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    Thomas James, PhD

    TitleProfessor
    SchoolUCSF School of Pharmacy
    DepartmentPharmaceutical Chemistry
    Address600 16th Street
    San Francisco CA 94158
    Phone415-476-1569
      Other Positions
      TitleInterim Director, Molecular Design Institute


       Biography 
       Awards and Honors
      University of New Mexico, Albuquerque1962 - 1965University Roll of Distinction
      University of New Mexico, Albuquerque1962 - 1965University Honor Roll
      University of New Mexico, Albuquerque1964Kappa Mu Epsilon (Mathematics Honorary)
      Bundesrepublik Deutschlan1964German Award
      University of New Mexico, Albuquerque1964Phi Kappa Phi (Scholastic Honorary)
      University of New Mexico, Albuquerque1965Phi Beta Kappa (Scholastic Honorary)

       ORNG Applications 
       In The News
       Awarded Grants
       More Info

       Bibliographic 
       Publications
      Publications listed below are automatically derived from MEDLINE/PubMed and other sources, which might result in incorrect or missing publications. Researchers can login to make corrections and additions, or contact us for help.
      List All   |   Timeline
      1. Liu J, Segal MR, Kelly MJ, Pelton JG, Kim M, James TL, Litt L. 13C NMR Metabolomic Evaluation of Immediate and Delayed Mild Hypothermia in Cerebrocortical Slices after Oxygen-Glucose Deprivation. Anesthesiology. 2013 Nov; 119(5):1120-36.
        View in: PubMed
      2. Liu J, Sheldon RA, Segal MR, Kelly MJ, Pelton JG, Ferriero DM, James TL, Litt L. 1H nuclear magnetic resonance brain metabolomics in neonatal mice after hypoxia-ischemia distinguished normothermic recovery from mild hypothermia recoveries. Pediatr Res. 2013 Aug; 74(2):170-9.
        View in: PubMed
      3. Mohrig JR, Beyer BG, Fleischhacker AS, Ruthenburg AJ, John SG, Snyder DA, Nyffeler PT, Noll RJ, Penner ND, Phillips LA, Hurley HL, Jacobs JS, Treitel C, James TL, Montgomery MP. Does activation of the anti proton, rather than concertedness, determine the stereochemistry of base-catalyzed 1,2-elimination reactions? Anti stereospecificity in E1cB eliminations of ß-3-trifluoromethylphenoxy esters, thioesters, and ketones. J Org Chem. 2012 Mar 16; 77(6):2819-28.
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      4. Saraceno M, Massarelli I, Imbriani M, James TL, Bianucci AM. Optimizing QSAR models for predicting ligand binding to the drug-metabolizing cytochrome P450 isoenzyme CYP2D6. Chem Biol Drug Des. 2011 Aug; 78(2):236-51.
        View in: PubMed
      5. Liu J, Litt L, Segal MR, Kelly MJ, Yoshihara HA, James TL. Outcome-related metabolomic patterns from 1H/31P NMR after mild hypothermia treatments of oxygen-glucose deprivation in a neonatal brain slice model of asphyxia. J Cereb Blood Flow Metab. 2011 Feb; 31(2):547-59.
        View in: PubMed
      6. Chung J, Ulyanov NB, Guilbert C, Mujeeb A, James TL. Binding characteristics of small molecules that mimic nucleocapsid protein-induced maturation of stem-loop 1 of HIV-1 RNA. Biochemistry. 2010 Aug 3; 49(30):6341-51.
        View in: PubMed
      7. Lang PT, Brozell SR, Mukherjee S, Pettersen EF, Meng EC, Thomas V, Rizzo RC, Case DA, James TL, Kuntz ID. DOCK 6: combining techniques to model RNA-small molecule complexes. RNA. 2009 Jun; 15(6):1219-30.
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      8. Pinto IG, Guilbert C, Ulyanov NB, Stearns J, James TL. Discovery of ligands for a novel target, the human telomerase RNA, based on flexible-target virtual screening and NMR. J Med Chem. 2008 Nov 27; 51(22):7205-15.
        View in: PubMed
      9. Liu J, Segal M, Yoo S, Yang GY, Kelly M, James TL, Litt L. Antioxidant effect of ethyl pyruvate in respiring neonatal cerebrocortical slices after H(2)O(2) stress. Neurochem Int. 2009 Feb; 54(2):106-10.
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      10. Pellecchia M, Bertini I, Cowburn D, Dalvit C, Giralt E, Jahnke W, James TL, Homans SW, Kessler H, Luchinat C, Meyer B, Oschkinat H, Peng J, Schwalbe H, Siegal G. Perspectives on NMR in drug discovery: a technique comes of age. Nat Rev Drug Discov. 2008 Sep; 7(9):738-45.
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      11. Du Z, Fenn S, Tjhen R, James TL. Structure of a construct of a human poly(C)-binding protein containing the first and second KH domains reveals insights into its regulatory mechanisms. J Biol Chem. 2008 Oct 17; 283(42):28757-66.
        View in: PubMed
      12. Chung J, Mujeeb A, Jiang Y, Guilbert C, Pendke M, Wu Y, James TL. A small molecule, Lys-Ala-7-amido-4-methylcoumarin, facilitates RNA dimer maturation of a stem-loop 1 transcript in vitro: structure-activity relationship of the activator. Biochemistry. 2008 Aug 5; 47(31):8148-56.
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      13. Guilbert C, James TL. Docking to RNA via root-mean-square-deviation-driven energy minimization with flexible ligands and flexible targets. J Chem Inf Model. 2008 Jun; 48(6):1257-68.
        View in: PubMed
      14. Du Z, Lee JK, Tjhen R, Stroud RM, James TL. Structural and biochemical insights into the dicing mechanism of mouse Dicer: a conserved lysine is critical for dsRNA cleavage. Proc Natl Acad Sci U S A. 2008 Feb 19; 105(7):2391-6.
        View in: PubMed
      15. Zeng J, Liu J, Yang GY, Kelly MJ, James TL, Litt L. Exogenous ethyl pyruvate versus pyruvate during metabolic recovery after oxidative stress in neonatal rat cerebrocortical slices. Anesthesiology. 2007 Oct; 107(4):630-40.
        View in: PubMed
      16. Ulyanov NB, Shefer K, James TL, Tzfati Y. Pseudoknot structures with conserved base triples in telomerase RNAs of ciliates. Nucleic Acids Res. 2007; 35(18):6150-60.
        View in: PubMed
      17. Du Z, Lee JK, Fenn S, Tjhen R, Stroud RM, James TL. X-ray crystallographic and NMR studies of protein-protein and protein-nucleic acid interactions involving the KH domains from human poly(C)-binding protein-2. RNA. 2007 Jul; 13(7):1043-51.
        View in: PubMed
      18. Du Z, Fenn S, James TL. Resonance assignment of the first and second KH (hnRNP-K homology) domains of human poly(C)-binding protein-2 (PCBP2). J Biomol NMR. 2007 Jun; 38(2):197.
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      19. Fenn S, Du Z, Lee JK, Tjhen R, Stroud RM, James TL. Crystal structure of the third KH domain of human poly(C)-binding protein-2 in complex with a C-rich strand of human telomeric DNA at 1.6 A resolution. Nucleic Acids Res. 2007; 35(8):2651-60.
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      20. Mujeeb A, Ulyanov NB, Georgantis S, Smirnov I, Chung J, Parslow TG, James TL. Nucleocapsid protein-mediated maturation of dimer initiation complex of full-length SL1 stemloop of HIV-1: sequence effects and mechanism of RNA refolding. Nucleic Acids Res. 2007; 35(6):2026-34.
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      21. Mayer M, Lang PT, Gerber S, Madrid PB, Pinto IG, Guy RK, James TL. Synthesis and testing of a focused phenothiazine library for binding to HIV-1 TAR RNA. Chem Biol. 2006 Sep; 13(9):993-1000.
        View in: PubMed
      22. Zeng J, Yang GY, Ying W, Kelly M, Hirai K, James TL, Swanson RA, Litt L. Pyruvate improves recovery after PARP-1-associated energy failure induced by oxidative stress in neonatal rat cerebrocortical slices. J Cereb Blood Flow Metab. 2007 Feb; 27(2):304-15.
