Publications by Current Students

Apsel, B., Blair, J.A., Gonzalez, B., Nazif, T.M., Feldman, M.E., Aizenstein, B., Hoffman, R., Williams, R.L., Shokat, K.M. & Knight Z.A. Targeted polypharmacology: discovery of dual inhibitors of tyrosine and phosphoinositide kinases. Nature Chemical Biology, Advanced online publication, Oct,12 2008.

Zunder, E.R., Knight, Z.A., Houseman, B.T., Apsel, B., and Shokat K.M. Discovery of drug-resistant and drug-sensitizing mutations of the oncogenic PI3K isoform p110 alpha. Cancer Cell, 14(2), 180-92, 2008.

Kim JA, Bartlett S, He L, Nielsen CK, Chang AM, Kharazia V, Waldhoer M, Ou CJ, Taylor S, Ferwerda M, Cado D, Whistler JL. (2008) Current Biology. “Morphine induced endocytosis in a novel knockin mouse reduces tolerance and dependence.” Jan 22 18(2): 129-35.

Datta D, Scheer JM, Romanowski MJ, Wells JA. “An allosteric circuit in caspase-1.” Journal of Molecular Biology, 381(5), 1157-67 (2008).

Shahin V, Datta D, Hui E, Henderson RM, Chapman ER, Edwardson JM. “Synaptotagmin perturbs the structure of phospholipid bilayers.” Biochemistry, 47(7), 2143-52 (2008).

Gardner, J.M., Devoss, J.J., Friedman, R.S., Wong, D.J., Tan, Y.X., Zhou, X., Johannes, K.P., Su, M.A., Chang, H.Y., Krummel, M.F., et al. (2008). Deletional tolerance mediated by extrathymic Aire-expressing cells. Science 321, 843-847.

Su, M.A., Giang, K., Zumer, K., Jiang, H., Oven, I., Rinn, J.L., Devoss, J.J., Johannes, K.P., Lu, W., Gardner, J.M., et al. (2008). Mechanisms of an autoimmunity syndrome in mice caused by a dominant mutation in Aire. J Clin Invest 118, 1712-1726.

Chiu CY, Greninger AL, Kanada K, Kwok T, Fischer KF, Runckel C, Louie JK, Glaser CA, Yagi S, Schnurr DP, Haggerty TD, Parsonnet J, Ganem D, DeRisi JL. Identification of cardioviruses related to Theiler's murine encephalomyelitis virus in human infections. Proc Natl Acad Sci U S A. 2008 Sep 16;105(37):14124-9. Epub 2008 Sep 3.

Kistler AL, Gancz A, Clubb S, Skewes-Cox P, Fischer K, Sorber K, Chiu CY, Lublin A, Mechani S, Farnoushi Y, Greninger A, Wen CC, Karlene SB, Ganem D, DeRisi JL. Recovery of divergent avian bornaviruses from cases of proventricular dilatation disease: identification of a candidate etiologic agent. Virol J. 2008 Jul 31;5:88.

Heiser MA, Cheung SW. Curr Opin Otolaryngol Head Neck Surg. 2008 Oct;16(5):478-84. Cortical representations of communication sounds.

Murphy PA, Lam MT, Wu X, Kim TN, Vartanian SM, Bollen AW, Carlson TR, Wang RA. “Endothelial Notch4 signaling induces hallmarks of brain arteriovenous malformation in mice.” Proc Natl Acad Sci USA. 2008 Aug 5;105(31):10901-6.

Nader Sanai, Phiroz Tarapore, Albert C. Lee, Michael T. Lawton. “The Current Role of Microsurgery for Posterior Circulation Aneurysms: A selective approach in the endovascular era.” Neurosurgery 62.6 (June 2008): 1236-1249.

Maria Doitsidou, Nuria Flames, Albert Lee, Alexander Boyanov, Oliver Hobert. “Automated screening for mutants affecting dopaminergic neuron specification in C. elegans.” Nature Methods 5.10 (October 2008): 869-872.

Mirzadeh Z, Merkle FT, Soriano-Navarro M, Garcia-Verdugo J, Alvarez-Buylla A. Neural stem cells confer unique pinwheel architecture to the ventricular surface in neurogenic regions of the adult brain. Cell Stem Cell 2008, 3: 265-78.

Sanai N, Mirzadeh Z, Berger M. Language Localization and Functional Outcome Following Negative Language Mapping for Brain Tumor Resection. New England Journal of Medicine 2008. 358: 18-27.

Adachi K, Mirzadeh Z, Sakaguchi M, Yamashita T, Nikolcheva T, Peltz G, Gong L, Gotoh Y, Alvarez-Buylla A, Kawase T, Okano H, Sawamoto K. ß-catenin Signaling Promotes Proliferation of Progenitor Cells in the Adult Mouse Subventricular Zone. Stem Cells 2007. 25: 2827-36.

C.L.Peebles, V. Rao, J. Breck, S. Finkbeiner. Arc mediates structural plasticity in neuronal dendrites and spines. 2008 Abstract Viewer/Itinerary Planner. Washington, DC: Society for Neuroscience, 2008.

