Carnegie Mellon University


Ahrens ET*, Flores R, Xu HY, Morel PA. In vivo imaging platform for tracking immunotherapeutic cells. Nat. Biotech. 23: 983-987, 2005.

Ahrens ET*, Morel PA. In vivo imaging of autoimmune disease in model systems. Curr Top Dev Biol. 70:215-38, 2005.

Ahrens ET*. Emerging non-invasive imaging techniques using magnetic resonance imaging. Curr Top Dev Biol. 70:xi, 2005.

Bajzak D, Rule GS*. Authentic Learning and Assessments: Major Components in Transforming Superficial Understanding into Knowledge in Introductory Biochemistry, E-Learn 2005 conference proceedings. 2005.

Ballou B, Ernst LA, Waggoner AS*. Fluorescence imaging of tumors in vivo. Curr Med Chem. 12(7):795-805, 2005.

Barwell KJ, Boysen JH, Xu W, Mitchell AP*. Relationship of DFG16 to the Rim101p pH response pathway in Saccharomyces cerevisiae and Candida albicans. Eukaryot Cell. 4(5):890-9, 2005 May.

Braun BR, van Het Hoog M, d'Enfert C, Martchenko M, Dungan J, Kuo A, Inglis DO, Uhl MA, Hogues H, Berriman M, et al. A human-curated annotation of the Candida albicans genome. PLoS Genet 1, 36-57, 2005.

Browning H, Hackney DD*. The EB1 Homolog Mal3 Stimulates the ATPase of the Kinesin Tea2 by Recruiting It to the Microtubule. J. Biol. Chem. 280, 12299-12304, 2005.

Bruchez MP*. Turning all the lights on: quantum dots in cellular assays. Curr Opin Chem Biol. 24:24, 2005.

Bruno VM, Mitchell AP*. Regulation of azole drug susceptibility by Candida albicans protein kinase CK2. Mol Microbiol. 56(2):559-73, 2005 Apr.

Burnette JM, Miyamoto-Sato E, Schaub MA, Conklin J, Lopez AJ*. Subdivision of large introns in Drosophila by recursive splicing at nonexonic elements. Genetics, 170(2):661-674, 2005.

Celil AB, Hollinger JO*, Campbell PG*. Osx transcriptional regulation is mediated by additional pathways to BMP2/Smad signaling. J Cell Biochem. 95(3):518-28, 2005 Jun 1.

Cheers MS, Ettensohn CA*. P16 is an essential regulator of skeletogenesis in the sea urchin embryo. Dev. Biol. 283, 384-396, 2005.

Chen X, Murphy RF*. Objective clustering of proteins based on subcellular location patterns. J Biomed Biotechnol. 2005(2):87-95, 2005 Jun 30.

Chu N, Kucerka N, Liu Y, Tristram-Nagle S, Nagle JF*. Anomalous swelling of lipid bilayer stacks is caused by softening of the bending modulus. Phys Rev E Stat Nonlin Soft Matter Phys. 71(4 Pt 1):041904, 2005 Apr. Epub 2005 Apr 7.

Coggan JS, Bartol TM, Esquenazi E, Stiles JR*, Lamont S, Martone ME, Berg DK, Ellisman MH, Sejnowski TJ. Evidence for ectopic neurotransmission at a neuronal synapse. Science. 309(5733):446-51, 2005 Jul 15.

Conklin JF, Goldman A, Lopez AJ*. Stabilization and analysis of intron lariats in vivo. Methods, 37(4):368-375, 2005.

Fischer AJ, Rockwell NC, Jang AY, Ernst LA, Waggoner AS*, Duan Y, Lei H, Lagarias JC. Multiple roles of a conserved GAF domain tyrosine residue in cyanobacterial and plant phytochromes. Biochemistry. 44(46):15203-15, 2005 Nov 22.

Foley LM, Hitchens TK, Kochanek PM, Melick JA, Jackson EK, Ho C*. Murine orthostatic response during prolonged vertical studies: effect on cerebral blood flow measured by arterial spin-labeled MRI. Magn Reson Med. 54(4):798-806, 2005 Oct.

Fu H, Hu Y, McNelis T, Hollinger JO*. A calcium phosphate-based gene delivery system. J Biomed Mater Res A. 74(1):40-8, 2005 Jul 1.

Galan RF, Ermentrout GB, Urban NN*. Efficient estimation of phase-resetting curves in real neurons and its significance for neural-network modeling. Phys Rev Lett 94: 158101, 2005.

Genove G, DeMarco U, Xu H, Goins WF, Ahrens ET*. A novel transgene reporter for in vivo magnetic resonance imaging. Nat. Med. 11: 450-454, 2005.

Genové G, Glick BS, Barth AL*. Brighter reporter genes from multimerized fluorescent proteins. Biotechniques. 39(6):814, 816, 818 passim, 2005.