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      23. Ulyanov NB, Mujeeb A, Du Z, Tonelli M, Parslow TG, James TL. NMR structure of the full-length linear dimer of stem-loop-1 RNA in the HIV-1 dimer initiation site. J Biol Chem. 2006 Jun 9; 281(23):16168-77.
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      24. Du Z, Lee JK, Tjhen R, Li S, Pan H, Stroud RM, James TL. Crystal structure of the first KH domain of human poly(C)-binding protein-2 in complex with a C-rich strand of human telomeric DNA at 1.7 A. J Biol Chem. 2005 Nov 18; 280(46):38823-30.
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      25. Mayer M, James TL. Discovery of ligands by a combination of computational and NMR-based screening: RNA as an example target. Methods Enzymol. 2005; 394:571-87.
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      26. Lapidot A, Vijayabaskar V, Litovchick A, Yu J, James TL. Structure-activity relationships of aminoglycoside-arginine conjugates that bind HIV-1 RNAs as determined by fluorescence and NMR spectroscopy. FEBS Lett. 2004 Nov 19; 577(3):415-21.
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      27. Du Z, Yu J, Ulyanov NB, Andino R, James TL. Solution structure of a consensus stem-loop D RNA domain that plays important roles in regulating translation and replication in enteroviruses and rhinoviruses. Biochemistry. 2004 Sep 28; 43(38):11959-72.
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      28. Du Z, Yu J, Chen Y, Andino R, James TL. Specific recognition of the C-rich strand of human telomeric DNA and the RNA template of human telomerase by the first KH domain of human poly(C)-binding protein-2. J Biol Chem. 2004 Nov 12; 279(46):48126-34.
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      29. Zeng J, Hirai K, Yang GY, Ying W, Swanson RA, Kelly M, Mayer M, James TL, Litt L. Using 31P NMR spectroscopy at 14.1 Tesla to investigate PARP-1 associated energy failure and metabolic rescue in cerebrocortical slices. J Bioenerg Biomembr. 2004 Aug; 36(4):415-9.
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      30. Du Z, Ulyanov NB, Yu J, Andino R, James TL. NMR structures of loop B RNAs from the stem-loop IV domain of the enterovirus internal ribosome entry site: a single C to U substitution drastically changes the shape and flexibility of RNA. Biochemistry. 2004 May 18; 43(19):5757-71.
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      31. Hirai K, Hayashi T, Chan PH, Zeng J, Yang GY, Basus VJ, James TL, Litt L. PI3K inhibition in neonatal rat brain slices during and after hypoxia reduces phospho-Akt and increases cytosolic cytochrome c and apoptosis. Brain Res Mol Brain Res. 2004 Apr 29; 124(1):51-61.
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      32. Kuwata K, Kamatari YO, Akasaka K, James TL. Slow conformational dynamics in the hamster prion protein. Biochemistry. 2004 Apr 20; 43(15):4439-46.
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      33. Mayer M, James TL. NMR-based characterization of phenothiazines as a RNA binding scaffold. J Am Chem Soc. 2004 Apr 7; 126(13):4453-60.
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      34. Kuwata K, Matumoto T, Cheng H, Nagayama K, James TL, Roder H. NMR-detected hydrogen exchange and molecular dynamics simulations provide structural insight into fibril formation of prion protein fragment 106-126. Proc Natl Acad Sci U S A. 2003 Dec 9; 100(25):14790-5.
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      35. Tonelli M, Ulyanov NB, Billeci TM, Karwowski B, Guga P, Stec WJ, James TL. Dynamic NMR structures of [Rp]- and [Sp]-phosphorothioated DNA-RNA hybrids: is flexibility required for RNase H recognition? Biophys J. 2003 Oct; 85(4):2525-38.
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      36. Du Z, Yu J, Andino R, James TL. Extending the family of UNCG-like tetraloop motifs: NMR structure of a CACG tetraloop from coxsackievirus B3. Biochemistry. 2003 Apr 22; 42(15):4373-83.
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      37. Litt L, Hirai K, Basus VJ, James TL. Temperature control of respiring rat brain slices during high field NMR spectroscopy. Brain Res Brain Res Protoc. 2003 Feb; 10(3):191-8.
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      38. Hirai K, Hayashi T, Chan PH, Basus VJ, James TL, Litt L. Akt phosphorylation and cell survival after hypoxia-induced cytochrome c release in superfused respiring neonatal rat cerebrocortical slices. Acta Neurochir Suppl. 2003; 86:227-30.
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      39. Litt L, Hirai K, Basus VJ, James TL. NTP and PCr responses to hypoxia by hypothermic and normothermic respiring, superfused, neonatal rat cerebrocortical slices: an NMR spectroscopy study at 14.1 Tesla. Acta Neurochir Suppl. 2003; 86:71-4.
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      40. Comolli LR, Smirnov I, Xu L, Blackburn EH, James TL. A molecular switch underlies a human telomerase disease. Proc Natl Acad Sci U S A. 2002 Dec 24; 99(26):16998-7003.
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      41. Mayer M, James TL. Detecting ligand binding to a small RNA target via saturation transfer difference NMR experiments in D(2)O and H(2)O. J Am Chem Soc. 2002 Nov 13; 124(45):13376-7.
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      42. Kuwata K, Li H, Yamada H, Legname G, Prusiner SB, Akasaka K, James TL. Locally disordered conformer of the hamster prion protein: a crucial intermediate to PrPSc? Biochemistry. 2002 Oct 15; 41(41):12277-83.
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      43. Comolli LR, Ulyanov NB, Soto AM, Marky LA, James TL, Gmeiner WH. NMR structure of the 3' stem-loop from human U4 snRNA. Nucleic Acids Res. 2002 Oct 15; 30(20):4371-9.
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      44. Hirai K, Sugawara T, Chan PH, Basus VJ, James TL, Litt L. Cytochrome c associated apoptosis during ATP recovery after hypoxia in neonatal rat cerebrocortical slices. J Neurochem. 2002 Oct; 83(2):309-19.
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      45. Macdonald JM, Schmidlin O, James TL. In vivo monitoring of hepatic glutathione in anesthetized rats by 13C NMR. Magn Reson Med. 2002 Sep; 48(3):430-9.
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      46. Du Z, Lind KE, James TL. Structure of TAR RNA complexed with a Tat-TAR interaction nanomolar inhibitor that was identified by computational screening. Chem Biol. 2002 Jun; 9(6):707-12.
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      47. Ulyanov NB, Bauer WR, James TL. High-resolution NMR structure of an AT-rich DNA sequence. J Biomol NMR. 2002 Mar; 22(3):265-80.
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      48. Lind KE, Du Z, Fujinaga K, Peterlin BM, James TL. Structure-based computational database screening, in vitro assay, and NMR assessment of compounds that target TAR RNA. Chem Biol. 2002 Feb; 9(2):185-93.
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      49. Konerding D, James TL, Trump E, Soto AM, Marky LA, Gmeiner WH. NMR structure of a gemcitabine-substituted model Okazaki fragment. Biochemistry. 2002 Jan 22; 41(3):839-46.
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      50. Tonelli M, Peters RJ, James TL, Agard DA. The solution structure of the viral binding domain of Tva, the cellular receptor for subgroup A avian leukosis and sarcoma virus. FEBS Lett. 2001 Dec 7; 509(2):161-8.
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      51. Kojima C, Ulyanov NB, Kainosho M, James TL. Slow motion in the CAA*TTG sequence of a DNA decamer duplex studied by NMR. Biochemistry. 2001 Jun 19; 40(24):7239-46.
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      52. Song M, Shao H, Mujeeb A, James TL, Miller WL. Molten-globule structure and membrane binding of the N-terminal protease-resistant domain (63-193) of the steroidogenic acute regulatory protein (StAR). Biochem J. 2001 May 15; 356(Pt 1):151-8.
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      53. James TL. NMR determination of oligonucleotide structure. Curr Protoc Nucleic Acid Chem. 2001 May; Chapter 7:Unit 7.2.
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      54. Filikov AV, Mohan V, Vickers TA, Griffey RH, Cook PD, Abagyan RA, James TL. Identification of ligands for RNA targets via structure-based virtual screening: HIV-1 TAR. J Comput Aided Mol Des. 2000 Aug; 14(6):593-610.
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      55. Serkova N, Litt L, Leibfritz D, Hausen B, Morris RE, James TL, Benet LZ, Christians U. The novel immunosuppressant SDZ-RAD protects rat brain slices from cyclosporine-induced reduction of high-energy phosphates. Br J Pharmacol. 2000 Feb; 129(3):485-92.