C.L. Peebles and S. Finkbeiner. RNA Decay back in play. Nature Neuroscience. September 2007.

Paulose M, Peng L, Popat KC, Oomman KV, LaTempa TJ, Bao N, Desai TA, Grimes CA. “Fabrication of mechanically robust large area, polycrystalline TiO2 membranes.” 2008 J Membrane

Pham THM, Okada T, Matloubian M, Lo CG, Cyster JG. Immunity 2008 Jan; 28(1): 122-33. Sci, 2008.

Zezula J, Singer L, Przybył AK, Hashimoto A, Dersch CM, et al. Synthesis and pharmacological effects of the enantiomers of the N-phenethyl analogues of the ortho and para e- and f-oxide-bridged phenylmorphans. Organic & biomolecular chemistry. 2008;6(16):2868-83. (PMID 18688479).

Chi JT, Rodriguez EH, Wang Z, Nuyten DS, Mukherjee S, van de Rijn M, van de Vijver MJ, Hastie T, Brown PO. Gene expression programs of human smooth muscle cells: tissue-specific differentiation and prognostic significance in breast cancers. PLoS Genet. 2007 Sept;3(9): e164

Shiow LR, Roadcap DW, Paris K, Watson SR, Grigorova IL, Lebet T, An J, Xu Y, Jenne CN, Foger N, Sorensen RU, Goodnow, CC, Bear, JE, Puck JM, Cyster JG. The actin regulator coronin 1A is mutant in a thymic egress-defective mouse strain and in a patient with severe combined immunodeficiency. Nat. Immunol. Epub Oct 5, 2008

Wang DD and Kriegstein AR. GABA regulates excitatory synapse formation in the neocortex via NMDA receptor activation. J. Neuroscience; 2008; 28(21):5547–5558.

Whalen MK, Gurai SK, Zahed-Kargaran H, Pluth JM. Specific ATM-mediated phosphorylation dependent on radiation quality. Radiat Res. 2008 Sep;170(3):353-64.

Peebles CL, Finkbeiner S. RNA decay back in play. Nat Neurosci. 2007 Sep;10(9):1083-1084.

Elias LA, Wang DD, Kriegstein AR. Gap Junction Adhesions are Necessary for Radial Migration in the Neocortex. Nature. 2007 Aug 23;448(7156):901-7.

Adachi K, Mirzadeh Z, Sakaguchi M, Yamashita T, Nikolcheva T, Gotoh Y, Peltz G, Gong L, Kawase T, Alvarez-Buylla A, Okano H, Sawamoto K. {beta}-catenin Signaling Promotes Proliferation of Progenitor Cells in the Adult Mouse Subventricular Zone. Stem Cells. 2007 Aug 2; [Epub ahead of print].

Merkle FT, Mirzadeh Z, Alvarez-Buylla A. Mosaic organization of neural stem cells in the adult brain. Science. 2007 Jul 20;317(5836):381-4.

Mitchell DA, Morton SU, Fernhoff NB, Marletta MA. Thioredoxin is required for S-nitrosation of procaspase-3 and the inhibition of apoptosis in Jurkat cells. Proc Natl Acad Sci U S A. 2007 Jul 10;104(28):11609-14.

Shu Y, Sheardown SA, Brown C, Owen RP, Zhang S, Castro RA, Ianculescu AG, Yue L, Lo JC, Burchard EG, Brett CM, Giacomini KM. Effect of genetic variation in the organic cation transporter 1 (OCT1) on metformin action. J Clin Invest. 2007 May;117(5):1422-31.

Balachandran P, Dragone L, Garrity-Ryan L, Lemus A, Weiss A, Engel J. The ubiquitin ligase Cbl-b limits Pseudomonas aeruginosa exotoxin T-mediated virulence. J Clin Invest. 2007 Feb;117(2):419-27.

Paulose M, Prakasam HE, Oomman KV, Peng L, Popat KC, Mor GK, Desai TA, Grimes CA. TiO2 Nanotube Arrays of 1000 um Length by Anodization of Titanium Foil: Phenol Red Diffusion. J. Phys. Chem. C 2007, 111, 14992-14997.

Kuo CT, Mirzadeh Z, Soriano-Navarro M, Rasin M, Wang D, Shen J, Sestan N, Garcia-Verdugo J, Alvarez-Buylla A, Jan LY, Jan YN. Postnatal deletion of Numb/Numblike reveals repair and remodeling capacity in the subventricular neurogenic niche. Cell. 2006 Dec 15;127(6):1253-64.

Mitchell DA, Morton SU, Marletta MA. Design and characterization of an active site selective caspase-3 transnitrosating agent. ACS Chem Biol. 2006 Nov 21;1(10):659-65.