Granger BL, Flenniken ML, Davis DA, Mitchell AP*, Cutler JE. Yeast wall protein 1 of Candida albicans. Microbiology 151, 1631-1644, 2005.

Guelcher SA, Gallagher KM, Didier JE, Klinedinst DB, Doctor JS, Goldstein AS, Wilkes GL, Beckman EJ, Hollinger JO*. Synthesis of biocompatible segmented polyurethanes from aliphatic diisocyanates and diurea diol chain extenders. Acta Biomater. 1(4):471-84, 2005 Jul. Epub 2005 Mar 31.

Hackney DD*. The tethered motor domain of a kinesin-microtubule complex catalyzes reversible synthesis of bound ATP, Proc.Natl.Acad.Sci.U.S.A 102, 18338-18343, 2005.

Hoberman R, Sankoff D, Durand D*. The statistical analysis of spatially clustered genes under the maximum gap criterion. Journal of Computational Biology, 12(8): 1081-1100, 2005.

Huang Z,  Shiva S, Kim-Shapiro DB, Patel R, Ringwood LA, Irby CE, Huang KT, Ho C*, Hogg A, Schechter AN, Gladwin MT. Enzymatic Function of Hemoglobin as a Nitrite Reductase that Produces Nitric Oxide Under Allosteric Control. Journal of Clinical Investigation 2005; 115, 2099-2107.

Kapetanovich L, Baughman C, Lee TH*. Nm23H2 Facilitates Coat Protein Complex II Assembly and Endoplasmic Reticulum Export in Mammalian Cells. Molecular Biology of the Cell, 16(2):835-48, 2005.

Kaufman JA, Ahrens ET*, Laidlaw DH, Zhang S, Allman JM. Anatomical analysis of an aye-aye brain (Daubentonia madagascariensis, primates: Prosimii) combining histology, structural magnetic resonance imaging, and diffusion-tensor imaging. Anat Rec A Discov Mol Cell Evol Biol. 287(1):1026-37, 2005 Nov.

Kochanek PM, Hendrich,KS, Jackson E, Wisniewski SR, Melick JA, Shore PM, Janesko KL, Zacharia L, Ho C*. Characterization of the Effects of Adenosine Receptor Agonists on Cerebral Blood Flow in Uninjured and Traumatically Injured Rat Brain Using Continuous Arterial Spin-Labeled Magnetic Resonance Imaging. Journal of Cerebral Blood Flow and Metabolism 2005; 25, 1596-1612.

Koshibu K, Ahrens ET*, Levitt P. Postpubertal sex differentiation of forebrain structures and functions depend on transforming growth factor-alpha. J Neurosci. 25(15):3870-80, 2005 Apr 13.

Kou Z, Cohen WW, Murphy RF*. High-recall protein entity recognition using a dictionary. Bioinformatics. 21 Suppl 1:i266-73, 2005 Jun.

Kucerka N, Liu Y, Chu N, Petrache HI, Tristram-Nagle S, Nagle JF*. Structure of fully hydrated fluid phase DMPC and DLPC lipid bilayers using X-ray scattering from oriented multilamellar arrays and from unilamellar vesicles. Biophys J. 88(4):2626-37, 2005 Apr. Epub 2005 Jan 21.

Kucerka N, Tristram-Nagle S, Nagle JF*. Structure of fully hydrated fluid phase lipid bilayers with monounsaturated chains. J Membr Biol. 208(3):193-202, 2005 Dec. Epub 2006 Apr 8.

Kumar S, Lopez AJ*. Negative feedback regulation among SR splicing factors encoded by Rbp1 and Rbp1-like in Drosophila. EMBO J, 24(14):2646-2655, 2005.

Lanni F*. Fluorescence grating imager systems for optical-sectioning microscopy. In: Imaging in Neuroscience and Development. R.M. Yuste and A. Konnerth, eds. Cold Spring Harbor Laboratory Press, 2005. pp805-813 (Chapter 101), 2005.

Macbeth MR*, Schubert HL, VanDemark AP, Lingam AT, Hill CP, Bass BL. Inositol hexakisphosphate is bound in the ADAR2 core and required for RNA editing. Science, 309:1534-1539, 2005.

Manjula BN, A. Tsai G, Intaglietta M, Tsai CH, Ho C*, Smith PK, Perumalsamy K, Kanika ND, Friedman JM, Acharya SA. Conjugation of Multiple Copies of Polyethylene Glycol to Hemoglobin Facilitated Through Thiolation:  Influence on Hemoglobin Structure and Function. Protein Journal 2005; 24:133-145.

Miles TD, Jakovljevic J, Horsey E, Harnpicharnchai P, Tang L, Woolford Jr JL*. Ytm1, Nop7, and Erb1 Form a Complex Necessary for Maturation of 66S Preribosomes. Molecular and Cellular Biology, 25:10419-10432, 2005.