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      56. Görler A, Ulyanov NB, James TL. Determination of the populations and structures of multiple conformers in an ensemble from NMR data: multiple-copy refinement of nucleic acid structures using floating weights. J Biomol NMR. 2000 Feb; 16(2):147-64.
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      57. James TL, Lind KE, Filikov AV, Mujeeb A. Three-dimensional RNA structure-based drug discovery. J Biomol Struct Dyn. 2000; 17 Suppl 1:201-5.
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      58. Schmitz U, Behrens S, Freymann DM, Keenan RJ, Lukavsky P, Walter P, James TL. Structure of the phylogenetically most conserved domain of SRP RNA. RNA. 1999 Nov; 5(11):1419-29.
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      59. Mujeeb A, Parslow TG, Zarrinpar A, Das C, James TL. NMR structure of the mature dimer initiation complex of HIV-1 genomic RNA. FEBS Lett. 1999 Sep 24; 458(3):387-92.
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      60. Schmitz U, James TL, Lukavsky P, Walter P. Structure of the most conserved internal loop in SRP RNA. Nat Struct Biol. 1999 Jul; 6(7):634-8.
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      61. Serkova N, Litt L, James TL, Sadée W, Leibfritz D, Benet LZ, Christians U. Evaluation of individual and combined neurotoxicity of the immunosuppressants cyclosporine and sirolimus by in vitro multinuclear NMR spectroscopy. J Pharmacol Exp Ther. 1999 May; 289(2):800-6.
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      62. Litt L, Espanol MT, Hasegawa K, Chang LH, Gregory GA, James TL, Beal MF, Chan PH. NOS inhibitors decrease hypoxia-induced ATP reductions in respiring cerebrocortical slices. Anesthesiology. 1999 May; 90(5):1392-401.
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      63. Liu H, Farr-Jones S, Ulyanov NB, Llinas M, Marqusee S, Groth D, Cohen FE, Prusiner SB, James TL. Solution structure of Syrian hamster prion protein rPrP(90-231). Biochemistry. 1999 Apr 27; 38(17):5362-77.
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      64. Kojima C, Ono A, Kainosho M, James TL. Quantitative measurement of transverse and longitudinal cross-correlation between 13C-1H dipolar interaction and 13C chemical shift anisotropy: application to a 13C-labeled DNA duplex. J Magn Reson. 1999 Feb; 136(2):169-75.
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      65. Konerding DE, Cheatham TE, Kollman PA, James TL. Restrained molecular dynamics of solvated duplex DNA using the particle mesh Ewald method. J Biomol NMR. 1999 Feb; 13(2):119-31.
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      66. Furrer P, Billeci TM, Donati A, Kojima C, Karwowski B, Sierzchala A, Stec W, James TL. Structural effect of complete [Rp]-phosphorothioate and phosphorodithioate substitutions in the DNA strand of a model antisense inhibitor-target RNA complex. J Mol Biol. 1999 Jan 29; 285(4):1609-22.
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      67. Gmeiner WH, Konerding D, James TL. Effect of cytarabine on the NMR structure of a model okazaki fragment from the SV40 genome. Biochemistry. 1999 Jan 26; 38(4):1166-75.
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      68. Kojima C, Ono A, Kainosho M, James TL. DNA duplex dynamics: NMR relaxation studies of a decamer with uniformly 13C-labeled purine nucleotides. J Magn Reson. 1998 Dec; 135(2):310-33.
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      69. Schmitz U, Donati A, James TL, Ulyanov NB, Yao L. Small structural ensembles for a 17-nucleotide mimic of the tRNA T psi C-loop via fitting dipolar relaxation rates with the quadratic programming algorithm. Biopolymers. 1998 Oct 15; 46(5):329-42.
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      70. Ulyanov NB, Ivanov VI, Minyat EE, Khomyakova EB, Petrova MV, Lesiak K, James TL. A pseudosquare knot structure of DNA in solution. Biochemistry. 1998 Sep 15; 37(37):12715-26.
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      71. Tonelli M, Ragg E, Bianucci AM, Lesiak K, James TL. Nuclear magnetic resonance structure of d(GCATATGATAG). d(CTATCATATGC): a consensus sequence for promoters recognized by sigma K RNA polymerase. Biochemistry. 1998 Aug 25; 37(34):11745-61.
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      72. Tonelli M, James TL. Insights into the dynamic nature of DNA duplex structure via analysis of nuclear Overhauser effect intensities. Biochemistry. 1998 Aug 18; 37(33):11478-87.
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      73. Baldwin MA, James TL, Cohen FE, Prusiner SB. The three-dimensional structure of prion protein: implications for prion disease. Biochem Soc Trans. 1998 Aug; 26(3):481-6.
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      74. Mujeeb A, Clever JL, Billeci TM, James TL, Parslow TG. Structure of the dimer initiation complex of HIV-1 genomic RNA. Nat Struct Biol. 1998 Jun; 5(6):432-6.
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      75. Filikov AV, James TL. Structure-based design of ligands for protein basic domains: application to the HIV-1 Tat protein. J Comput Aided Mol Des. 1998 May; 12(3):229-40.
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      76. Macdonald JM, Grillo M, Schmidlin O, Tajiri DT, James TL. NMR spectroscopy and MRI investigation of a potential bioartificial liver. NMR Biomed. 1998 Apr; 11(2):55-66.
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      77. Espanol MT, Litt L, Hasegawa K, Chang LH, Macdonald JM, Gregory G, James TL, Chan PH. Fructose-1,6-bisphosphate preserves adenosine triphosphate but not intracellular pH during hypoxia in respiring neonatal rat brain slices. Anesthesiology. 1998 Feb; 88(2):461-72.
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      78. Donne DG, Viles JH, Groth D, Mehlhorn I, James TL, Cohen FE, Prusiner SB, Wright PE, Dyson HJ. Structure of the recombinant full-length hamster prion protein PrP(29-231): the N terminus is highly flexible. Proc Natl Acad Sci U S A. 1997 Dec 9; 94(25):13452-7.
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      79. Peretz D, Williamson RA, Matsunaga Y, Serban H, Pinilla C, Bastidas RB, Rozenshteyn R, James TL, Houghten RA, Cohen FE, Prusiner SB, Burton DR. A conformational transition at the N terminus of the prion protein features in formation of the scrapie isoform. J Mol Biol. 1997 Oct 31; 273(3):614-22.
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      80. Kaneko K, Zulianello L, Scott M, Cooper CM, Wallace AC, James TL, Cohen FE, Prusiner SB. Evidence for protein X binding to a discontinuous epitope on the cellular prion protein during scrapie prion propagation. Proc Natl Acad Sci U S A. 1997 Sep 16; 94(19):10069-74.
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      81. James TL, Liu H, Ulyanov NB, Farr-Jones S, Zhang H, Donne DG, Kaneko K, Groth D, Mehlhorn I, Prusiner SB, Cohen FE. Solution structure of a 142-residue recombinant prion protein corresponding to the infectious fragment of the scrapie isoform. Proc Natl Acad Sci U S A. 1997 Sep 16; 94(19):10086-91.
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      82. Kuwata K, Liu H, Schleich T, James TL. Rotational correlation times of internuclear vectors in a DNA duplex with G-A mismatch determined in aqueous solution by complete relaxation matrix analysis of off-resonance ROESY (O-ROESY) spectra. J Magn Reson. 1997 Sep; 128(1):70-81.
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      83. Sorensen MD, Bjorn S, Norris K, Olsen O, Petersen L, James TL, Led JJ. Solution structure and backbone dynamics of the human alpha3-chain type VI collagen C-terminal Kunitz domain,. Biochemistry. 1997 Aug 26; 36(34):10439-50.
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      84. Yao LJ, James TL, Kealey JT, Santi DV, Schmitz U. The dynamic NMR structure of the T psi C-loop: implications for the specificity of tRNA methylation. J Biomol NMR. 1997 Apr; 9(3):229-44.
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      85. Zhang H, Stockel J, Mehlhorn I, Groth D, Baldwin MA, Prusiner SB, James TL, Cohen FE. Physical studies of conformational plasticity in a recombinant prion protein. Biochemistry. 1997 Mar 25; 36(12):3543-53.
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      86. Mujeeb A, Reynolds MA, James TL. High-resolution NMR of an antisense DNA x RNA hybrid containing alternating chirally pure Rp methylphosphonates in the DNA backbone. Biochemistry. 1997 Mar 4; 36(9):2371-9.
