NIH Image to ImageJ:​ 25 years of image analysis

Schneider, Caroline A.; Rasband, Wayne S.; Eliceiri, Kevin W.

Year	Entry
2025	Gocha TP, Mavroudas SR, Goldstein JZ. Age-at-death estimation from bone microstructure. In: Stout SD, Crowder C, eds. Bone Histology: A Biological Anthropological Perspective. 2nd ed. Boca Raton, FL: CRC Press; 2025:270-306.
2025	Assis S, García-Donas JG, de Boer HH. The histopathological analysis of human skeletal remains. In: Stout SD, Crowder C, eds. Bone Histology: A Biological Anthropological Perspective. 2nd ed. Boca Raton, FL: CRC Press; 2025:307-342.
2013	Perz R, Toczyski J, Kindig M, Ito D, Ejima S, Kamiji K, Yasuki T, Crandall J, Subit D. Evaluation of the geometrical properties distribution along the human ribs using different X‐ray imaging methods. In: Proceedings of the 2013 International IRCOBI Conference on the Biomechanics of Injury. September 11-13, 2013; Gothenburg, Sweden.245-256.
2019	Zenzes M, Bortel EL, Fratzl P, Mundlos S, Schuetz M, Schmidt H, Duda GN, Witte F, Zaslansky P. Normal trabecular vertebral bone is formed via rapid transformation of mineralized spicules: a high-resolution 3D ex-vivo murine study. Acta Biomater. March 1, 2019;86:429-440.
2019	Knowles NK, Kusins J, Faieghi M, Ryan M, Dall’Ara E, Ferreira LM. Material mapping of QCT-derived scapular models: a comparison with micro-CT loaded specimens using digital volume correlation. Ann Biomed Eng. November 2019;47(11):2188-2198.
2017	Rueden CT, Schindelin J, Hiner MC, DeZonia BE, Walter AE, Arena ET, Eliceiri KW. ImageJ2: ImageJ for the next generation of scientific image data. BMC Bioinformatics. November 29, 2017;18:529.
2020	Surowiec RK, Battle LF, Ward FS, Schlecht SH, Khoury BM, Robbins C, Wojtys EM, Caird MS, Kozlof KM. A xenograft model to evaluate the bone forming effects of sclerostin antibody in human bone derived from pediatric osteogenesis imperfecta patients. Bone. January 2020;130:115118.
2021	Kobayashi H, Nakamura S, Sato Y, Kobayashi T, Miyamoto K, Oya A, Matsumoto M, Nakamura M, Kanaji A, Miyamoto T. ALDH2 mutation promotes skeletal muscle atrophy in mice via accumulation of oxidative stress. Bone. January 2021;142:115739.
2022	Paradise CR, Galvan ML, Pichurin O, Jerez S, Kubrova E, Dehghani SS, Carrasco ME, Thaler R, Larson AN, van Wijnen AJ, Dudakovic A. Brd4 is required for chondrocyte differentiation and endochondral ossification. Bone. January 2022;154:116234.
2022	Taylor EL, Weaver SR, Lorang IM, Arnold KM, Bradley EW, Marron Fernandez de Velasco E, Wickman K, Westendorf JJ. GIRK3 deletion facilitates kappa opioid signaling in chondrocytes, delays vascularization and promotes bone lengthening in mice. Bone. June 2022;159:116391.
2022	Hedjazi G, Guterman-Ram G, Blouin S, Schemenz V, Wagermaier W, Fratzl P, Hartmann MA, Zwerina J, Fratzl-Zelman N, Marini JC. Alterations of bone material properties in growing Ifitm5/BRIL p.s42 knock-in mice, a new model for atypical type vi osteogenesis imperfecta. Bone. September 2022;162:116451.
2022	Bolger MW, Romanowicz GE, Bigelow EMR, Ward FS, Ciarelli A, Jepsen KJ, Kohn DH. Divergent mechanical properties of older human male femora reveal unique combinations of morphological and compositional traits contributing to low strength. Bone. October 2022;163:116481.
2023	Misof BM, Roschger P, Mähr M, Fratzl-Zelman N, Glorieux FH, Hartmann MA, Rauch F, Blouin S. Accelerated mineralization kinetics in children with osteogenesis imperfecta type 1. Bone. January 2023;166:116580.
2023	Chirokikh AA, Uddin SMZ, Areikat N, Jones R, Duque E, Connor C, Hadjiargyrou M, Thanos PK, Komatsu DE. Combined methylphenidate and fluoxetine treatment in adolescent rats significantly impairs weight gain with minimal effects on skeletal development. Bone. February 2023;167:116637.
