Carnegie Mellon University


Gamalinda M, Jakovljevic J, Babiano R, Talkish J, de la Cruz J, Woolford JL Jr*. Yeast polypeptide exit tunnel ribosomal proteins L17, L35 and L37 are necessary to recruit late-assembling factors required for 27SB pre-rRNA processing. Nucleic Acids Res. 2012 Dec 24.

Yates BP, Peck MA, Berget PB. Directed Evolution of a Fluorogen-Activating Single Chain Antibody for Function and Enhanced Brightness in the Cytoplasm. Mol Biotechnol. 2012 Dec 14.

Buck TE, Li J, Rohde GK, Murphy RF*. Toward the virtual cell: automated approaches to building models of subcellular organization "learned" from microscopy images. Bioessays. 2012 Sep;34(9):791-9.

Burton SD, Ermentrout GB, Urban NN*. Intrinsic heterogeneity in oscillatory dynamics limits correlation-induced neural synchronization. J Neurophysiol. 2012 Oct;108(8):2115-33.

Jakovljevic J, Ohmayer U, Gamalinda M, Talkish J, Alexander L, Linnemann J, Milkereit P, Woolford JL Jr*. Ribosomal proteins L7 and L8 function in concert with six A₃ assembly factors to propagate assembly of domains I and II of 25S rRNA in yeast 60S ribosomal subunits. RNA. 2012 Oct;18(10):1805-22.

Hackney DD*. Oxygen isotopic exchange probes of ATP hydrolysis by RNA helicases. Methods Enzymol. 2012;511:65-74.

Bachert C, Linstedt A*. A Sensor of Protein O-Glycosylation Based on Sequential Processing in the Golgi apparatus. Traffic. 2012 Oct 9.

Gittis A*. Eppendorf finalist. Striatal interneurons: causes of or cures for movement disorders? Science. 2012 Oct 5;338(6103):59.

Kim J, McBride S, Tellis B, Alvarez-Urena P, Song YH, Dean DD, Sylvia VL, Elgendy H, Ong J, Hollinger JO*. Rapid-prototyped PLGA/β-TCP/hydroxyapatite nanocomposite scaffolds in a rabbit femoral defect model. Biofabrication. 2012 Jun;4(2):025003. Epub 2012 Mar 19.

Iordanova B§, Goins WF, Clawson DS, Hitchens TK, Ahrens ET*. Quantification of HSV-1-mediated expression of the ferritin MRI reporter in the mouse brain. Gene Ther. 2012 Sep 20.

Krajcovic MM§, Minden JS*. Assessing the critical period for Rho kinase activity during Drosophila ventral furrow formation. Dev Dyn. 2012 Sep 12.

Stolzer M, Lai H, Xu M, Sathaye D, Vernot B, Durand D*. Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees. Bioinformatics. 2012 Sep 15;28(18):i409-i415.

Benedetti BL, Takashima Y, Wen JA, Urban-Ciecko J, Barth AL*. Differential Wiring of Layer 2/3 Neurons Drives Sparse and Reliable Firing During Neocortical Development. Cereb Cortex. 2012 Aug 23.

Jakovljevic J, Ohmayer U, Gamalinda M, Talkish J, Alexander L, Linnemann J, Milkereit P, Woolford JL Jr*. Ribosomal proteins L7 and L8 function in concert with six A3 assembly factors to propagate assembly of domains I and II of 25S rRNA in yeast 60S ribosomal subunits. RNA. 2012 Aug 14.

Fanning S§, Xu W§, Beaurepaire C, Suhan J, Nantel A, Mitchell A*. Functional control of the Candida albicans cell wall by catalytic protein kinase A subunit Tpk1. Mol Microbiol. 2012 Aug 9. doi: 10.1111/j.1365-2958.2012.08193.x.

Subramanian S, Woolford CA, Desai JV, Lanni F, Mitchell AP*. Cis- and trans-acting localization determinants of pH-response regulator Rim13 in Saccharomyces cerevisiaeEukaryot Cell. 2012 Aug 3. [Epub ahead of print]

Taff HT, Nett JE, Zarnowski R, Ross KM, Sanchez H, Cain MTHamaker JMitchell AP*Andes DR. A Candida Biofilm-Induced Pathway for Matrix Glucan Delivery: Implications for Drug Resistance. PLoS Pathog 8(8): e1002848, 2012. doi:10.1371/journal.ppat.1002848

Kunttas-Tatli E, Zhou MN, Zimmerman S§, Molinar O, Zhouzheng F, Carter K, Kapur M, Cheatle A, Decal R, McCartney BM*. Destruction complex function in the Wnt signaling pathway of Drosophila requires multiple interactions between Adenomatous polyposis coli 2 and Armadillo. Genetics. 2012 Mar;190(3):1059-75. Epub 2011 Dec 14.