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      87. Schmitz U, Freymann DM, James TL, Keenan RJ, Vinayak R, Walter P. NMR studies of the most conserved RNA domain of the mammalian signal recognition particle (SRP). RNA. 1996 Dec; 2(12):1213-27.
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      88. Liu H, Tonelli M, James TL. Correcting NOESY cross-peak intensities for partial relaxation effects enabling accurate distance information. J Magn Reson B. 1996 Apr; 111(1):85-9.
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      89. Mujeeb A, Parslow TG, Yuan YC, James TL. Aqueous solution structure of a hybrid lentiviral Tat peptide and a model of its interaction with HIV-1 TAR RNA. J Biomol Struct Dyn. 1996 Feb; 13(4):649-60.
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      90. Espanol MT, Litt L, Chang LH, James TL, Weinstein PR, Chan PH. Adult rat brain-slice preparation for nuclear magnetic resonance spectroscopy studies of hypoxia. Anesthesiology. 1996 Jan; 84(1):201-10.
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      91. Liu H, Spielmann HP, Ulyanov NB, Wemmer DE, James TL. Interproton distance bounds from 2D NOE intensities: effect of experimental noise and peak integration errors. J Biomol NMR. 1995 Dec; 6(4):390-402.
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      92. Zhang H, Kaneko K, Nguyen JT, Livshits TL, Baldwin MA, Cohen FE, James TL, Prusiner SB. Conformational transitions in peptides containing two putative alpha-helices of the prion protein. J Mol Biol. 1995 Jul 21; 250(4):514-26.
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      93. González C, Stec W, Reynolds MA, James TL. Structure and dynamics of a DNA.RNA hybrid duplex with a chiral phosphorothioate moiety: NMR and molecular dynamics with conventional and time-averaged restraints. Biochemistry. 1995 Apr 18; 34(15):4969-82.
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      94. Liu H, Banville DL, Basus VJ, James TL. Deriving accurate interproton distances from ROESY spectra with limited knowledge of scalar coupling constants via the CARNIVAL algorithm. An iterative complete-relaxation-matrix approach. J Magn Reson B. 1995 Apr; 107(1):51-9.
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      95. Schmitz U, James TL. How to generate accurate solution structures of double-helical nucleic acid fragments using nuclear magnetic resonance and restrained molecular dynamics. Methods Enzymol. 1995; 261:3-44.
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      96. Ulyanov NB, James TL. Statistical analysis of DNA duplex structural features. Methods Enzymol. 1995; 261:90-120.
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      97. Ulyanov NB, Schmitz U, Kumar A, James TL. Probability assessment of conformational ensembles: sugar repuckering in a DNA duplex in solution. Biophys J. 1995 Jan; 68(1):13-24.
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      98. Ulyanov NB, Bishop KD, Ivanov VI, James TL. Tertiary base pair interactions in slipped loop-DNA: an NMR and model building study. Nucleic Acids Res. 1994 Oct 11; 22(20):4242-9.
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      99. González C, Stec W, Kobylanska A, Hogrefe RI, Reynolds M, James TL. Structural study of a DNA.RNA hybrid duplex with a chiral phosphorothioate moiety by NMR: extraction of distance and torsion angle constraints and imino proton exchange rates. Biochemistry. 1994 Sep 20; 33(37):11062-72.
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      100. Mujeeb A, Bishop K, Peterlin BM, Turck C, Parslow TG, James TL. NMR structure of a biologically active peptide containing the RNA-binding domain of human immunodeficiency virus type 1 Tat. Proc Natl Acad Sci U S A. 1994 Aug 16; 91(17):8248-52.
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      101. Espanol MT, Litt L, Xu Y, Chang LH, James TL, Weinstein PR, Chan PH. 19F NMR calcium changes, edema and histology in neonatal rat brain slices during glutamate toxicity. Brain Res. 1994 May 30; 647(1):172-6.
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      102. Espanol MT, Xu Y, Litt L, Yang GY, Chang LH, James TL, Weinstein P, Chan PH. Modulation of glutamate-induced intracellular energy failure in neonatal cerebral cortical slices by kynurenic acid, dizocilpine, and NBQX. J Cereb Blood Flow Metab. 1994 Mar; 14(2):269-78.
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      103. Kurhanewicz J, Char DH, Stauffer P, Quivey JM, James TL. 31P magnetic resonance spectroscopy after combined hyperthermia and radiation. Curr Eye Res. 1994 Feb; 13(2):151-6.
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      104. Bishop KD, Blocker FJ, Egan W, James TL. Hepatitis B virus direct repeat sequence: imino proton exchange rates and distance and torsion angle restraints from NMR. Biochemistry. 1994 Jan 18; 33(2):427-38.
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      105. Weisz K, Shafer RH, Egan W, James TL. Solution structure of the octamer motif in immunoglobulin genes via restrained molecular dynamics calculations. Biochemistry. 1994 Jan 11; 33(1):354-66.
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      106. Espanol MT, Xu Y, Litt L, Chang LH, James TL, Weinstein PR, Chan PH. Modulation of edema by dizocilpine, kynurenate, and NBQX in respiring brain slices after exposure to glutamate. Acta Neurochir Suppl (Wien). 1994; 60:58-61.
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      107. James TL. Assessment of quality of derived macromolecular structures. Methods Enzymol. 1994; 239:416-39.
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      108. Imaizumi S, Chang L, Cohen Y, Chan PH, Weinstein PR, Yoshimoto T, James TL. Reduction of superoxide dismutase activity correlates with visualization of edema by T2-weighted MR imaging in focal ischemic rat brain. Neurol Med Chir (Tokyo). 1994 Jan; 34(1):1-9.
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      109. Mujeeb A, Kerwin SM, Kenyon GL, James TL. Solution structure of a conserved DNA sequence from the HIV-1 genome: restrained molecular dynamics simulation with distance and torsion angle restraints derived from two-dimensional NMR spectra. Biochemistry. 1993 Dec 14; 32(49):13419-31.
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      110. Schmitz U, Ulyanov NB, Kumar A, James TL. Molecular dynamics with weighted time-averaged restraints for a DNA octamer. Dynamic interpretation of nuclear magnetic resonance data. J Mol Biol. 1993 Nov 20; 234(2):373-89.
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      111. Ulyanov NB, Schmitz U, James TL. Metropolis Monte Carlo calculations of DNA structure using internal coordinates and NMR distance restraints: an alternative method for generating a high-resolution solution structure. J Biomol NMR. 1993 Sep; 3(5):547-68.
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      112. Litt L, Xu Y, Cohen Y, James TL. Nonmagnetic hyperbaric chamber for in vivo NMR spectroscopy studies of small animals. Magn Reson Med. 1993 Jun; 29(6):812-6.
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      113. Shimizu H, Graham SH, Chang LH, Mintorovitch J, James TL, Faden AI, Weinstein PR. Relationship between extracellular neurotransmitter amino acids and energy metabolism during cerebral ischemia in rats monitored by microdialysis and in vivo magnetic resonance spectroscopy. Brain Res. 1993 Mar 5; 605(1):33-42.
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      114. Bretan PN, Vigneron DB, Hricak H, Price DC, Yen TS, Luo JA, Tanagho EA, James TL. Assessment of in situ renal transplant viability by 31P-MRS: experimental study in canines. Am Surg. 1993 Mar; 59(3):182-7.
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      115. Macdonald JM, Kurhanewicz J, Dahiya R, Espanol MT, Chang LH, Goldberg B, James TL, Narayan P. Effect of glucose and confluency on phosphorus metabolites of perfused human prostatic adenocarcinoma cells as determined by 31P MRS. Magn Reson Med. 1993 Feb; 29(2):244-8.
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      116. Kurhanewicz J, Dahiya R, Macdonald JM, Chang LH, James TL, Narayan P. Citrate alterations in primary and metastatic human prostatic adenocarcinomas: 1H magnetic resonance spectroscopy and biochemical study. Magn Reson Med. 1993 Feb; 29(2):149-57.
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      117. Espanol MT, Litt L, Yang GY, Chang LH, Chan PH, James TL, Weinstein PR. Tolerance of low intracellular pH during hypercapnia by rat cortical brain slices: A 31P/1H NMR study. J Neurochem. 1992 Nov; 59(5):1820-8.