2018	Ciani A, Toumi H, Pallu S, Tsai EH, Diaz A, Guizar-Sicairos M, Holler M, Lespessailles E, Kewish CM. Ptychographic X-ray CT characterization of the osteocyte lacuno-canalicular network in a male rat's glucocorticoid induced osteoporosis model. Bone Rep. December 2018;9:122-131.
2020	Steiner L, Synek A, Pahr DH. Comparison of different microCT-based morphology assessment tools using human trabecular bone. Bone Rep. June 2020;12:100261.
2014	Mizoguchi T, Pinho S, Ahmed J, Kunisaki Y, Hanoun M, Mendelson A, Ono N, Kronenberg HM, Frenette PS. Osterix marks distinct waves of primitive and definitive stromal progenitors during bone marrow development. Dev Cell. May 12, 2014;29(3):340-349.
2021	Waltenberger L, Beitel S, Benecker B, Heimel P, Weninger W, Kanz F. A histological comparison of non-human rib models suited for sharp force trauma analysis. Forensic Sci Int. February 2021;319:110661.
2015	Salmon PL, Ohlsson C, Shefelbine SJ, Doube M. Structure model index does not measure rods and plates in trabecular bone. Front Endocrinol (Lausanne). 2015;6:162.
2019	Georgiou L, Kivell TL, Pahr DH, Buck LT, Skinner MM. Trabecular architecture of the great ape and human femoral head. J Anat. May 2019;234(5):679-693.
2024	Morgan M, Farra YM, Vergara-Anglim A, Bellini C, Oakes JM, Shefelbine SJ. E-cigarette aerosol exposure effect on bone biomechanical properties in murine models. J Biomech. January 2024;162:111879.
2020	Fraulob M, Le Cann S, Voumard B, Yasui H, Yano K, Vayron R, Matsukawa M, Zysset P, Haïat G. Multimodal evaluation of the spatiotemporal variations of periprosthetic bone properties. J Biomech Eng. December 2020;142(12):121014.
2014	Carriero A, Zimmermann EA, Paluszny A, Tang SY, Bale H, Busse B, Alliston T, Kazakia G, Ritchie RO, Shefelbine SJ. How tough is brittle bone? investigating osteogenesis imperfecta in mouse bone. J Bone Miner Res. June 2014;29(6):1392-1401.
2019	Emami AJ, Toupadakis CA, Telek SM, Fyhrie DP, Yellowley CE, Christiansen BA. Age dependence of systemic bone loss and recovery following femur fracture in mice. J Bone Miner Res. January 2019;34(1):157-170.
2020	Gorth DJ, Ottone OK, Shapiro IM, Risbud MV. Differential effect of long‐term systemic exposure of TNFΑ on health of the annulus fibrosus and nucleus pulposus of the intervertebral disc. J Bone Miner Res. April 2020;35(4):725-737.
2020	Shapiro G, Fishleder J, Stepensky P, Simanovsky N, Goldman V, Lamdan R. Skeletal changes after hematopoietic stem cell transplantation in osteopetrosis. J Bone Miner Res. September 2020;35(9):1645-1651.
2020	Hoac B, Østergaard M, Wittig NK, Boukpessi T, Buss DJ, Chaussain C, Birkedal H, Murshed M, McKee MD. Genetic ablation of osteopontin in osteomalacic Hyp mice partially rescues the deficient mineralization without correcting hypophosphatemia. J Bone Miner Res. October 2020;35(10):2032-2048.
2022	Lavicky J, Kolouskova M, Prochazka D, Rakultsev V, Gonzalez-Lopez M, Steklikova K, Bartos M, Vijaykumar A, Kaiser J, Pořízka P, Hovorakova M, Mina M, Krivanek J. The development of dentin microstructure is controlled by the type of adjacent epithelium. J Bone Miner Res. February 2022;37(2):323-339.
2022	Yu KE, Kwon H-K, Dussik CM, Cahill SV, Back J, Alder KD, Lee FY. Enhancement of impaired MRSA-infected fracture healing by combinatorial antibiotics and modulation of sustained inflammation. J Bone Miner Res. July 2022;37(7):1352-1365.
2022	Essex AL, Huot JR, Deosthale P, Wagner A, Figueras J, Davis A, Damrath J, Pin F, Wallace J, Bonetto A, Plotkin LI. Triggering receptor expressed on myeloid cells 2 (TREM2) R47H variant causes distinct age- and sex-dependent musculoskeletal alterations in mice. J Bone Miner Res. July 2022;37(7):1366-1381.