Zhong J, Mills PH, Hitchens TK, Ahrens ET*. Accelerated fluorine-19 MRI cell tracking using compressed sensing. Magn Reson Med. 2012 Jul 26.

Murphy RF*. CellOrganizer: Image-derived models of subcellular organization and protein distribution. Methods Cell Biol. 2012;110:179-93.

Remus ML, Thiels E. Stimulus-specific and differential distribution of activated extracellular signal-regulated kinase in the nucleus accumbens core and shell during Pavlovian-instrumental transfer. Brain Struct Funct. 2012 Jul 5.

Yadav S§, Puthenveedu MA*, Linstedt AD*. Golgin160 recruits the Dynein motor to position the Golgi apparatus. Dev Cell. 2012 Jul 17;23(1):153-65.

Talkish J, Zhang J, Jakovljevic J, Horsey EW, Woolford JL Jr*. Hierarchical recruitment into nascent ribosomes of assembly factors required for 27SB pre-rRNA processing in Saccharomyces cerevisiae. Nucleic Acids Res. 2012 Jun 26.

Babiano R, Gamalinda MWoolford JL Jr*, de la Cruz J. Saccharomyces cerevisiae ribosomal protein L26 is not essential for ribosome assembly and function. Mol Cell Biol. 2012 Jun 11.

Li J, Xiong L, Schneider J, Murphy RF*. Protein subcellular location pattern classification in cellular images using latent discriminative models. Bioinformatics. 2012 Jun 15;28(12):i32-i39.

Badrane H, Nguyen MH, Blankenship JR§, Cheng S, Hao B, Mitchell AP*, Clancy CJ. Rapid redistribution of phosphatidylinositol-(4,5)-bisphosphate and septins during the Candida albicans response to caspofungin. Antimicrob Agents Chemother. 2012 Jun 11.

Truschel ST§, Zhang M, Bachert C, Macbeth MR*, Linstedt AD*. Allosteric regulation of GRASP protein-dependent Golgi membrane tethering by mitotic phosphorylation. J Biol Chem. 2012 Jun 8;287(24):19870-5. Epub 2012 Apr 20.

Hovis KR§, Ramnath R, Dahlen JE, Romanova AL, Larocca G, Bier ME, Urban NN*. Activity regulates functional connectivity from the vomeronasal organ to the accessory olfactory bulb. J Neurosci. 2012 Jun 6;32(23):7907-16.

Subramanian A, Shackney S, Schwartz R*. Inference of tumor phylogenies from genomic assays on heterogeneous samples. J Biomed Biotechnol. 2012;2012:797812. Epub 2012 May 13.

Kim J, Hollinger JO*. Recombinant human bone morphogenetic protein-2 released from polyurethane-based scaffolds promotes early osteogenic differentiation of human mesenchymal stem cells. Biomed Mater. 2012 Jun 1;7(4):045008.

Barth AL*, Poulet JF. Experimental evidence for sparse firing in the neocortex. Trends Neurosci. 2012 May 12.

Oswald AM, Urban NN*. Interactions between Behaviorally Relevant Rhythms and Synaptic Plasticity Alter Coding in the Piriform Cortex. J Neurosci. 2012 May 2;32(18):6092-104.

Fanning S§, Xu W§, Solis N, Woolford CA, Filler SG, Mitchell AP*. Divergent targets of Candida albicans biofilm regulator Bcr1 in vitro and in vivoEukaryot Cell. 2012 Apr 27.

Ventura V, Gerkin RC§. Accurately estimating neuronal correlation requires a new spike-sorting paradigm. Proc Natl Acad Sci U S A. 2012 Apr 23.

Iordanova B§, Ahrens ET*In vivo magnetic resonance imaging of ferritin-based reporter visualizes native neuroblast migration. Neuroimage. 2012 Jan 16;59(2):1004-12. Epub 2011 Sep 13.

Mills PH, Hitchens TK, Foley LM, Link T, Ye Q, Weiss CR, Thompson JD, Gilson WD, Arepally A, Melick JA, Kochanek PM, Ho C*, Bulte JW, Ahrens ET*. Automated detection and characterization of SPIO-labeled cells and capsules using magnetic field perturbations. Magn Reson Med. 2012 Jan;67(1):278-89. doi: 10.1002/mrm.22998. Epub 2011 Jun 7.

Xu W, Mitchell AP*. Fungal morphogenesis: in hot pursuit. Curr Biol. 22(7):R225-7, 2012 Apr 10.

Fanning S§, Mitchell AP*. Fungal biofilms. PLoS Pathog. 8(4):e1002585, 2012 Apr. Epub 2012 Apr 5. No abstract available.

