Biosciences Division

2003 Publications

Akabani, G., S. J. Kennel, and M. R. Zalutsky, "Microdosimetric analysis of alpha-particle-emitting targeted radiotherapeutics using histological images," J. Nucl. Med. 44(5):792-805 (May 2003).

Allain, L. R., D. N. Stratis, C. M. Cullum, J. Mobley, M. R. Hajaligol, and T. Vo-Dinh, "Real-time detection of PAH mixtures in the vapor phase at high temperatures," J. Anal. Appl. Pyrolysis 66(1-2):145-154 (January 2003).

Chain, P., J. Lamerdin, F. Larimer, W. Regala, V. Lao, M. Land, L. Hauser, A. Hooper, M. Klotz, J. Norton, L. Sayavedra- Soto, D. Arciero, N. Hommes, M. Whittaker, and D. Arp, "Complete Genome Sequence of the Ammonia-Oxidizing Bacterium and Obligate Chemolithoautotroph NitrosomonaseEuropaea," J. Bacteriology 185(9):2759-2773 (May 2003).

Chao, H.H.J., S. E. Mentzer, J. C. Schimenti, and Y. You, "Overlapping Deletions Define Novel Embryonic Lethal Loci in the Mouse t Complex," Genesis 35:133-142 (February 2003).

Chen, Y., and D. Xu, "Computational analyses of high-throughput protein-protein interaction data," Current Protein & Peptide Science 4(3):159-180 (June 2003).

Chen, Y., T. Joshi, Y. Xu, and D. Xu, "Towards Automated Derivation of Biological Pathways Using High-Throughput Biological Date," in Proc. of the 3rd IEEE Symposium on Bioinformatics and Bioengineering, IEEE/CS Press, pp. 18-25 (2003).

Chen, Z. Z., T. Jiant, G. H. Lin, J. J. Wen, D. Xu, J. B. Xu, and Y. Xu, "Approximation algorithms for NMR spectral peak assignment," Theor. Comp. Sci. 299(1-3):211-229 (April 2003).

Christofidou-Solomidou, M., A. Scherpereel, A. Bohen, E. Arguiri, V. Sahuvaev, S. Kennel, and V. Muzykantov, "Hyperoxia potentiates oxidative injury in murine lungs induced by glucose oxidase targeted to thrombomodulin," FASEB Journal 17(4):A247, Part 1, Suppl. S (March 2003).

Davison, B. H., and M. Finkelstein, "Introduction to the Proceedings of the Twenty-Fourth Symposium on Biotechnology for Fuels and Chemicals," Appl. Biochem. & Biotech. 105:III-VII (Spring 2003).

Espinosa, G., and R. B. Gammage, "A representative survey of indoor radon in the sixteen regions in Mexico City," Rad. Prot. Dosim. 103(1):73-76 (2003).

Gunter, L. E., G. T. Roberts, K. Lee, F. W. Larimer, and G. A. Tuskan, "The development of two flanking SCAR markers linked to a sex determination locus in Salix viminalis L.," J. Heredity 94(2):185-189 (March 2003).

Guo, J. T., D. Xu, D. Kim, and Y. Xu, "Improving the performance of DomainParser for structural domain partition using neural network," Nucl. Acids Res. 31(3):944-952 (February 2003).

Gupta, R. K., S. V. Dobritsa, C. A. Stiles, M. E. Essington, Z. Y. Liu, C. H. Chen, E. H. Serpersu, and B. C. Mullin, "Metallohistins: A New Class of Plant Metal-Binding Proteins," J. Protein Chem. 21(8):529-536 (November 2002).

Hanson, B. L., C. A. Schall, and G. J. Bunick, "New techniques in macromolecular cryocrystallography: macromolecular crystal annealing and cryogenic helium," J. Struc. Biol. 142(1):44-87 (April 2003).

Heo, Y. R., K. Claycombe, G. E. Truett, P. Wright, W. Banz, M. Maher, M. Zemel, B. H. Jones, and N. Moustaid-Moussa, "Effects of fatty (fa) allele and high-fat diet on adipose tissue leptin and lipid metabolism," Horm. Metab. Res. 34(11 12):686-690 (2003).

Higley, K. A., S. L. Domotor, E. J. Antonio, and D. C. Kocher (LSD retired), "Derivation of a Screening Methodology for Evaluating Radiation Dose to Aquatic and Terrestrial Biota," J. Env. Radioactivity 66(1-2):41-59 (2003).

Horita, J. and A. A. Vass, "Stable-Isotope Fingerprints of Biological Agents as Forensic Tools," J. Forensic Sci. 48(1):122-126 (January 2003).

Hoyt, P. R., L. Tack, B. H. Jones, J. Van Dinther, S. Staat, and M. J. Doktycz, "Automated High-Throughput Probe Production for DNA Microarray Analysis," Biotechniques 34(2):402-407 (February 2003).