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      118. Chang LH, Shimizu H, Abiko H, Swanson RA, Faden AI, James TL, Weinstein PR. Effect of dichloroacetate on recovery of brain lactate, phosphorus energy metabolites, and glutamate during reperfusion after complete cerebral ischemia in rats. J Cereb Blood Flow Metab. 1992 Nov; 12(6):1030-8.
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      119. Mills PA, Rashid A, James TL. Monte Carlo calculations of ion distributions surrounding the oligonucleotide d(ATATATATAT)2 in the B, A, and wrinkled D conformations. Biopolymers. 1992 Nov; 32(11):1491-501.
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      120. Mujeeb A, Kerwin SM, Egan W, Kenyon GL, James TL. A potential gene target in HIV-1: rationale, selection of a conserved sequence, and determination of NMR distance and torsion angle constraints. Biochemistry. 1992 Oct 6; 31(39):9325-38.
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      121. Schmitz U, Sethson I, Egan WM, James TL. Solution structure of a DNA octamer containing the Pribnow box via restrained molecular dynamics simulation with distance and torsion angle constraints derived from two-dimensional nuclear magnetic resonance spectral fitting. J Mol Biol. 1992 Sep 20; 227(2):510-31.
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      122. Weisz K, Shafer RH, Egan W, James TL. The octamer motif in immunoglobulin genes: extraction of structural constraints from two-dimensional NMR studies. Biochemistry. 1992 Aug 25; 31(33):7477-87.
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      123. Stolarski R, Egan W, James TL. Solution structure of the EcoRI DNA octamer containing 5-fluorouracil via restrained molecular dynamics using distance and torsion angle constraints extracted from NMR spectral simulations. Biochemistry. 1992 Aug 11; 31(31):7027-42.
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      124. Kurhanewicz J, Dahiya R, Macdonald JM, Jajodia P, Chang LH, James TL, Narayan P. Phosphorus metabolite characterization of human prostatic adenocarcinoma in a nude mouse model by 31P magnetic resonance spectroscopy and high pressure liquid chromatography. NMR Biomed. 1992 Jul-Aug; 5(4):185-92.
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      125. Wendland MF, Iyer SB, Fu KK, Lam KN, James TL. Correlations between in vivo 31P MRS measurements, tumor size, cell survival, and hypoxic fraction in the murine EMT6 tumor. Magn Reson Med. 1992 Jun; 25(2):217-32.
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      126. Widmer H, Abiko H, Faden AI, James TL, Weinstein PR. Effects of hyperglycemia on the time course of changes in energy metabolism and pH during global cerebral ischemia and reperfusion in rats: correlation of 1H and 31P NMR spectroscopy with fatty acid and excitatory amino acid levels. J Cereb Blood Flow Metab. 1992 May; 12(3):456-68.
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      127. Hu SH, Weisz K, James TL, Shafer RH. H-NMR studies on d(GCTTAAGC)2 and its complex with berenil. Eur J Biochem. 1992 Feb 15; 204(1):31-8.
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      128. Kurhanewicz J, Thomas A, Jajodia P, Weiner MW, James TL, Vigneron DB, Narayan P. 31P spectroscopy of the human prostate gland in vivo using a transrectal probe. Magn Reson Med. 1991 Dec; 22(2):404-13.
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      129. Xu Y, Cohen Y, Litt L, Chang LH, James TL. Tolerance of low cerebral intracellular pH in rats during hyperbaric hypercapnia. Stroke. 1991 Oct; 22(10):1303-8.
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      130. Schmitz U, Pearlman DA, James TL. Solution structure of [d(GTATATAC)]2 via restrained molecular dynamics simulations with nuclear magnetic resonance constraints derived from relaxation matrix analysis of two-dimensional nuclear Overhauser effect experiments. J Mol Biol. 1991 Sep 5; 221(1):271-92.
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      131. Narayan P, Jajodia P, Kurhanewicz J, Thomas A, MacDonald J, Hubesch B, Hedgcock M, Anderson CM, James TL, Tanagho EA, et al. Characterization of prostate cancer, benign prostatic hyperplasia and normal prostates using transrectal 31phosphorus magnetic resonance spectroscopy: a preliminary report. J Urol. 1991 Jul; 146(1):66-74.
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      132. Winguth S, Kurhanewicz J, Wang ML, Quivey JM, James TL, Char DH. 31P magnetic resonance spectroscopy (MRS) of experimental orbital myositis. Invest Ophthalmol Vis Sci. 1991 Jul; 32(8):2417-22.
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      133. Kerwood DJ, Zon G, James TL. Structure determination of [d(ATATATAUAT)]2 via two-dimensional NOE spectroscopy and molecular dynamics calculations. Eur J Biochem. 1991 May 8; 197(3):583-95.
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      134. Thomas PD, Basus VJ, James TL. Protein solution structure determination using distances from two-dimensional nuclear Overhauser effect experiments: effect of approximations on the accuracy of derived structures. Proc Natl Acad Sci U S A. 1991 Feb 15; 88(4):1237-41.
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      135. Chang LH, Cohen Y, Weinstein PR, Chileuitt L, James TL. Interleaved 1H and 31P spectroscopic imaging for studying regional brain injury. Magn Reson Imaging. 1991; 9(2):223-7.
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      136. Cohen Y, Sanada T, Pitts LH, Chang LH, Nishimura MC, Weinstein PR, Litt L, James TL. Surface coil spectroscopic imaging: time and spatial evolution of lactate production following fluid percussion brain injury. Magn Reson Med. 1991 Jan; 17(1):225-36.
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      137. James TL, Basus VJ. Generation of high-resolution protein structures in solution from multidimensional NMR. Annu Rev Phys Chem. 1991; 42:501-42.
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      138. Gochin M, Zon G, James TL. Two-dimensional COSY and two-dimensional NOE spectroscopy of d(AC)4.d(GT)4: extraction of structural constraints. Biochemistry. 1990 Dec 25; 29(51):11161-71.
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      139. Gochin M, James TL. Solution structure studies of d(AC)4.d(GT)4 via restrained molecular dynamics simulations with NMR constraints derived from two-dimensional NOE and double-quantum-filtered COSY experiments. Biochemistry. 1990 Dec 25; 29(51):11172-80.
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      140. Faden AI, Shirane R, Chang LH, James TL, Lemke M, Weinstein PR. Opiate-receptor antagonist improves metabolic recovery and limits neurochemical alterations associated with reperfusion after global brain ischemia in rats. J Pharmacol Exp Ther. 1990 Nov; 255(2):451-8.
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      141. Fu KK, Wendland MF, Iyer SB, Lam KN, Engeseth H, James TL. Correlations between in vivo 31P NMR spectroscopy measurements, tumor size, hypoxic fraction and cell survival after radiotherapy. Int J Radiat Oncol Biol Phys. 1990 Jun; 18(6):1341-50.
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      142. Schmitz U, Zon G, James TL. Deoxyribose conformation in [d(GTATATAC)]2: evaluation of sugar pucker by simulation of double-quantum-filtered COSY cross-peaks. Biochemistry. 1990 Mar 6; 29(9):2357-68.
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      143. Cohen Y, Chang LH, Litt L, Kim F, Severinghaus JW, Weinstein PR, Davis RL, Germano I, James TL. Stability of brain intracellular lactate and 31P-metabolite levels at reduced intracellular pH during prolonged hypercapnia in rats. J Cereb Blood Flow Metab. 1990 Mar; 10(2):277-84.
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      144. James TL, Borgias BA, Bianucci AM, Zhou N. Determination of DNA and protein structures in solution via complete relaxation matrix analysis of 2D NOE spectra. Basic Life Sci. 1990; 56:135-54.
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      145. Chang LH, Shirane R, Weinstein PR, James TL. Cerebral metabolite dynamics during temporary complete ischemia in rats monitored by time-shared 1H and 31P NMR spectroscopy. Magn Reson Med. 1990 Jan; 13(1):6-13.
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      146. Tzika AA, Vigneron DB, Hricak H, Moseley ME, James TL, Kogan BA. P-31 MR spectroscopy in assessing testicular torsion: rat model. Radiology. 1989 Sep; 172(3):753-7.
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      147. Vigneron DB, Hricak H, James TL, Jajodia PB, Nunes L, Narayan P. Androgen sensitivity of rat prostate carcinoma studied by 31P NMR spectroscopy, 1H MR imaging, and 23Na MR imaging. Magn Reson Med. 1989 Aug; 11(2):152-60.
