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    John Lynch, PhD

    TitleSpecialist
    SchoolUCSF School of Medicine
    DepartmentEpidemiology & Biostatistics
    Address185 Berry Street
    San Francisco CA 94143
    Phone415-514-8092

       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.
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      1. Pang J, Driban JB, Destenaves G, Miller E, Lo GH, Ward RJ, Price LL, Lynch JA, Eaton CB, Eckstein F, McAlindon TE. Quantification of bone marrow lesion volume and volume change using semi-automated segmentation: data from the osteoarthritis initiative. BMC Musculoskelet Disord. 2013; 14:3.
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      2. Crema MD, Felson DT, Roemer FW, Niu J, Marra MD, Zhang Y, Lynch JA, El-Khoury GY, Lewis CE, Guermazi A. Peripatellar synovitis: comparison between non-contrast-enhanced and contrast-enhanced MRI and association with pain. The MOST study. Osteoarthritis Cartilage. 2013 Mar; 21(3):413-8.
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      3. Roemer FW, Felson DT, Yang T, Niu J, Crema MD, Englund M, Nevitt MC, Zhang Y, Lynch JA, El Khoury GY, Torner J, Lewis CE, Guermazi A. The association between meniscal damage of the posterior horns and localized posterior synovitis detected on T1-weighted contrast-enhanced MRI-The MOST study. Semin Arthritis Rheum. 2013 Jun; 42(6):573-81.
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      4. Crema MD, Felson DT, Roemer FW, Wang K, Marra MD, Nevitt MC, Lynch JA, Torner J, Lewis CE, Guermazi A. Prevalent cartilage damage and cartilage loss over time are associated with incident bone marrow lesions in the tibiofemoral compartments: the MOST study. Osteoarthritis Cartilage. 2013 Feb; 21(2):306-13.
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      5. Anderson DD, Segal NA, Kern AM, Nevitt MC, Torner JC, Lynch JA. Reliability of semiautomated computational methods for estimating tibiofemoral contact stress in the multicenter osteoarthritis study. Comput Math Methods Med. 2012; 2012:767469.
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      6. Nardo L, Alizai H, Virayavanich W, Liu F, Hernandez A, Lynch JA, Nevitt MC, McCulloch CE, Lane NE, Link TM. Lumbosacral transitional vertebrae: association with low back pain. Radiology. 2012 Nov; 265(2):497-503.
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      7. Driban JB, Tassinari A, Lo GH, Price LL, Schneider E, Lynch JA, Eaton CB, McAlindon TE. Bone marrow lesions are associated with altered trabecular morphometry. Osteoarthritis Cartilage. 2012 Dec; 20(12):1519-26.
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      8. Roemer FW, Nevitt MC, Felson DT, Niu J, Lynch JA, Crema MD, Lewis CE, Torner J, Guermazi A. Predictive validity of within-grade scoring of longitudinal changes of MRI-based cartilage morphology and bone marrow lesion assessment in the tibio-femoral joint--the MOST study. Osteoarthritis Cartilage. 2012 Nov; 20(11):1391-8.
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      9. Eckstein F, Mc Culloch CE, Lynch JA, Nevitt M, Kwoh CK, Maschek S, Hudelmaier M, Sharma L, Wirth W. How do short-term rates of femorotibial cartilage change compare to long-term changes? Four year follow-up data from the osteoarthritis initiative. Osteoarthritis Cartilage. 2012 Nov; 20(11):1250-7.
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      10. Baker-Lepain JC, Lynch JA, Parimi N, McCulloch CE, Nevitt MC, Corr M, Lane NE. Variant alleles of the Wnt antagonist FRZB are determinants of hip shape and modify the relationship between hip shape and osteoarthritis. Arthritis Rheum. 2012 May; 64(5):1457-65.