2022	Arellano DL, Juárez P, Verdugo-Meza A, Almeida-Luna PS, Corral-Avila JA, Drescher F, Olvera F, Jiménez S, Elzey BD, Guise TA, Fournier PGJ. Bone microenvironment-suppressed t cells increase osteoclast formation and osteolytic bone metastases in mice. J Bone Miner Res. August 2022;37(8):1446-1463.
2023	Kittaka M, Yoshimoto T, Levitan ME, Urata R, Choi RB, Teno Y, Xie Y, Kitase Y, Prideaux M, Dallas SL, Robling AG, Ueki Y. Osteocyte RANKL drives bone resorption in mouse ligature-induced periodontitis. J Bone Miner Res. October 2023;38(10):1521-1540.
2023	Potukuchi SKS, Conward M, Samuel J. Microstructure-based finite element model for fracture cutting of bovine cortical bone. J Manuf Process. September 8, 2023;101:25-37.
2015	Perz R, Toczyski J, Subit D. Variation in the human ribs geometrical properties and mechanical response based on X-ray computed tomography images resolution. J Mech Behav Biomed Mater. January 2015;41:292-301.
2019	Kusins J, Knowles N, Ryan M, Dall’Ara E, Ferreira L. Performance of QCT-derived scapula finite element models in predicting local displacements using digital volume correlation. J Mech Behav Biomed Mater. September 2019;97:339-345.
2020	Zhai X, Nauman EA, Moryl D, Lycke R, Chen WW. The effects of loading-direction and strain-rate on the mechanical behaviors of human frontal skull bone. J Mech Behav Biomed Mater. March 2020;103:103597.
2021	Marcián P, Borák L, Zikmund T, Horáčková L, Kaiser J, Joukal M, Wolff J. On the limits of finite element models created from (micro)CT datasets and used in studies of bone-implant-related biomechanical problems. J Mech Behav Biomed Mater. May 2021;117:104393.
2020	Knowles NK, Kusins J, Columbus MP, Athwal GS, Ferreira LM. Morphological and apparent‐level stiffness variations between normal and osteoarthritic bone in the humeral head. J Orthop Res. March 2020;38(3):503-509.
2022	Walsh SK, Soni R, Arendt LM, Skala MC, Henak CR. Maturation- and degeneration-dependent articular cartilage metabolism via optical redox ratio imaging. J Orthop Res. August 2022;40(8):1735-1743.
2022	Knowles NK, Kusins J, Columbus MP, Athwal GS, Ferreira LM. Experimental DVC validation of heterogeneous micro finite element models applied to subchondral trabecular bone of the humeral head. J Orthop Res. September 2022;40(9):2039-2047.
2022	Shaffer SK, Garcia TC, Stover SM, Fyhrie DP. Exercise history predicts focal differences in bone volume fraction, mineral density and microdamage in the proximal sesamoid bones of thoroughbred racehorses. J Orthop Res. December 2022;40(12):2831-2842.
2023	Ben Tahar S, Garnier J, Eller K, DiMauro N, Piet J, Mehta S, Bajpayee AG, Shefelbine SJ. Adolescent obesity incurs adult skeletal deficits in murine induced obesity model. J Orthop Res. February 2023;41(2):386-395.
2020	Cristofolini L, Morellato K, Cavallo M, Guerra E. Reconstruction of proximal humeral fractures with a reduced number of screws and a reinforced bone substitute. Med Eng Phys. August 2020;82:97-103.
2022	Sauer K, Zizak I, Forien J-B, Rack A, Scoppola E, Zaslansky P. Primary radiation damage in bone evolves via collagen destruction by photoelectrons and secondary emission self-absorption. Nat Commun. December 20, 2022;13(1):7829.
2020	Turyanskaya A, Rauwolf M, Pichler V, Simon R, Burghammer M, 4 OJLF, Sawhney K, Hofstaetter JG, Roschger A, Roschger P, Wobrauschek P, Streli C. Detection and imaging of gadolinium accumulation in human bone tissue by micro- and submicro-XRF. Sci Rep. 2020;10:6301.
2020	Törnquist E, Gentile L, Prévost S, Diaz A, Olsson U, Isaksson H. Comparison of small-angle neutron and X-ray scattering for studying cortical bone nanostructure. Sci Rep. 2020;10:14552.