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      148. Narayan P, Vigneron DB, Jajodia P, Anderson CM, Hedgcock MW, Tanagho EA, James TL. Transrectal probe for 1H MRI and 31P MR spectroscopy of the prostate gland. Magn Reson Med. 1989 Aug; 11(2):209-20.
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      149. Zhou N, James TL, Shafer RH. Binding of actinomycin D to [d(ATCGAT)]2: NMR evidence of multiple complexes. Biochemistry. 1989 Jun 13; 28(12):5231-9.
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      150. Watters T, Wikman-Coffelt J, Wu S, James TL, Sievers R, Parmley WW. Effects of perfusion pressure on energy and work of isolated rat hearts. Hypertension. 1989 May; 13(5):480-8.
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      151. Bretan PN, Vigneron DB, McClure RD, Hricak H, Tom RA, Moseley M, Tanagho EA, James TL. Assessment of male infertility: correlation between results of semen analysis and phosphorus-31 magnetic resonance spectroscopy. Urology. 1989 Feb; 33(2):116-9.
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      152. Borgias BA, James TL. Two-dimensional nuclear Overhauser effect: complete relaxation matrix analysis. Methods Enzymol. 1989; 176:169-83.
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      153. Delbarre A, Brown SC, James TL, Shafer RH. Spectrophotometric and NMR analysis of the interaction of fluorinated mono- and bifunctional intercalators with DNA, poly(dA-dT), and poly(dG-dC). Biopolymers. 1988 Dec; 27(12):1953-75.
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      154. Vigneron DB, Tzika AA, Hricak H, Price DC, Bretan P, Aboseif S, Müller S, James TL. Complete and partial ureteral obstruction: evaluation of renal effects with P-31 MR spectroscopy and Tc-DMSA scintigraphy. Radiology. 1988 Sep; 168(3):645-50.
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      155. Zhou N, Manogaran S, Zon G, James TL. Deoxyribose ring conformation of [d(GGTATACC)]2: an analysis of vicinal proton-proton coupling constants from two-dimensional proton nuclear magnetic resonance. Biochemistry. 1988 Aug 9; 27(16):6013-20.
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      156. Wikman-Coffelt J, Wu ST, Watters T, James TL, Parmley WW, Mason DT. Biochemical regulation of developed intraventricular systolic pressure. Am Heart J. 1988 Apr; 115(4):876-91.
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      157. Camacho SA, Parmley WW, James TL, Abe H, Wu ST, Botvinick EH, Watters TA, Schiller N, Sievers R, Wikman-Coffelt J. Substrate regulation of the nucleotide pool during regional ischaemia and reperfusion in an isolated rat heart preparation: a phosphorus-31 magnetic resonance spectroscopy analysis. Cardiovasc Res. 1988 Mar; 22(3):193-203.
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      158. Camacho SA, Wikman-Coffelt J, Wu ST, Watters TA, Botvinick EH, Sievers R, James TL, Jasmin G, Parmley WW. Improvement in myocardial performance without a decrease in high-energy phosphate metabolites after isoproterenol in Syrian cardiomyopathic hamsters. Circulation. 1988 Mar; 77(3):712-9.
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      159. Ishige N, Pitts LH, Berry I, Nishimura MC, James TL. The effects of hypovolemic hypotension on high-energy phosphate metabolism of traumatized brain in rats. J Neurosurg. 1988 Jan; 68(1):129-36.
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      160. Markiewicz W, Wu SS, Sievers R, Parmley WW, Watters TA, James TL, Higgins CB, Wikman-Coffelt J. Beneficial effects of verapamil during metabolic acidosis in isolated perfused rat hearts. Cardiovasc Drugs Ther. 1988 Jan; 1(5):493-502.
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      161. Sessler D, Mills P, Gregory G, Litt L, James T. Effects of bicarbonate on arterial and brain intracellular pH in neonatal rabbits recovering from hypoxic lactic acidosis. J Pediatr. 1987 Dec; 111(6 Pt 1):817-23.
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      162. Zhou N, Bianucci AM, Pattabiraman N, James TL. Solution structure of [d(GGTATACC)]2: wrinkled D structure of the TATA moiety. Biochemistry. 1987 Dec 1; 26(24):7905-13.
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      163. Watters TA, Wendland MF, Parmley WW, James TL, Botvinick EH, Wu ST, Sievers R, Wikman-Coffelt J. Factors influencing myocardial response to metabolic acidosis in isolated rat hearts. Am J Physiol. 1987 Nov; 253(5 Pt 2):H1261-70.
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      164. Richards TL, Keniry MA, Weinstein PR, Pereira BM, Andrews BT, Murphy EJ, James TL. Measurement of lactate accumulation by in vivo proton NMR spectroscopy during global cerebral ischemia in rats. Magn Reson Med. 1987 Oct; 5(4):353-7.
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      165. Markiewicz W, Wu S, Sievers R, Parmley WW, Higgins CB, James TL, Jasmin G, Wikman-Coffelt J. Influence of heart rate on metabolic and hemodynamic parameters in the Syrian hamster cardiomyopathy. Am Heart J. 1987 Aug; 114(2):362-8.
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      166. Mills P, Sessler DI, Moseley M, Chew W, Pereira B, James TL, Litt L. An in vivo 19F nuclear magnetic resonance study of isoflurane elimination from the rabbit brain. Anesthesiology. 1987 Aug; 67(2):169-73.
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      167. Litt L, González-Méndez R, James TL, Sessler DI, Mills P, Chew W, Moseley M, Pereira B, Severinghaus JW, Hamilton WK. An in vivo study of halothane uptake and elimination in the rat brain with fluorine nuclear magnetic resonance spectroscopy. Anesthesiology. 1987 Aug; 67(2):161-8.
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      168. Chang LH, Pereira BM, Weinstein PR, Keniry MA, Murphy-Boesch J, Litt L, James TL. Comparison of lactate concentration determinations in ischemic and hypoxic rat brains by in vivo and in vitro 1H NMR spectroscopy. Magn Reson Med. 1987 Jun; 4(6):575-81.
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      169. Ishige N, Pitts LH, Pogliani L, Hashimoto T, Nishimura MC, Bartkowski HM, James TL. Effect of hypoxia on traumatic brain injury in rats: Part 2. Changes in high energy phosphate metabolism. Neurosurgery. 1987 Jun; 20(6):854-8.
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      170. Bretan PN, Vigneron DB, Hricak H, McClure RD, Yen TS, Moseley M, Tanagho EA, James TL. Assessment of testicular metabolic integrity with P-31 MR spectroscopy. Radiology. 1987 Mar; 162(3):867-71.
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      171. Benz C, Hollander C, Keniry M, James TL, Mitchell M. Lactic dehydrogenase isozymes, 31P magnetic resonance spectroscopy, and in vitro antimitochondrial tumor toxicity with gossypol and rhodamine-123. J Clin Invest. 1987 Feb; 79(2):517-23.
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      172. Bretan PN, Vigneron DB, Hricak H, Collins GM, Price DC, Tanagho EA, James TL. Assessment of clinical renal preservation by phosphorus-31 magnetic resonance spectroscopy. J Urol. 1987 Jan; 137(1):146-50.
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      173. Kass DA, Banville DL, Gooding CA, James TL. 31P magnetic resonance spectroscopy of mesenteric ischemia. Magn Reson Med. 1987 Jan; 4(1):83-7.
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      174. James TL, Chang LH, Chew W, Gonzalez-Mendez R, Litt L, Mills P, Moseley M, Pereira B, Sessler DI, Weinstein PR. In situ brain metabolism. Ann N Y Acad Sci. 1987; 508:64-80.
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      175. Chew WM, Moseley ME, Mills PA, Sessler D, González-Méndez R, James TL, Litt L. Spin-echo fluorine magnetic resonance imaging at 2 T: in vivo spatial distribution of halothane in the rabbit head. Magn Reson Imaging. 1987; 5(1):51-6.
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      176. Berman E, Lis H, James TL. Binding of [1-13C]galactose-enriched hen ovalbumin to Erythrina cristagalli agglutinin as studied by 13C-NMR spectroscopy. Eur J Biochem. 1986 Dec 15; 161(3):589-94.