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      11. Joseph GB, Baum T, Alizai H, Carballido-Gamio J, Nardo L, Virayavanich W, Lynch JA, Nevitt MC, McCulloch CE, Majumdar S, Link TM. Baseline mean and heterogeneity of MR cartilage T2 are associated with morphologic degeneration of cartilage, meniscus, and bone marrow over 3 years--data from the Osteoarthritis Initiative. Osteoarthritis Cartilage. 2012 Jul; 20(7):727-35.
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      12. Goodson MS, Lynch JA, Lamkin T, Kramer R. Elucidation of Small RNAs That Activate Transcription in Bacteria. ACS Synth Biol. 2012 May 18; 1(5):181-9.
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      13. Stefanik JJ, Guermazi A, Zhu Y, Zumwalt AC, Gross KD, Clancy M, Lynch JA, Segal NA, Lewis CE, Roemer FW, Powers CM, Felson DT. Quadriceps weakness, patella alta, and structural features of patellofemoral osteoarthritis. Arthritis Care Res (Hoboken). 2011 Oct; 63(10):1391-7.
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      14. Joseph GB, Baum T, Carballido-Gamio J, Nardo L, Virayavanich W, Alizai H, Lynch JA, McCulloch CE, Majumdar S, Link TM. Texture analysis of cartilage T2 maps: individuals with risk factors for OA have higher and more heterogeneous knee cartilage MR T2 compared to normal controls--data from the osteoarthritis initiative. Arthritis Res Ther. 2011; 13(5):R153.
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      15. Hovis KK, Stehling C, Souza RB, Haughom BD, Baum T, Nevitt M, McCulloch C, Lynch JA, Link TM. Physical activity is associated with magnetic resonance imaging-based knee cartilage T2 measurements in asymptomatic subjects with and those without osteoarthritis risk factors. Arthritis Rheum. 2011 Aug; 63(8):2248-56.
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      16. Roemer FW, Guermazi A, Felson DT, Niu J, Nevitt MC, Crema MD, Lynch JA, Lewis CE, Torner J, Zhang Y. Presence of MRI-detected joint effusion and synovitis increases the risk of cartilage loss in knees without osteoarthritis at 30-month follow-up: the MOST study. Ann Rheum Dis. 2011 Oct; 70(10):1804-9.
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      17. Stefanik JJ, Roemer FW, Zumwalt AC, Zhu Y, Gross KD, Lynch JA, Frey-Law LA, Lewis CE, Guermazi A, Powers CM, Felson DT. Association between measures of trochlear morphology and structural features of patellofemoral joint osteoarthritis on MRI: the MOST study. J Orthop Res. 2012 Jan; 30(1):1-8.
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      18. Englund M, Felson DT, Guermazi A, Roemer FW, Wang K, Crema MD, Lynch JA, Sharma L, Segal NA, Lewis CE, Nevitt MC. Risk factors for medial meniscal pathology on knee MRI in older US adults: a multicentre prospective cohort study. Ann Rheum Dis. 2011 Oct; 70(10):1733-9.
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      19. Lynch JA. "Through a glass darkly": researcher ethnocentrism and the demonization of research participants. Am J Bioeth. 2011 Apr; 11(4):22-3.
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      20. Baker-LePain JC, Luker KR, Lynch JA, Parimi N, Nevitt MC, Lane NE. Active shape modeling of the hip in the prediction of incident hip fracture. J Bone Miner Res. 2011 Mar; 26(3):468-74.
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      21. Guermazi A, Roemer FW, Hayashi D, Crema MD, Niu J, Zhang Y, Marra MD, Katur A, Lynch JA, El-Khoury GY, Baker K, Hughes LB, Nevitt MC, Felson DT. Assessment of synovitis with contrast-enhanced MRI using a whole-joint semiquantitative scoring system in people with, or at high risk of, knee osteoarthritis: the MOST study. Ann Rheum Dis. 2011 May; 70(5):805-11.