2021	Bonicelli A, Zioupos P, Arnold E, Rogers KD, Xhemali B, Kranioti EF. Age related changes of rib cortical bone matrix and the application to forensic age-at-death estimation. Sci Rep. January 22, 2021;11:2086.
2019	Huang S. Developing a Method for Estimating Subject-Specific Trunk Muscle Morphometry [Master's thesis]. Boston University; 2019.
2015	ElAgamy N. An Experimental and Numerical Study of Three-Dimensional Fatigue Damage in Carbon Fibre Reinforced Polymers [PhD thesis]. Carleton University; 2015.
2020	Mazurkiewicz A. Effects of Brain Gyrification on Impact-Induced Strain Measurements With a Preliminary Study on Viable Ex Vivo Porcine Brain [Master's thesis]. Carleton University; June 2020.
2022	Lei B. Data-Driven Image Segmentation of Complex Microstructures With Deep Learning [PhD thesis]. Carnegie Mellon University; December 2022.
2017	Wahlquist JA. Zonal Articular Cartilage Possesses Complex Mechanical Behavior Spanning Multiple Length Scales: Dependence on Chemical Heterogeneity, Anisotropy, and Microstructure [PhD thesis]. Boulder, CO: University of Colorado; 2017.
2022	Burt KG. Evaluation of Inflammatory Biological Drivers and the Role of the Innate Immune Response During Intervertebral Disc Degeneration [PhD thesis]. Columbia University; 2022.
2022	Chlebek C. Identification of Novel Cellular Pathways Involved in Bone Mechanotransduction Using Transcriptomics [PhD thesis]. Ithaca, NY: Cornell University; May 2022.
2015	Brunger JM. Cellular and Biomaterial Engineering for Orthopaedic Regenerative Medicine [PhD thesis]. Duke University; 2015.
2015	Rodriguez-Florez N. Mechanics of Cortical Bone: Exploring the Micro- and Nano-Scale [PhD thesis]. Imperial College London; January 2015.
2019	Davis HM. Molecular Mechanisms Underlying Osteocyte Apoptosis and the Associated Osteoclastogenesis in Cx43-Deficiency and Aging [PhD thesis]. Indiana University – Purdue University Indianapolis (IUPUI); June 2019.
2022	Fredriksson D. Machine Learning Methods for Segmentation of Complex Metal Microstructure Features [Master's thesis]. Sweden, Royal Institute of Technology; 2022.
2019	Gustafsson A. The Role of Microstructure for Crack Propagation in Cortical Bone [PhD thesis]. Lund, Sweden: Lund University; December 2019.
2021	Törnquist E. Bone Structure Characterisation Using Neutron Scattering Techniques [PhD thesis]. Lund, Sweden: Lund University; 2021.
2014	Jameson JR. Characterization of Bone Material Properties and Microstructure in Osteogenesis Imperfecta/brittle Bone Disease [PhD thesis]. Marquette University; December 2014.
2019	Jhirad A. The Effects of Electrical Stimulation on Loss of Bone Mass in the Ovariectomized Rat [Master's thesis]. Hamilton, ON: McMaster University; 2019.
2021	Fraschetti A. The Effects of Exposure to Trace Elements on the Skeletal Health of American Mink [Master's thesis]. Hamilton, ON: McMaster University; December 2021.
2013	Pino W. Computational Modeling of Trabecular Bone in Lower Extremity Injuries Due to Impact [Master's thesis]. Cambridge, MA: Massachusetts Institute of Technology; June 2013.
2017	Barry ZT. Single-Particle Tracking and Fluorescence Correlation Spectroscopy for Systems-Level Analysis of Molecular Dynamics in Diverse Biological Systems [PhD thesis]. Cambridge, MA: Massachusetts Institute of Technology; 2017.
2017	Murphy MA. Using Molecular Dynamics to Quantify Biaxial Membrane Damage in a Multiscale Modeling Framework for Traumatic Brain Injury [PhD thesis]. Mississippi State University; August 2017.
2019	Warren PB. Additive Manufacturing Approaches for Replicating the Structure and Function of Fibrous Musculoskeletal Soft Tissues [PhD thesis]. North Carolina State University; 2019.
2021	Olivier C. Evaluation of the in Vitro Biocompatibility of Cortical Bone Matrix [Master's thesis]. Potchefstroom, South Africa: North-West University; November 2021.
2015	Bianco R. Biomécanique de l'ancrage de vis pédiculaires pour l'instrumentation du rachis [PhD thesis]. École polytechnique de Montréal; December 2015.