Larsen KE, Schmitz Y, Troyer MD, Mosharov E, Dietrich P, Quazi AZ, Savalle M, Nemani V, Chaudhry FA, Edwards RH, Stefanis L, Sulzer D. Alpha-synuclein overexpression in PC12 and chromaffin cells impairs catecholamine release by interfering with a late step in exocytosis. J Neurosci. 2006 Nov 15;26(46):11915-22.

Rutkowski DT, Arnold SM, Miller CN, Wu J, Li J, Gunnison KM, Mori K, Sadighi Akha AA, Raden D, Kaufman RJ. Adaptation to ER stress is mediated by differential stabilities of pro-survival and pro-apoptotic mRNAs and proteins. PLoS Biol. 2006 Nov;4(11):e374.

Blake DT, Heiser MA, Caywood M, Merzenich MM. Experience-dependent adult cortical plasticity requires cognitive association between sensation and reward. Neuron. 2006 Oct 19;52(2):371-81.

Stonington S, Holmes SM. Social medicine in the twenty-first century. PLoS Med. 2006 Oct;3(10):e445.

Stonington S, Ratanakul P. Is there a global bioethics? End-of-life in Thailand and the case for local difference. PLoS Med. 2006 Oct;3(10):e439.

Holtz TH, Holmes S, Stonington S, Eisenberg L. Health is still social: contemporary examples in the age of the genome. PLoS Med. 2006 Oct;3(10):e419.

Alvarez-Dolado M, Calcagnotto ME, Karkar KM, Southwell DG, Jones-Davis DM, Estrada RC, Rubenstein JL, Alvarez-Buylla A, Baraban SC. Cortical inhibition modified by embryonic neural precursors grafted into the postnatal brain. J Neurosci. 2006 Jul 12;26(28):7380-9.

Mackey ZB, Baca AM, Mallari JP, Apsel B, Shelat A, Hansell EJ, Chiang PK, Wolff B, Guy KR, Williams J, McKerrow JH. Discovery of trypanocidal compounds by whole cell HTS of Trypanosoma brucei. Chem Biol Drug Des. 2006 May;67(5):355-63.

Shiow LR, Rosen DB, Brdickova N, Xu Y, An J, Lanier LL, Cyster JG, Matloubian M. CD69 acts downstream of interferon-alpha/beta to inhibit S1P1 and lymphocyte egress from lymphoid organs. Nature. 2006 Mar 23;440(7083):540-4.

Quinones-Hinojosa A, Sanai N, Soriano-Navarro M, Gonzalez-Perez O, Mirzadeh Z, Gil-Perotin S, Romero-Rodriguez R, Berger MS, Garcia-Verdugo JM, Alvarez-Buylla A. Cellular composition and cytoarchitecture of the adult human subventricular zone: a niche of neural stem cells. J Comp Neurol. 2006 Jan 20;494(3):415-34.

Atabai K, Fernandez R, Huang X, Ueki I, Kline A, Li Y, Sadatmansoori S, Smith-Steinhart C, Zhu W, Pytela R, Werb Z, Sheppard D. Mfge8 is critical for mammary gland remodeling during involution. Mol Biol Cell. 2005 Dec;16(12):5528-37.

Fortin DL, Nemani VM, Voglmaier SM, Anthony MD, Ryan TA, Edwards RH. Neural activity controls the synaptic accumulation of alpha-synuclein. J Neurosci. 2005 Nov 23;25(47):10913-21.

Ware, M.L., Nemani, V.M., Meeker, M., Lee, C., Morabito, D.J., Manley G.T. (2005) Effects of 23.4% Sodium Chloride Solution in Reducing Intracranial Pressure in Patients with Traumatic Brain Injury: A Preliminary Study. Neurosurgery. 2005 Oct;57(4):727-36.

Kubo S, Nemani VM, Chalkley RJ, Anthony MD, Hattori N, Mizuno Y, Edwards RH, Fortin DL. A combinatorial code for the interaction of alpha-synuclein with membranes. J Biol Chem. 2005 Sep 9;280(36):31664-72.

Zhang K, Wong HN, Song B, Miller CN, Scheuner D, Kaufman RJ. The unfolded protein response sensor IRE1alpha is required at 2 distinct steps in B cell lymphopoiesis. J Clin Invest. 2005 Feb;115(2):268-81.

Nemani VM, Binder DK. Emerging role of gap junctions in epilepsy. Histol Histopathol. 2005 Jan;20(1):253-9.

Polley DB, Heiser MA, Blake DT, Schreiner CE, Merzenich MM. Associative learning shapes the neural code for stimulus magnitude in primary auditory cortex. Proc Natl Acad Sci U S A. 2004 Nov 16;101(46):16351-6.

Hwang WW, Venkatasubrahmanyam S, Ianculescu AG, Tong A, Boone C, Madhani HD. A conserved RING finger protein required for histone H2B monoubiquitination and cell size control. Mol Cell. 2003 Jan;11(1):261-6.

Heiser MA, Iacoboni M, Maeda F, Marcus J, Mazziotta J. The Essential Role of Broca's Area in Imitation. European Journal of Neuroscience, volume 17 no. 5. (2003).