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      22. Carballido-Gamio J, Joseph GB, Lynch JA, Link TM, Majumdar S. Longitudinal analysis of MRI T2 knee cartilage laminar organization in a subset of patients from the osteoarthritis initiative: a texture approach. Magn Reson Med. 2011 Apr; 65(4):1184-94.
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      23. Guermazi A, Hayashi D, Roemer FW, Niu J, Yang M, Lynch JA, Torner JC, Lewis CE, Sack B, Felson DT, Nevitt MC. Cyst-like lesions of the knee joint and their relation to incident knee pain and development of radiographic osteoarthritis: the MOST study. Osteoarthritis Cartilage. 2010 Nov; 18(11):1386-92.
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      24. Lynch JA, Roemer FW, Nevitt MC, Felson DT, Niu J, Eaton CB, Guermazi A. Comparison of BLOKS and WORMS scoring systems part I. Cross sectional comparison of methods to assess cartilage morphology, meniscal damage and bone marrow lesions on knee MRI: data from the osteoarthritis initiative. Osteoarthritis Cartilage. 2010 Nov; 18(11):1393-401.
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      25. Stefanik JJ, Zhu Y, Zumwalt AC, Gross KD, Clancy M, Lynch JA, Frey Law LA, Lewis CE, Roemer FW, Powers CM, Guermazi A, Felson DT. Association between patella alta and the prevalence and worsening of structural features of patellofemoral joint osteoarthritis: the multicenter osteoarthritis study. Arthritis Care Res (Hoboken). 2010 Sep; 62(9):1258-65.
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      26. Crema MD, Roemer FW, Zhu Y, Marra MD, Niu J, Zhang Y, Lynch JA, Javaid MK, Lewis CE, El-Khoury GY, Felson DT, Guermazi A. Subchondral cystlike lesions develop longitudinally in areas of bone marrow edema-like lesions in patients with or at risk for knee osteoarthritis: detection with MR imaging--the MOST study. Radiology. 2010 Sep; 256(3):855-62.
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      27. Anderson DD, Iyer KS, Segal NA, Lynch JA, Brown TD. Implementation of discrete element analysis for subject-specific, population-wide investigations of habitual contact stress exposure. J Appl Biomech. 2010 May; 26(2):215-23.
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      28. Englund M, Guermazi A, Roemer FW, Yang M, Zhang Y, Nevitt MC, Lynch JA, Lewis CE, Torner J, Felson DT. Meniscal pathology on MRI increases the risk for both incident and enlarging subchondral bone marrow lesions of the knee: the MOST Study. Ann Rheum Dis. 2010 Oct; 69(10):1796-802.
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      29. Carballido-Gamio J, Blumenkrantz G, Lynch JA, Link TM, Majumdar S. Longitudinal analysis of MRI T(2) knee cartilage laminar organization in a subset of patients from the osteoarthritis initiative. Magn Reson Med. 2010 Feb; 63(2):465-72.
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      30. Segal NA, Anderson DD, Iyer KS, Baker J, Torner JC, Lynch JA, Felson DT, Lewis CE, Brown TD. Baseline articular contact stress levels predict incident symptomatic knee osteoarthritis development in the MOST cohort. J Orthop Res. 2009 Dec; 27(12):1562-8.
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      31. Javaid MK, Lynch JA, Tolstykh I, Guermazi A, Roemer F, Aliabadi P, McCulloch C, Curtis J, Felson D, Lane NE, Torner J, Nevitt M. Pre-radiographic MRI findings are associated with onset of knee symptoms: the most study. Osteoarthritis Cartilage. 2010 Mar; 18(3):323-8.
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      32. Crema MD, Roemer FW, Marra MD, Niu J, Lynch JA, Felson DT, Guermazi A. Contrast-enhanced MRI of subchondral cysts in patients with or at risk for knee osteoarthritis: the MOST study. Eur J Radiol. 2010 Jul; 75(1):e92-6.