Grover A, Schmidt BF, Salter RD, Watkins SC, Waggoner AS*, Bruchez MP*. Genetically Encoded pH Sensor for Tracking Surface Proteins through Endocytosis. Angew Chem Int Ed Engl. 2012 Mar 29. doi: 10.1002/anie.201108107. [Epub ahead of print]

Shruti S, Urban-Ciecko J§, Fitzpatrick JA, Brenner R, Bruchez MP*, Barth AL*. The Brain-Specific Beta4 Subunit Downregulates BK Channel Cell Surface Expression. PLoS One. 2012;7(3):e33429. Epub 2012 Mar 16.

Senutovitch N, Stanfield RL, Bhattacharyya S, Rule GS*, Wilson IA, Armitage BA*, Waggoner AS*, Berget PB*. A Variable Light Domain Fluorogen Activating Protein Homodimerizes To Activate Dimethylindole Red. Biochemistry. 2012 Mar 14. [Epub ahead of print]

Liu L, Ye Q, Wu Y, Hsieh WY, Chen CL, Shen HH, Wang SJ, Zhang H, Hitchens TK, Ho C*. Tracking T-cells in vivo with a new nano-sized MRI contrast agent. Nanomedicine. 2012 Nov;8(8):1345-54. doi: 10.1016/j.nano.2012.02.017. Epub 2012 Mar 7.

Rafiq K, Cheers MS, Ettensohn CA*. The genomic regulatory control of skeletal morphogenesis in the sea urchin. Development. 2012 Feb;139(3):579-90. Epub 2011 Dec 21.

Thevissen K, de Mello Tavares P, Xu D, Blankenship J§, Vandenbosch D, Idkowiak-Baldys J, Govaert G, Bink A, Rozental S, de Groot PW, Davis TR, Kumamoto CA, Vargas G, Nimrichter L, Coenye T, Mitchell A*, Roemer T, Hannun YA, Cammue BP. The plant defensin RsAFP2 induces cell wall stress, septin mislocalization and accumulation of ceramides in Candida albicansMol Microbiol. 2012 Mar 5. doi: 10.1111/j.1365-2958.2012.08017.x. [Epub ahead of print].

Wen JA, Barth AL*. Synaptic lability after experience-dependent plasticity is not mediated by calcium-permeable AMPARs. Front. Mol. Neurosci. 5:15, 2012. doi: 10.3389/fnmol.2012.00015

Alvarez P, Hee CK, Solchaga L, Snel L, Kestler HK, Lynch SE, Hollinger JO*. Growth factors and craniofacial surgery. J Craniofac Surg. 2012 Jan;23(1):20-9.

Jarvela T, Linstedt AD*. Irradiation-induced protein inactivation reveals Golgi enzyme cycling to cell periphery. J Cell Sci. 2012 Feb 15;125(Pt 4):973-80. doi: 10.1242/jcs.094441. Epub 2012 Mar 15..

Kadayakkara DK, Ranganathan S, Young WB, Ahrens ET*. Assaying macrophage activity in a murine model of inflammatory bowel disease using fluorine-19 MRI. Lab Invest. 2012 Feb 13. doi: 10.1038/labinvest.2012.7. [Epub ahead of print]

Finkel JS§, Xu W, Huang D, Hill EM, Desai JV, et al. (2012) Portrait of Candida albicansAdherence Regulators. PLoS Pathog 8(2): e1002525. doi:10.1371/journal.ppat.1002525

Ganguly S, Mitchell AP*. Mini-blaster-Mediated Targeted Gene Disruption and Marker Complementation in Candida albicans. Methods Mol Biol. 2012;845:19-39.

Minden JS*. DIGE: Past and Future. Methods Mol Biol. 2012;854:3-8.

Shimoji K, Jakovljevic J, Tsuchihashi K, Umeki Y, Wan K, Kawasaki S, Talkish J†, Woolford JL Jr*, Mizuta K. Ebp2 and Brx1 function cooperatively in 60S ribosomal subunit assembly in Saccharomyces cerevisiae. Nucleic Acids Res. 2012 Feb 8.

Lee B, Leduc PR, Schwartz R*. Three-dimensional stochastic off-lattice model of binding chemistry in crowded environments. PLoS One. 7(1):e30131, 2012. Epub 2012 Jan 17.

Mukhopadhyay S§, Linstedt AD*. Manganese Blocks Intracellular Trafficking of Shiga Toxin and Protects Against Shiga Toxicosis. Science. 335(6066): 332-335, 20 January 2012.

Barth AL*. AC-1 and synaptic development. J Physiol. 2012 Jan 1;590(Pt 1):3.