfer, M, Bürger, R, and Nowak, MA. (2007) Phenotypic mutation rates and the abundance of abnormal proteins in yeast. PLoS Comput. Biol., 3(11):e203. PMID: 18039025 PMC2082502
    Martin Nowak Lab (OEB)
  36. Perlstein, EO, de Bivort, BL, Kunes, S, and Schreiber, SL. (2007) Evolutionarily conserved optimization of amino acid biosynthesis. J. Mol. Evol., 65(2):186-96. PMID: 17684697
    Stuart Schreiber Lab (CCB)
    Sam Kunes Lab (MCB)
  37. Zhou, Q, Law, AC, Rajagopal, J,Anderson, WJ, Gray, PA, and Melton, DA. (2007) A multipotent progenitor domain guides pancreatic organogenesis. Dev. Cell, 13(1):103-14. PMID: 17609113
    Doug Melton Lab (SCRB)
  38. Bishop, AC, Zhang, XY, and Lone, AM. (2007) Generation of inhibitor-sensitive protein tyrosine phosphatases via active-site mutations. Methods, 42(3):278-88. PMID: 17532515 PMC1950444
    Alan Saghatelian Lab (CCB)
  39. Datta, SS, Staii C, Pinto NJ, Strachan DR, Johnson AT. 2007. Electrostatic force microscopy of nanofibers and carbon nanotubes: Quantitative analysis using theory and experiment. MRS Proceedings, 1025, 1025-B13-03 doi:10.1557/PROC-1025-B13-03.
    David Weitz Lab (SEAS)
  40. Deeds, EJ, and Shakhnovich, EI. (2007) A structure-centric view of protein evolution, design, and adaptation. Adv. Enzymol. Relat. Areas Mol. Biol., 75:133-91, xi-xii. PMID: 17124867
    Eugene Shakhnovich Lab (CCB)
  41. Perlstein, EO, Ruderfer, DM, Roberts, DC, Schreiber, SL, and Kruglyak, L. (2007) Genetic basis of individual differences in the response to small-molecule drugs in yeast. Nat. Genet., 39(4):496-502. PMID:17334364
    Stuart Schreiber Lab (CCB)
  42. Nemat-Nasser, SC, Amirkhizi, AV, Padilla, WJ, Basov, DN, Nemat-Nasser, S,Bruzewicz, D, and Whitesides, G. (2007) Terahertz plasmonic composites. Phys Rev E Stat Nonlin Soft Matter Phys, 75(3 Pt 2):036614. PMID: 17500816
    George Whitesides Lab (CCB)
  43. Kim, S, Blainey, PC, Schroeder, CM, andXie, XS. (2007) Multiplexed single-molecule assay for enzymatic activity on flow-stretched DNA. Nat. Methods, 4(5):397-9. PMID: 17435763
    X. Sunney Xie Lab (CCB)
    Gregory Verdine Lab (SCRB)