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      33. Roemer FW, Neogi T, Nevitt MC, Felson DT, Zhu Y, Zhang Y, Lynch JA, Javaid MK, Crema MD, Torner J, Lewis CE, Guermazi A. Subchondral bone marrow lesions are highly associated with, and predict subchondral bone attrition longitudinally: the MOST study. Osteoarthritis Cartilage. 2010 Jan; 18(1):47-53.
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      34. Roemer FW, Lynch JA, Niu J, Zhang Y, Crema MD, Tolstykh I, El-Khoury GY, Felson DT, Lewis CE, Nevitt MC, Guermazi A. A comparison of dedicated 1.0 T extremity MRI vs large-bore 1.5 T MRI for semiquantitative whole organ assessment of osteoarthritis: the MOST study. Osteoarthritis Cartilage. 2010 Feb; 18(2):168-74.
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      35. Roemer FW, Zhang Y, Niu J, Lynch JA, Crema MD, Marra MD, Nevitt MC, Felson DT, Hughes LB, El-Khoury GY, Englund M, Guermazi A. Tibiofemoral joint osteoarthritis: risk factors for MR-depicted fast cartilage loss over a 30-month period in the multicenter osteoarthritis study. Radiology. 2009 Sep; 252(3):772-80.
        View in: PubMed
      36. Lynch JA, Parimi N, Chaganti RK, Nevitt MC, Lane NE. The association of proximal femoral shape and incident radiographic hip OA in elderly women. Osteoarthritis Cartilage. 2009 Oct; 17(10):1313-8.
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      37. Roemer FW, Guermazi A, Hunter DJ, Niu J, Zhang Y, Englund M, Javaid MK, Lynch JA, Mohr A, Torner J, Lewis CE, Nevitt MC, Felson DT. The association of meniscal damage with joint effusion in persons without radiographic osteoarthritis: the Framingham and MOST osteoarthritis studies. Osteoarthritis Cartilage. 2009 Jun; 17(6):748-53.
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      38. Roemer FW, Guermazi A, Javaid MK, Lynch JA, Niu J, Zhang Y, Felson DT, Lewis CE, Torner J, Nevitt MC. Change in MRI-detected subchondral bone marrow lesions is associated with cartilage loss: the MOST Study. A longitudinal multicentre study of knee osteoarthritis. Ann Rheum Dis. 2009 Sep; 68(9):1461-5.
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      39. Englund M, Niu J, Guermazi A, Roemer FW, Hunter DJ, Lynch JA, Lewis CE, Torner J, Nevitt MC, Zhang YQ, Felson DT. Effect of meniscal damage on the development of frequent knee pain, aching, or stiffness. Arthritis Rheum. 2007 Dec; 56(12):4048-54.
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      40. Lynch JA, George AM, Eisenhauer PB, Conn K, Gao W, Carreras I, Wells JM, McKee A, Ullman MD, Fine RE. Insulin degrading enzyme is localized predominantly at the cell surface of polarized and unpolarized human cerebrovascular endothelial cell cultures. J Neurosci Res. 2006 May 15; 83(7):1262-70.
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      41. Roemer FW, Mohr A, Lynch JA, Meta MD, Guermazi A, Genant HK. Micro-CT arthrography: a pilot study for the ex vivo visualization of the rat knee joint. AJR Am J Roentgenol. 2005 Apr; 184(4):1215-9.
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      42. Roemer FW, Guermazi A, Lynch JA, Peterfy CG, Nevitt MC, Webb N, Li J, Mohr A, Genant HK, Felson DT. Short tau inversion recovery and proton density-weighted fat suppressed sequences for the evaluation of osteoarthritis of the knee with a 1.0 T dedicated extremity MRI: development of a time-efficient sequence protocol. Eur Radiol. 2005 May; 15(5):978-87.
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      43. Bates BR, Lynch JA, Bevan JL, Condit CM. Warranted concerns, warranted outlooks: a focus group study of public understandings of genetic research. Soc Sci Med. 2005 Jan; 60(2):331-44.