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      177. Markiewicz W, Wu SS, Parmley WW, Higgins CB, Sievers R, James TL, Wikman-Coffelt J, Jasmin G. Evaluation of the hereditary Syrian hamster cardiomyopathy by 31P nuclear magnetic resonance spectroscopy: improvement after acute verapamil therapy. Circ Res. 1986 Dec; 59(6):597-604.
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      178. Bretan PN, Vigneron DB, Hricak H, Juenemann KP, Williams RD, Tanagho EA, James TL. Assessment of renal preservation by phosphorus-31 magnetic resonance spectroscopy: in vivo normothermic blood perfusion. J Urol. 1986 Dec; 136(6):1356-9.
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      179. LaPlanche LA, James TL, Powell C, Wilson WD, Uznanski B, Stec WJ, Summers MF, Zon G. Phosphorothioate-modified oligodeoxyribonucleotides. III. NMR and UV spectroscopic studies of the Rp-Rp, Sp-Sp, and Rp-Sp duplexes, [d(GGSAATTCC)]2, derived from diastereomeric O-ethyl phosphorothioates. Nucleic Acids Res. 1986 Nov 25; 14(22):9081-93.
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      180. Suzuki E, Pattabiraman N, Zon G, James TL. Solution structure of [d(A-T)5]2 via complete relaxation matrix analysis of two-dimensional nuclear Overhauser effect spectra and molecular mechanics calculations: evidence for a hydration tunnel. Biochemistry. 1986 Nov 4; 25(22):6854-65.
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      181. Litt L, González-Méndez R, Weinstein PR, Severinghaus JW, Hamilton WK, Shuleshko J, Murphy-Boesch J, James TL. An in vivo 31P NMR study of cerebral hypoxic hypoxia in rats. Magn Reson Med. 1986 Aug; 3(4):619-25.
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      182. Litt L, González-Méndez R, Severinghaus JW, Hamilton WK, Rampil IJ, Shuleshko J, Murphy-Boesch J, James TL. Cerebral intracellular ADP concentrations during hypercarbia: an in vivo 31P nuclear magnetic resonance study in rats. J Cereb Blood Flow Metab. 1986 Jun; 6(3):389-92.
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      183. Keniry M, Benz C, Shafer RH, James TL. Noninvasive spectroscopic analysis of fluoropyrimidine metabolism in cultured tumor cells. Cancer Res. 1986 Apr; 46(4 Pt 1):1754-8.
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      184. Bretan PN, Vigneron DB, James TL, Williams RD, Hricak H, Juenemann KP, Yen TS, Tanagho EA. Assessment of renal viability by phosphorus-31 magnetic resonance spectroscopy. J Urol. 1986 Apr; 135(4):866-71.
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      185. Schmidt HC, Gooding CA, James TL. In vivo 31P-MR spectroscopy of the liver in the infant rabbit to study the effect of hypoxia on the phosphorus metabolites and intracellular pH. Invest Radiol. 1986 Feb; 21(2):156-61.
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      186. Koretsky AP, Wang S, Klein MP, James TL, Weiner MW. 31P NMR saturation transfer measurements of phosphorus exchange reactions in rat heart and kidney in situ. Biochemistry. 1986 Jan 14; 25(1):77-84.
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      187. Schmidt HC, Gooding CA, James TL, Gonzalez-Mendez R, James JL. Comparison of in vivo 31P-MR spectra of the brain, liver, and kidney of adult and infant animals. Pediatr Radiol. 1986; 16(2):144-9.
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      188. Litt L, González-Méndez R, Severinghaus JW, Hamilton WK, Shuleshko J, Murphy-Boesch J, James TL. Cerebral intracellular changes during supercarbia: an in vivo 31P nuclear magnetic resonance study in rats. J Cereb Blood Flow Metab. 1985 Dec; 5(4):537-44.
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      189. Chew WM, Moseley ME, Nishimura MC, Hashimoto T, Pitts LH, James TL. A novel double-surface coil approach to phosphorus-31 spectroscopy: a study of hemispheric brain injury in the rat. Magn Reson Med. 1985 Dec; 2(6):567-75.
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      190. Koretsky AP, Basus VJ, James TL, Klein MP, Weiner MW. Detection of exchange reactions involving small metabolite pools using NMR magnetization transfer techniques: relevance to subcellular compartmentation of creatine kinase. Magn Reson Med. 1985 Dec; 2(6):586-94.
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      191. González-Méndez R, McNeill A, Gregory GA, Wall SD, Gooding CA, Litt L, James TL. Effects of hypoxic hypoxia on cerebral phosphate metabolites and pH in the anesthetized infant rabbit. J Cereb Blood Flow Metab. 1985 Dec; 5(4):512-6.
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      192. Berman E, Brown SC, James TL, Shafer RH. NMR studies of chromomycin A3 interaction with DNA. Biochemistry. 1985 Nov 19; 24(24):6887-93.
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      193. Jamin N, James TL, Zon G. Two-dimensional nuclear Overhauser enhancement investigation of the solution structure and dynamics of the DNA octamer [d(GGTATACC)]2. Eur J Biochem. 1985 Oct 1; 152(1):157-66.
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      194. Shine NR, James TL. Interactions of diastereomeric tripeptides of lysyl-5-fluorotryptophyllysine with DNA. 1. Optical and 19F NMR studies of native DNA complexes. Biochemistry. 1985 Jul 30; 24(16):4333-41.
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      195. Shine NR, Bubienko E, James TL. Interactions of diastereomeric tripeptides of lysyl-5-fluorotryptophyllysine with DNA. 2. Optical, 19F NMR, and strand cleavage studies of apurinic DNA complexes. Biochemistry. 1985 Jul 30; 24(16):4341-5.
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      196. Broido MS, James TL, Zon G, Keepers JW. Investigation of the solution structure of a DNA octamer [d(GGAATTCC)]2 using two-dimensional nuclear Overhauser enhancement spectroscopy. Eur J Biochem. 1985 Jul 1; 150(1):117-28.
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      197. Wolff S, James TL, Young GB, Margulis AR, Bodycote J, Afzal V. Magnetic resonance imaging: absence of in vitro cytogenetic damage. Radiology. 1985 Apr; 155(1):163-5.
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      198. James TL. Phosphorus-31 NMR as a probe for phosphoproteins. CRC Crit Rev Biochem. 1985; 18(1):1-30.
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      199. Stark DD, Moseley ME, Bacon BR, Moss AA, Goldberg HI, Bass NM, James TL. Magnetic resonance imaging and spectroscopy of hepatic iron overload. Radiology. 1985 Jan; 154(1):137-42.
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      200. Moseley ME, Chew WM, Nishimura MC, Richards TL, Murphy-Boesch J, Young GB, Marschner TM, Pitts LH, James TL. In vivo sodium-23 magnetic resonance surface coil imaging: observing experimental cerebral ischemia in the rat. Magn Reson Imaging. 1985; 3(4):383-7.
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      201. Keepers JW, Schmidt P, James TL, Kollman PA. Molecular-mechanical studies of the mismatched base analogs of d(CGCGAATTCGCG)2:d(CGTGAATTCGCG)2, d(CGAGAATTCGCG)2, d(CGCGAATTCACG)2, d(CGCGAATTCTCG)2, and d(CGCAGAATTCGCG).d(CGCGAATTCGCG). Biopolymers. 1984 Dec; 23(12):2901-29.
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      202. Keepers J, Kollman PA, James TL. Molecular mechanical studies of base-pair opening in d(CGCGC):d(GCGCG), dG5 . dC5, d(TATAT):d(ATATA), and dA5 . dT5 in the B and Z forms of DNA. Biopolymers. 1984 Nov; 23(11 Pt 2):2499-511.
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      203. Sherry AD, Keepers J, James TL, Teherani J. Methyl motions in 13C-methylated concanavalin as studied by 13C magnetic resonance relaxation techniques. Biochemistry. 1984 Jul 3; 23(14):3181-5.
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      204. Gochin M, James TL, Shafer RH. In vivo 19F-NMR of 5-fluorouracil incorporation into RNA and metabolites in Escherichia coli cells. Biochim Biophys Acta. 1984 May 22; 804(1):118-24.
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      205. Broido MS, Zon G, James TL. Complete assignment of the non-exchangeable proton nmr resonances of [d-(GGAATTCC)]2 using two-dimensional nuclear overhauser effect spectra. Biochem Biophys Res Commun. 1984 Mar 15; 119(2):663-70.