Mitchell AP*. Fungal CO2 sensing: a breath of fresh air. Curr Biol. 15(22):R934-6, 2005 Nov 22.
Morohashi N, Mitchell AP, Shimizu M. Effect of histone methyltransferase gene mutations on sporulation in S. cerevisiae. Nucleic Acids Symp Ser (Oxf), 325-326, 2005.

Murphy RF*. Cytomics and location proteomics: automated interpretation of subcellular patterns in fluorescence microscope images. Cytometry A. 67(1):1-3, 2005 Sep.

Murphy RF*. Location proteomics: a systems approach to subcellular location. Biochem Soc Trans. 33(Pt 3):535-8, 2005 Jun.

Nakahara K, Kim KK, Sciulli CC, Dowd SR, Minden JS*, Carthew RW. Targets of microRNA regulation in the Drosophila oocyte proteome. PNAS, 102, 12023-12028, 2005.

Nakao A, Murase N,  Ho C*,  Toyokawa H,  Billiar TB, Kanno S. Biliverdin Administration Prevents the Formation of Intimal Hyperplasia Induced by Vascular Injury. Circulation 2005; 112, 587-591.

Nobile CJ, Mitchell AP*. Regulation of cell-surface genes and biofilm formation by the C. albicans transcription factor Bcr1p. Curr Biol. 15(12):1150-5, 2005 Jun 21.

Otim O, Hinman VF*, Davidson EH. Expression of AmHNF6, a sea star orthologue of a transcription factor with multiple distinct roles in sea urchin development. Gene Expr Patterns. 5(3):381-6, 2005 Feb.

Pluempitiwiriyawej C,  Moura JMF, Wu YJL,  Ho C*. STACS:  New Active Contour Scheme for Cardiac MR Image segmentation. IEEE Transactions on Medical Imaging 2005; 24, 593-603.

Puthenveedu MA, Linstedt AD*. Subcompartmentalizing the Golgi apparatus. Curr Opin Cell Biol. 17(4):369-75, 2005 Aug.

Richard ML, Nobile CJ, Bruno VM, Mitchell AP*. Candida albicans biofilm-defective mutants. Eukaryot Cell. 4(8):1493-502, 2005 Aug.

Salama G, Choi BR, Azour G, Lavasani M, Tumbev V, Salzberg BM, Patrick MJ, Ernst LA, Waggoner AS*. Properties of new, long-wavelength, voltage-sensitive dyes in the heart. J Membr Biol. 208(2):125-40, 2005 Nov.

Sui X, Xu Y, Giovannelli JL, Ho NT, Ho C*, Yang D. Mapping Protein-Protein Interface on the Basis of Proton Density Difference. Angewandte Chemie International Edition 2005; 44, 5141- 5144.

Tam MF, Chen J§, Tam TCS, Tsai CH, Shen TJ, Simplaceanu V, Feinstein TN,  Barrick D, Ho C*. Enhanced Inhibition of Polymerization of Sickle Cell Hemoglobin the Presence of Recombinant Mutants of Human Fetal Hemoglobin With Substitutions at Position 43 in the γ-Chain. Biochemistry 2005; 44, 12188-12195.

Tristram-Nagle S, Lewis RN, Blickenstaff JW, Diprima M, Marques BF, McElhaney RN, Nagle JF*, Schneider JW. Thermodynamic and structural characterization of amino acid-linked dialkyl lipids. Chem Phys Lipids. 134(1):29-39, 2005 Mar. Epub 2004 Dec 9.

Urban NN*, Castro JB. Tuft calcium spikes in accessory olfactory bulb mitral cells. J Neurosci 25: 5024-5028, 2005.

Villar CC, Kashleva H, Mitchell AP*, Dongari-Bagtzoglou A. Invasive phenotype of Candida albicans affects the host proinflammatory response to infection. Infect Immun 73, 4588-4595, 2005.

Wiltrout ME, Giovannelli JL, Simplaceanu V, Lukin JA, Ho NT, Ho C*. A biophysical investigation of recombinant hemoglobins with aromatic B10 mutations in the distal heme pockets. Biochemistry. 44(19):7207-17, 2005 May 17.

Xu D, Liang Z-P, Wu YL, Hitchens TK, Ho C*. High-Resolution Dynamic Imaging of Contrast Agent Uptake in a Beating Heart. IEEE Engineering in Medicine and Biology 2005, pp. 7397-7400.

Xu Y, Lin Z, Ho C*, Yang D. A General Strategy for the Assignment of Aliphatic Side-Chain Resonances of Uniformly 13C, 15N-Labeled Large Proteins. Journal of the American Chemical Society 2005; 127, 11920-11921.

Zhan Y, Rule GS*. Stable triplet of uracil-uracil basepairs in a small antisense RNA.J Am Chem Soc., 127:15714-5, 2005.

Zhao T, Velliste M, Boland MV, Murphy RF*. Object type recognition for automated analysis of protein subcellular location. IEEE Trans Image Process. 14(9):1351-9, 2005 Sep.