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      44. Carano RA, Lynch JA. Quantification of bone lesions in rheumatoid arthritis by MRI multispectral tissue class transition analysis. Semin Musculoskelet Radiol. 2004 Dec; 8(4):301-11.
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      45. Guermazi A, Taouli B, Lynch JA, Peterfy CG. Imaging of bone erosion in rheumatoid arthritis. Semin Musculoskelet Radiol. 2004 Dec; 8(4):269-85.
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      46. Gao W, Eisenhauer PB, Conn K, Lynch JA, Wells JM, Ullman MD, McKee A, Thatte HS, Fine RE. Insulin degrading enzyme is expressed in the human cerebrovascular endothelium and in cultured human cerebrovascular endothelial cells. Neurosci Lett. 2004 Nov 16; 371(1):6-11.
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      47. Mohr A, Wenke R, Roemer FW, Lynch JA, Gatzka C, Priebe M, Guermazi A, Grigorian M, Heller M, Mueller-Huelsbeck S. Micro-CT of carotid arteries: a tool for experimental studies. Cardiovasc Intervent Radiol. 2004 Nov-Dec; 27(6):651-4.
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      48. Jiang Y, Zhao J, Geusens P, Liao EY, Adriaensens P, Gelan J, Azria M, Boonen S, Caulin F, Lynch JA, Ouyang X, Genant HK. Femoral neck trabecular microstructure in ovariectomized ewes treated with calcitonin: MRI microscopic evaluation. J Bone Miner Res. 2005 Jan; 20(1):125-30.
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      49. Carano RA, Lynch JA, Redei J, Ostrowitzki S, Miaux Y, Zaim S, White DL, Peterfy CG, Genant HK. Multispectral analysis of bone lesions in the hands of patients with rheumatoid arthritis. Magn Reson Imaging. 2004 May; 22(4):505-14.
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      50. Taouli B, Zaim S, Peterfy CG, Lynch JA, Stork A, Guermazi A, Fan B, Fye KH, Genant HK. Rheumatoid arthritis of the hand and wrist: comparison of three imaging techniques. AJR Am J Roentgenol. 2004 Apr; 182(4):937-43.
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      51. Lynch JA, Grigoryan M, Fierlinger A, Guermazi A, Zaim S, MacLean DB, Genant HK. Measurement of changes in trabecular bone at fracture sites using X-ray CT and automated image registration and processing. J Orthop Res. 2004 Mar; 22(2):362-7.
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      52. Ostrowitzki S, Rédei J, Lynch JA, Carano RA, Zaim S, Miaux Y, Genant HK. Use of multispectral magnetic resonance imaging analysis to quantify erosive changes in the hands of patients with rheumatoid arthritis: short-term and long-term longitudinal studies. Arthritis Rheum. 2004 Mar; 50(3):716-24.
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      53. Grigoryan M, Lynch JA, Fierlinger AL, Guermazi A, Fan B, MacLean DB, MacLean A, Genant HK. Quantitative and qualitative assessment of closed fracture healing using computed tomography and conventional radiography. Acad Radiol. 2003 Nov; 10(11):1267-73.
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      54. Mohr A, Heiss C, Bergmann I, Schrader C, Roemer FW, Lynch JA, Muhle C, Genant HK, Heller M. Value of micro-CT as an investigative tool for osteochondritis dissecans. Acta Radiol. 2003 Sep; 44(5):532-7.
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      55. Duryea J, Dobbins JT, Lynch JA. Digital tomosynthesis of hand joints for arthritis assessment. Med Phys. 2003 Mar; 30(3):325-33.
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      56. Buckland-Wright JC, Lynch JA, Dave B. Early radiographic features in patients with anterior cruciate ligament rupture. Ann Rheum Dis. 2000 Aug; 59(8):641-6.
