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Neveu P, Kye MJ, Qi S, Buchholz DE, Clegg DO, Sahin M, Park IH, Kim KS, Daley GQ, Kornblum HI, Shraiman BI, Kosik KS. MicroRNA Profiling Reveals Two Distinct p53-Related Human Pluripotent Stem Cell States. Cell Stem Cell. 2010 Dec 3;7(6):671-81.
Yuraszeck TM, Neveu P, Rodriguez-Fernandez M, Robinson A, Kosik KS, Doyle FJ 3rd. Vulnerabilities in the tau network and the role of ultrasensitive points in tau pathophysiology. PLoS Comput Biol. 2010 Nov 11;6(11):e1000997.
Shi Y, Zhao X, Hsieh J, Wichterle H, Impey S, Banerjee S, Neveu P, Kosik KS. MicroRNA regulation of neural stem cells and neurogenesis. J Neurosci. 2010 Nov 10;30(45):14931-6. Review.
Piedrahita D, Hernández I, López-Tobón A, Fedorov D, Obara B, Manjunath BS, Boudreau RL, Davidson B, Laferla F, Gallego-Gómez JC, Kosik KS, Cardona-Gómez GP. Silencing of CDK5 reduces neurofibrillary tangles in transgenic alzheimer's mice. J Neurosci. 2010 Oct 20;30(42):13966-76.
Kosik KS. MicroRNAs and cellular phenotypy. Cell. 2010 Oct 1;143(1):21-6. Review.
Srivastava M, Simakov O, Chapman J, Fahey B, Gauthier ME, Mitros T, Richards GS, Conaco C, Dacre M, Hellsten U, Larroux C, Putnam NH, Stanke M, Adamska M, Darling A, Degnan SM, Oakley TH, Plachetzki DC, Zhai Y, Adamski M, Calcino A, Cummins SF, Goodstein DM, Harris C, Jackson DJ, Leys SP, Shu S, Woodcroft BJ, Vervoort M, Kosik KS, Manning G, Degnan BM, Rokhsar DS. The Amphimedon queenslandica genome and the evolution of animal complexity. Nature. 2010 Aug 5;466(7307):720-6.
2009
Banerjee S, Neveu P, Kosik KS. A Coordinated Local Translational Control Point at the Synapse Involving Relief from Silencing and MOV10 Degradation. Neuron, 2009 Dec 24;64(6):871-884.
Sakarya O, Conaco C, Egecioglu O, Solla SA, Oakley TH, Kosik KS. Evolutionary Expansion and Specialization of the PDZ Domains. Mol Biol Evol. 2009 Dec 21
Fineberg SK, Kosik KS, Davidson BL. MicroRNAs potentiate neural development.
Neuron, 2009 Nov 12;64(3):303-9. Review
Kosik KS. MicroRNAs tell an evo-devo story.
Nat Rev Neurosci. 2009 Oct;10(10):754-9. Review Papagiannakopoulos T, Kosik KS. MicroRNA-124: Micromanager of Neurogenesis. Cell Stem Cell, 2009 May 8;4(5):375-76
Xu N, Papagiannakopoulos T, Pan G, Thomson JA, Kosik KS. MicroRNA-145 Regulates OCT4, SOX2, and KLF4 and Represses Pluripotency in Human Embryonic Stem Cells. CELL. 2009 May 15;137
Carrettiero DC, Hernandez I, Neveu P, Papagiannakopoulos T, Kosik KS. The cochaperone BAG2 sweeps paired helical filament- insoluble tau from the microtubule. J Neurosci. 2009 Feb 18;29(7):2151-61
Kosik KS. Exploring the early origins of the synapse by comparative genomics. Biol Lett. 2009 Feb 23;5(1):108-11 2008
Mercer TR, Dinger ME, Mariani J, Kosik KS, Mehler MF, Mattick JS. Noncoding RNAs in Long-Term Memory Formation. Neuroscientist. 2008 Oct;14(5):434-45.
Review
Hikita ST, Kosik KS, Clegg DO, Bamdad C. MUC1* mediates the growth of human pluripotent stem
cells. PLoS ONE. 2008 Oct 3;3(10):e3312
Papagiannakopoulos T, Shapiro A, Kosik KS. MicroRNA-21 targets a network of key tumor-suppressive pathways in glioblastoma cells. Cancer Res. 2008 Oct 1;68(19):8164-72
Abu-Elneel K, Ochiishi T, Medina M, Remedi M, Gastaldi L, Caceres A, Kosik KS.A delta-catenin signaling pathway leading to dendritic protrusions.J Biol Chem. 2008 Nov 21;283(47):32781-91
Kosik KS, Lopera F. Genetic testing must recognize impact of bad news on recipient. Nature. 2008 Jul 10;454(7201):158-9
Ochiishi T, Futai K, Okamoto K, Kameyama K, Kosik KS. Regulation of AMPA receptor trafficking by delta-catenin. Mol Cell Neurosci. 2008 Dec;39(4):499-507
Papagiannakopoulos T, Kosik KS. microRNAs: regulators of oncogenesis and stemness. BMC Med. 2008 Jun 24;6(1):15.