Isola, N. R., Z. Liu, S. L. Allman, N. I. Taranenko, Y. Kong, and C. H. Chen, "Matrix-assisted laser desorption/ionization detection of polymerase chain reaction products by utilizing the 5'-3' exonuclease activity of Thermus aquaticus DNA polymerase," Rapid Commun. in Mass Spectrom. 17(6):532-537 (2003).

Jones, D., S. Domotor, K. Higley, D. Kocher (LSD retired), and G. Bilyard, "Principles and Issues in Radiological Ecological Risk Assessment," J. Env. Radioactivity 66(1-2):19-39 (2003).

Kasili, R. M., B. M. Cullum, G. D. Griffin, and T. Vo-Dinh, "Nanosensor for in vivo measurement of the carcinogen benzo[a]pyrene in a single cell," J. Nanosci. & Nanotech. 2(6):653-658 (December 2002).

Kennel, S. J., "531-2A, 22A, 30Aq 32A anti-CD44," Hybridoma and Hybridomics 21(6):506 (December 2002).

Kim, S., S. Urs, F. Massiera, P. Wortman, R. Joshi, Y. R. Heo, B. Anderson, H. Kobayashi, M. Teboul, G. Aihaud, A. Quignard-Boulange, A. Fukamizu, B. H. Jones, J. H. Kim, and N. Moustaid-Moussa, "Effects of high-fat diet, angiotensinogen (agt) gene inactivation, and targeted expression to adipose tissue on lipid metabolism and renal gene expression," Hormone and Metabolic Res. 34(11-12):721-725 (November/December 2002).

Lin, G., D. Xu, Z.-Z. Chen, T. Jiang, J. Wen, and Y. Xu, "Computational Assignments of Protein Backbone NMR Peaks by Efficient Bounding and Filtering," J. Bioinformatic and Computational Biology 31:944-952 (2003).

Mehta, A., P. Kumar, M. D. Dadmun, J. Zheng, R. M. Dickson, T. Thundat, B. G. Sumpter, and M. D. Barnes, "Oriented nanostructures from single molecules of a semiconducting polymer: Polarization evidence for highly aligned intramolecular geometries," Nano Letters 3(5):603-6097 (May 2003).

Mehta, A., T. Thundat, M. D. Barnes, V. Chhabra, R. Bhargava, A. P. Bartko, and R. M. Dickson, "Size-correlated spectroscopy and imaging of rare-earth-doped nanocrystals," Applied Optics 42(12):2132-2139 (April 2003).

Melechko, A. V., T. E. McKnight, M. A. Guillorn, V. I. Merkulov, B. Ilic, M. J. Doktycz, D. H. Lowndes, and M. L. Simpson, "Vertically Aligned Carbon Nanofibers as Sacrificial Templates for Nanofluidic Structures," Appl. Phys. Lett. 82(6):976-978 (February 2003).

Melechko, A. V., T. E. McKnight, M. A. Guillorn, D. W. Austin, B. Ilic, V. I. Merkulov, M. J. Doktycz, D. H. Lowndes, and M. L. Simpson, "Nanopipe Fabrication Using Vertically Aligned Carbon Nanofiber Templates," J. Vac. Sci. Tech. B 20(6):2730-2733 (November-December 2002).

Moreno-Bondi, M. C., J. P. Alarie, and T. Vo-Dinh, "Multi-Analyte Analysis System Using an Antibody-Based Biochip," Anal. Bioanal. Chem. 375(1):120-124 (January 2003).

Olman, V., D. Xu, and Y. Xu, "Identification of Regulatory Binding Sites Using Minimum Spanning Trees," in Proc. 2003 Pacific Symp. on Biocomputing (PSB), pp. 327-338 (2003).

Olman, V., D. Xu, and Y. Xu, "CUBIC: Identification of Regulatory Binding Sites through Data Clustering," J. Bioinformatics and Computational Biology 1:20-40 (2003).

Passian, A., P. G. Evans, V. K. Varma, T. L. Ferrell, and T. Thundat, "Piezoresistive Detection of Acoustic Waves," Rev. Sci. Instrum. 74(2):1031-1035 (February 2003).

Passian, A., R. J. Warmack, T. L. Ferrell, and T. Thundat, "Thermal transpiration at the microscale: A Crookes cantilever," Phys. Rev. Ltrs. 90(12), article no. 124503 (March 2003).

Rajaraman, S., L. K. Wood, D. K. Willhite, L. B. Russell, and M. A. Bedell, "Effects of spontaneious Kitl(Steel) mutations on survival and red blood cells of mice," Mamm. Gen. 14(3):168-174 (March 2003).

Reyes-Lopez, M., A. Mendez-Tenorio, R. Maldonaldo-Rodriguez, M. J. Doktycz, J. T. Fleming, and K. L. Beattie, "Fingerprinting of prokaryotic 16S rRNA genes using oligodeoxyribonucleotide microarrays and virtual hybridization," Nucl. Acids Res. 31(2):779-789 (January 2003).