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      57. Mazzuca SA, Brandt KD, Buckland-Wright JC, Buckwalter KA, Katz BP, Lynch JA, Ward RJ, Emsley CL. Field test of the reproducibility of automated measurements of medial tibiofemoral joint space width derived from standardized knee radiographs. J Rheumatol. 1999 Jun; 26(6):1359-65.
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      58. Rhodes JS, Ford TR, Lynch JA, Liepins PJ, Curtis RV. Micro-computed tomography: a new tool for experimental endodontology. Int Endod J. 1999 May; 32(3):165-70.
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      59. Buckland-Wright JC, Lynch JA, Bird C. Microfocal techniques in quantitative radiography: measurement of cancellous bone organization. Br J Rheumatol. 1996 Dec; 35 Suppl 3:18-22.
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      60. Buckland-Wright JC, Lynch JA, Macfarlane DG. Fractal signature analysis measures cancellous bone organisation in macroradiographs of patients with knee osteoarthritis. Ann Rheum Dis. 1996 Oct; 55(10):749-55.
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      61. Buckland-Wright JC, Macfarlane DG, Lynch JA. Sensitivity of radiographic features and specificity of scintigraphic imaging in hand osteoarthritis. Rev Rhum Engl Ed. 1995 Jun; 62(6 Suppl 1):14S-26S.
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      62. Buckland-Wright JC, MacFarlane DG, Lynch JA, Jasani MK. Quantitative microfocal radiography detects changes in OA knee joint space width in patients in placebo controlled trial of NSAID therapy. J Rheumatol. 1995 May; 22(5):937-43.
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      63. Buckland-Wright JC, Macfarlane DG, Lynch JA, Jasani MK, Bradshaw CR. Joint space width measures cartilage thickness in osteoarthritis of the knee: high resolution plain film and double contrast macroradiographic investigation. Ann Rheum Dis. 1995 Apr; 54(4):263-8.
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      64. Buckland-Wright JC, Macfarlane DG, Jasani MK, Lynch JA. Quantitative microfocal radiographic assessment of osteoarthritis of the knee from weight bearing tunnel and semiflexed standing views. J Rheumatol. 1994 Sep; 21(9):1734-41.
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      65. Buckland-Wright JC, Lynch JA, Rymer J, Fogelman I. Fractal signature analysis of macroradiographs measures trabecular organization in lumbar vertebrae of postmenopausal women. Calcif Tissue Int. 1994 Feb; 54(2):106-12.
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      66. Lynch JA, Buckland-Wright JC, Macfarlane DG. Precision of joint space width measurement in knee osteoarthritis from digital image analysis of high definition macroradiographs. Osteoarthritis Cartilage. 1993 Oct; 1(4):209-18.
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      67. Buckland-Wright JC, MacFarlane DG, Lynch JA. Relationship between joint space width and subchondral sclerosis in the osteoarthritic hand: a quantitative microfocal radiographic study. J Rheumatol. 1992 May; 19(5):788-95.
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      68. Buckland-Wright JC, Macfarlane DG, Lynch JA. Osteophytes in the osteoarthritic hand: their incidence, size, distribution, and progression. Ann Rheum Dis. 1991 Sep; 50(9):627-30.
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      69. Lynch JA, Hawkes DJ, Buckland-Wright JC. A robust and accurate method for calculating the fractal signature of texture in macroradiographs of osteoarthritic knees. Med Inform (Lond). 1991 Apr-Jun; 16(2):241-51.
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      70. Buckland-Wright JC, Macfarlane DG, Fogelman I, Emery P, Lynch JA. Techetium 99m methylene diphosphonate bone scanning in osteoarthritic hands. Eur J Nucl Med. 1991; 18(1):12-6.
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      71. Buckland-Wright JC, Macfarlane DG, Lynch JA, Clark B. Quantitative microfocal radiographic assessment of progression in osteoarthritis of the hand. Arthritis Rheum. 1990 Jan; 33(1):57-65.
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