Abu-Elneel K, Liu T, Gazzaniga FS, Nishimura Y, Wall DP, Geschwind DH, Lao K, Kosik KS. Heterogeneous dysregulation of microRNAs across the autism spectrum. Neurogenetics. 2008 Jul;9(3):153-61
Sakarya O, Kosik KS, Oakley TH. Reconstructing ancestral genome content based on symmetrical best alignments and Dollo parsimony. Bioinformatics. 2008 24(5):606-612.
EvolMAP [Software and Source Code]
2007
Glicksman MA, Cuny GD, Liu M, Dobson B, Auerbach K, Stein RL, Kosik KS. New approaches to the discovery of cdk5 inhibitors. Curr Alzheimer Res. 2007 Dec;4(5):547-9.
Liu T, Papagiannakopoulos T, Puskar K, Qi S, Santiago F, Clay W, Lao K, Lee Y, Nelson SF, Kornblum HI, Doyle F, Petzold L, Shraiman B, Kosik KS. Detection of a MicroRNA Signal in an In Vivo Expression Set of mRNAs. PLoS ONE. 2007 Aug 29;2(8):e804.
Kye MJ, Liu T, Levy SF, Xu NL, Groves BB, Bonneau R, Lao K, Kosik KS. Somatodendritic microRNAs identified by laser capture and multiplex RT-PCR. RNA. 2007 Aug;13(8):1224-34. Epub 2007 Jun 25.
Supplementary Table 1 [pdf] |
Supplementary Table 2 [pdf] |
Supplementary Figure 1 [pdf] |
Supplementary Figure 2 [pdf]
Sakarya O, Armstrong KA, Adamska M, Adamski M, Wang I-F, Tidor B, Degnan BM, Oakley TH, Kosik KS. A Post-synaptic Scaffold at the Origin of the Animal Kingdom. PLoS ONE. 2007 Jun 6;2:e506.
Suppporting Data: Allignments; nexus format [zip] |
Amphimedon sp. sequences [fasta][pdf] |
Nematostella sp. sequences [fasta][pdf]
Kumar P, Ambasta RK, Veereshwarayya V, Rosen KM, Kosik KS, Band H, Mestril R, Patterson C, Querfurth HW. CHIP and HSPs interact with {beta}-APP in a proteasome-dependent manner and influence A{beta} metabolism. Hum Mol Genet. 2007 Apr 1;16(7):848-64. 2006
Kosik KS. The neuronal microRNA system. Nat Rev Neurosci. 2006 Dec;7(12):911-20. Review.
Kosik KS. Traveling the tau pathway: a personal account. J Alzheimers Dis. 2006;9(3 Suppl):251-6. Review.
Donahue CP, Muratore C, Wu JY, Kosik KS, Wolfe MS. Stabilization of the tau exon 10 stem loop alters pre-mRNA splicing. J Biol Chem. 2006 Aug 18;281(33):23302-6. Epub 2006 Jun 16.
Donahue CP, Kosik KS, Shors TJ. Growth hormone is produced within the hippocampus where it responds to age, sex, and stress. Proc Natl Acad Sci U S A; 103(15):6031-6.
Krichevsky AM, Sonntag KC, Isacson O, Kosik KS. Specific microRNAs modulate embryonic stem cell-derived neurogenesis. Stem Cells. 2006 Apr;24(4):857-64. Epub 2005
Dec 15. 2005
Kosik KS, Krichevsky AM. The Elegance of the MicroRNAs: A Neuronal Perspective. Neuron; 47(6):779-82. Review.
Kosik KS, Krichevsky AM. A model for local regulation of translation near active synapses. Sci STKE; 2005(300):tr25.
Monticelli S, Ansel KM, Xiao C, Socci ND, Krichevsky AM, Thai TH, Rajewsky N, Marks DS, Sander C, Rajewsky K, Rao A, Kosik KS. MicroRNA profiling of the murine hematopoietic system. Genome Biol.;6(8):R71.
Ahn JS, Radhakrishnan ML, Mapelli M, Choi S, Tidor B, Cuny GD, Musacchio A, Yeh LA, Kosik KS. Defining Cdk5 ligand chemical space with small molecule inhibitors of tau phosphorylation. Chem Biol.;12(7):811-23.
Chan JA, Krichevsky AM, Kosik KS. MicroRNA-21 is an antiapoptotic factor in human glioblastoma cells. Cancer Res.;65(14):6029-33.
Rampal R, Arboleda-Velasquez JF, Nita-Lazar A, Kosik KS, Haltiwanger RS. Highly conserved O-fucose sites have distinct effects on Notch1 function. J Biol Chem.;280(37):32133-40.
Arboleda-Velasquez JF, Rampal R, Fung E, Darland DC, Liu M, Martinez MC, Donahue CP, Navarro-Gonzalez MF, Libby P, D'Amore PA, Aikawa M, Haltiwanger RS, Kosik KS. CADASIL mutations impair Notch3 glycosylation by Fringe. Hum Mol Genet.;14(12):1631-9.
Kosik KS, Donahue CP, Israely I, Liu X, Ochiishi T. Delta-catenin at the synaptic-adherens junction. Trends Cell Biol;15(3):172-8. Review.
Kosik KS, Shimura H. Phosphorylated tau and the neurodegenerative foldopathies. Biochim Biophys Acta;1739(2-3):298-310. Review.