Rinchik, E. M., D. K. Johnson, D. Miller, C. T. Culiat, and E. J. Michaud, "Chemical mutagenesis of the mouse germline: New models for genetic diseases and for dissecting basic biological processes," FASEB Journal 17(5):A1168, Part 2, Suppl. S (March 2003).

Shah, M., S. Passovets, D. Kim, K. Ellrott, L. Wang, I. Vokler, P. LoCascio, D. Xu, and Y. Xu, "A Computational Pipeline for Protein Structure Prediction and Analysis at Genome Scale," in Proc. of the 3rd IEEE Symposium on Bioinformatics and Bioengineering, IEEE/CS Press, pp. 3-10 (2003).

Sharp, J. S., J. M. Becker, and R. L. Hettich, "Protein surface mapping by chemical oxidation: Structural analysis by mass spectrometry," Anal. Biochem. 313(2):216-225 (February 2003).

Sharp, J. S., J. M. Becker, R. L. Hettich, "Topology characterization of model proteins by photochemical side chain oxidation and mass spectrometry," FASEB Journal 17(5):A988, Part 2 Suppl. S (March 2003).

Song, J. M., J. Mobley, and T. Vo-Dinh, "Detection of bactyerial pathogen DNA using an integrated complementary metal oxide semiconductor microchip system with capillary array electrophoresis," J. Chrom. B-Anal. Tech. Biomed. Life Sci. 783(2):501-508 (January 2003).

Stratis-Collum, D. N., G. D. Griffin, J. Mobley, A. A. Vass, and T. Vo-Dinh, "A miniature biochip system for detection of aerosolized Bacillus globigii spores," Anal. Chem. 75(2):275-280 (January 2003).

Vo-Dinh, T., "Nanobiosensors: Probing the Sanctuary of Individual Living Cells," J. Cell Biochem. Supp. 39:154-161 (2002).

Vo-Dinh, T., G. Griffin, D. L. Stokes, and A. Wintenberg, "Multi-functional biochip for medical diagnostics and pathogen detection," Sensors and Actuators B - Chemical 90(1-3):104-111, Sp. Iss. SI (April 2003).

Wang, L. H., and B. E. Hingerty, "Conformational analysis of model estrogen-DNA adducts, N-2-(2-hydroxyestron-a, b-yl)-2'-deoxyguanosine and N-6-(2-hydroxyestron-6a, b-yl-2'-deoxyadenosine in duplex B-DNA," Chem. Res. in Toxicol. 15(12):67 (December 2002).

Waters, K. R., M. S. Hughes, J. Mobley, and J. G. Miller, "Differential Forms of the Karmers-Kronig Dispersion Relations," IEEE Trans. On Ultrasonics Ferroelectrics and Frequency Control 50(1):68-76 (January 2003).

Witt, K. L., L. A. Hughes, L. T. Burka, A. F. McFee, J. M. Mathews, S. L. Black, and J. B. Bishop, "Mouse Bone Marrow Micronucleus Test Results Do Not Predict the Germ Cell Mutagenicity of N-Hydroxymethylacrylamide in the Mouse Dominant Lethal Assay," Env. Mol. Mut. 41(2):111-120 (2003).

Wu, M., E. J. Michaud, and D. K. Johnson, "Cloning, functional study and comparative mapping of Luzp2 to mouse chromosome 7 and human chromosome 11p13-11p14," Mamm. Gen. 14(5):323-334 (May 2003).

Yan, X. D., Y. Lvov, H.-F. Ji, A. Singh, and T. Thundat, "A general microcantilever surface modification method using a multilayer for biospecific recognition," Organic & Biomolecular Chemistry 1(3):460-462 (February 2003).

Yang, Y. M., H. F. Ji, and T. Thundat, "Nerve Agents Detection Using a Cu2+/L-cysteine Bilayer-Coated Microcantilever," J. Amer. Chem. Soc. 125(5):1124-1125 (February 2003).

Zhang, Q. H., N. S. Murcia, L. R. Chittenden, W. G. Richards, E. J. Michaud, R. P. Woychik, and B. K. Yoder, "Loss of the Tg737 protein results in skeletal patterning defects," Dev. Dyn. 227(1):78-90 (May 2003).

Reports (ORNL-TMs)

Barton, John W., and Roger D. Spence, Evaluation of FWENC Process for Treatment of MVST Sludges, Supernates, and Surrogates. ORNL/TM-2003/30, U.S. Department of Energy, Oak Ridge, Tennessee.

Klasson, K. T., R. M. Counce, L. W. Perkins, S. R. Drescher, and C. J. Perilloux, Nitro-Hydrolysis: An Energy Efficient Source Reduction and Chemical Production Process for Wastewater Treatment Plant Biosolids. ORNL/TM-2003/3, Oak Ridge National Laboratory (January 2003).

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