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      206. Moseley ME, Nishimura MC, Pitts LH, Bartkowski HM, James TL. Proton nuclear magnetic resonance spectroscopy of normal and edematous brain tissue in vitro: changes in relaxation during tissue storage. Magn Reson Imaging. 1984; 2(3):205-9.
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      207. Delbarre A, Shafer RH, James TL. 19F-NMR study of DNA bis-intercalation. Biopolymers. 1983 Dec; 22(12):2497-500.
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      208. Koretsky AP, Wang S, Murphy-Boesch J, Klein MP, James TL, Weiner MW. 31P NMR spectroscopy of rat organs, in situ, using chronically implanted radiofrequency coils. Proc Natl Acad Sci U S A. 1983 Dec; 80(24):7491-5.
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      209. Bendel P, Murphy-Boesch J, James TL. Deuterium NMR in the solid-state and in solution of the molecular motion of the bases in poly(I) and poly(I) . poly(C). Biochim Biophys Acta. 1983 Sep 13; 759(3):205-13.
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      210. Bendel P, James TL. Structural and dynamic differences between supercoiled and linear DNA from proton NMR. Proc Natl Acad Sci U S A. 1983 Jun; 80(11):3284-6.
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      211. Bolton PH, Clawson G, Basus VJ, James TL. Comparison of ribonucleic acid-protein interactions in messenger ribonucleoproteins, ribosomes, MS2 virus, and Q beta virus examined via phosphorus-31 nuclear magnetic resonance relaxation. Biochemistry. 1982 Nov 23; 21(24):6073-81.
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      212. Taylor A, Sawan S, James TL. Structural aspects of the inhibitor complex formed by N-(leucyl)-o-aminobenzenesulfonate and manganese with Zn2+-Mn2+ leucine aminopeptidase (EC 3.4.11.1). Studies by NMR. J Biol Chem. 1982 Oct 10; 257(19):11571-6.
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      213. Keepers JW, Kollman PA, Weiner PK, James TL. Molecular mechanical studies of DNA flexibility: coupled backbone torsion angles and base-pair openings. Proc Natl Acad Sci U S A. 1982 Sep; 79(18):5537-41.
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      214. Mirau PA, Shafer RH, James TL, Bolton PH. Fluoroquinacrine binding to nucleic acids: investigation of the 19F-NMR, optical, and fluorescence properties in the presence of DNA, poly(A), and tRNA. Biopolymers. 1982 May; 21(5):909-21.
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      215. Mirau PA, Shafer RH, James TL. Binding of 5-fluorotryptamine to polynucleotides as a model for protein-nucleic acid interactions: fluorine-19 nuclear magnetic resonance, absorption, and fluorescence studies. Biochemistry. 1982 Feb 16; 21(4):615-20.
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      216. Bolton PH, Mirau PA, Shafer RH, James TL. Interaction of the antimalarial drug fluoroquine with DNA, tRNA, and poly(A): 19F-NMR chemical-shift and relaxation, optical absorption, and fluorescence studies. Biopolymers. 1981 Mar; 20(3):435-49.
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      217. James TL, Edmondson DE, Husain M. Glucose oxidase contains a disubstituted phosphorus residue. Phosphorus-31 nuclear magnetic resonance studies of the flavin and nonflavin phosphate residues. Biochemistry. 1981 Feb 3; 20(3):617-21.
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      218. Nuss ME, James TL, Apple MA, Kollman PA. An NMR study of the interaction of daunomycin with dinucleotides and dinucleoside phosphates. Biochim Biophys Acta. 1980 Aug 26; 609(1):136-47.
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      219. Bolton PH, James TL. Conformational mobility of deoxyribonucleic acid, transfer ribonucleic acid, and poly(adenylic acid) as monitored by carbon-13 nuclear magnetic resonance relaxation. Biochemistry. 1980 Apr 1; 19(7):1388-92.
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      220. Davies GK, Tolhurst-Cleaver CL, James TL. CNS depression from intrathecal morphine. Anesthesiology. 1980 Mar; 52(3):280.
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      221. Edmondson DE, James TL. Covalently bound non-coenzyme phosphorus residues in flavoproteins: 31P nuclear magnetic resonance studies of Azotobacter flavodoxin. Proc Natl Acad Sci U S A. 1979 Aug; 76(8):3786-9.
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      222. James TL, Matthews R, Matson GB. Hemoglobin aggregation in oxygenated sickle cells studies by carbon-13 rotating frame spin-lattice relaxation in the presence of an off-resonance radiofrequency field. Biopolymers. 1979 Jul; 18(7):1763-8.
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      223. Fisher RW, James TL. Lateral diffusion of the phospholipid molecule in dipalmitoylphosphatidylcholine bilayers. An investigation using nuclear spin--lattice relaxation in the rotating frame. Biochemistry. 1978 Apr 4; 17(7):1177-83.
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      224. Matthews RM, James TL. Effect of dichloromethane on sickle cells. An in vitro water proton magnetic resonance relaxation study. Biochem Biophys Res Commun. 1978 Feb 28; 80(4):879-85.
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      225. Zipp A, Kuntz ID, James TL. Hemoglobin-water interactions in normal and sickle erythrocytes by proton magnetic resonance T1p measurements. Arch Biochem Biophys. 1977 Jan 30; 178(2):435-41.
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      226. James TL. Binding of adenosine 5'-diphosphate to creatine kinase. An investigation using intermolecular nuclear Overhauser effect measurements. Biochemistry. 1976 Oct 19; 15(21):4724-30.
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      227. James TL, Pogolotti AL, Ivanetich KM, Wataya Y, Lam SS, Santi DV. Thymidylate synthetase: fluorine-19 nmr characterization of the active site peptide covalently bound to 5-fluoro-2'-deoxyuridylate and 5,10-methylenetetrahydrofolate. Biochem Biophys Res Commun. 1976 Sep 20; 72(2):404-10.
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      228. Zipp A, James TL, Kuntz ID, Shohet SB. Water proton magnetic resonance studies of normal and sickle erythrocytes. Temperature and volume dependence. Biochim Biophys Acta. 1976 Apr 23; 428(2):291-303.
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      229. James TL, Cohn M. Structural aspects of manganese-pyruvate kinase substrate and inhibitor complexes deduced from proton magnetic relaxation rates of pyruvate and a phosphoenolpyruvate analog. J Biol Chem. 1974 Jun 10; 249(11):3519-26.
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      230. Ostroy F, James TL, Noggle JH, Sarrif A, Hokin LE. Studies on the characterization of the sodium-potassium transport adenosinetriphosphatase. Nuclear magnetic resonance studies of 23Na binding to the purified and partially purified enzyme. Arch Biochem Biophys. 1974 Jun; 162(2):421-5.
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      231. James TL, Cohn M. The role of the lysyl residue at the active site of creatine kinase. Nuclear Overhauser effect studies. J Biol Chem. 1974 Apr 25; 249(8):2599-604.
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      232. James TL, Ludwig ML, Cohn M. Dependence of the proton magnetic resonance spectra on the oxidation state of flavodoxin from Clostridium MP and from Peptostreptococcus elsdenii. Proc Natl Acad Sci U S A. 1973 Dec; 70(12):3292-5.
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      233. James TL, Reuben J, Cohn M. Nuclear magnetic resonance study of the binding of phosphoenolpyruvate and phosphoenol-alpha-ketobutyrate to manganese pyruvate kinase. Temperature, frequency,and monovalent cation dependence of water proton nuclear magnetic resonance relaxation rates. J Biol Chem. 1973 Sep 25; 248(18):6443-9.
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      234. James TL, Gillen KT. Nuclear magnetic resonance relaxation time and self-diffusion constant of water in hen egg white and yolk. Biochim Biophys Acta. 1972 Nov 24; 286(1):10-5.
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      235. James TL, Noggle JH. 23 Na NMR studies of sodium ion interactions: phosphatidyl serine, phosphoserine, and phosphoethanolamine. Anal Biochem. 1972 Sep; 49(1):208-17.
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      236. Mild KH, James TL, Gillen KT. Nuclear magnetic resonance relaxation time and self-diffusion coefficient measurements of water in frog ovarian eggs (Rana pipiens). J Cell Physiol. 1972 Aug; 80(1):155-8.
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      237. James TL, Noggle JH. 23Na nuclear magnetic resonance relaxation studies of sodium ion interaction with soluble RNA. Proc Natl Acad Sci U S A. 1969 Mar; 62(3):644-9.
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