2024	Davis SL. Using High Resolution X-Ray Computed Tomography and Digital Volume Correlation to Assess Full-Field 3d Strain Distribution Patterns in Osteoarthritic Cartilage [PhD thesis]. Portsmouth, England: University of Portsmouth; 2024.
2022	Hickox L. Mechanisms Underlying Plantarflexor Structure-Function Relationships and Implications for Locomotor Function [PhD thesis]. State College, PA: Pennsylvania State University; December 2022.
2020	Doolittle ML. Dissecting the Genetic Influences on Osteoporosis Reveals Zbtb40* as a Novel Regulator of Osteoblast Function* [PhD thesis]. University of Rochester; 2020.
2017	Marcotti S. Mechanical Characterisation of Bone Cells and Their Glycocalyx [PhD thesis]. University of Sheffield; November 2017.
2017	Owen R. Tissue Engineering an in Vitro Model of Osteoporosis [PhD thesis]. Sheffield, UK: University of Sheffield; October 2017.
2018	Costa MC. Prediction of the Risk of Vertebral Fracture in Patients With Metastatic Bone Lesions as a Tool for More Effective Patients’ Management [PhD thesis]. University of Sheffield; November 2018.
2014	Liske HA. Optogenetic Methods to Control Excitation and Inhibition of Neuromuscular Activity [PhD thesis]. Stanford University; March 2014.
2021	Crane J. The Influence of Chemical Kinetics on Detonation Structure and Propagation [PhD thesis]. Stanford University; June 2021.
2017	Brasch M. Combining Smart Material Platforms and New Computational Tools to Investigate Cell Motility Behavior and Control [PhD thesis]. University of Syracuse; May 2017.
2019	Akintunde AR. Mathematical Modeling to Elucidate Underlying Matrix Mechanisms in the Mechanical Response of Biological Soft Tissues [PhD thesis]. Tulane University; July 2019.
2014	Chen L. Characterization of Non-Collagenous Proteins in Vertebrate Mineralization [PhD thesis]. University of Akron; August 2014.
2018	Patil PS. Fluorinated Methacrylamide Chitosan for Oxygen Delivery in Wound Healing and Tissue Engineering [PhD thesis]. University of Akron; August 2018.
2019	Emami AJ. Systemic Bone Loss After Femoral Fracture in Mice: Potential Mechanisms and Age-Related Effects [PhD thesis]. Davis, University of California; 2019.
2021	Shaffer SK. High-Speed Exercise and Fetlock Kinematics Affect the Development of Stress-Reactions in Racehorse Proximal Sesamoid Bones [PhD thesis]. Davis, University of California; 2021.
2020	Monteiro DA. Physical Cues Regulate the Localization and Activation of TGFβ Receptors to Control the Quantity and Quality of Signaling Pathway Activity [PhD thesis]. San Francisco, University of California; 2020.
2019	Lv M. Statin for the Prevention of Osteoarthritis: A Clinical Cohort Study and Its Cellular Mechanisms [PhD thesis]. University of Delaware; 2019.
2021	Farnham MS. Redefining Articular Cartilage Lubrication: The Role of Hydration Recovery on Tissue Function in Health and Injury [PhD thesis]. University of Delaware; 2021.
2021	Ganji E. Growth and Mechanobiology of the Achilles Enthesis in Mice [PhD thesis]. University of Delaware; 2021.
2021	Leek CC. The Role of Fibroblast Growth Factor Signaling During Superstructure Development and in Muscle-Bone Crosstalk [PhD thesis]. University of Delaware; 2021.
2016	Shine CL. Ursidae Locomotion: Right Down to the “Bear Bones” [PhD thesis]. Moscow, ID: University of Idaho; May 2016.
2015	Guzmán CF. Experimental and Numerical Characterization of Damage and Application to Incremental Forming [PhD thesis]. Liège, Belgique: Université de Liège; November 2015.
2023	Tits A. Attaching Soft to Hard: A Multimodal Correlative Investigation of the Tendon-Bone Interface [PhD thesis]. Liège, Belgique: Université de Liège; 2023.
2019	Surowiec R. Novel Models to Image and Quantify Bone Drug Efficacy and Disease Progression in Vivo: Addressing the Fragility Phenotype [PhD thesis]. University of Michigan; 2019.
2023	Yazdanpanah Z. 3D Printed Polycaprolactone/nano-Hydroxyapatite Scaffolds for Bone Tissue Engineering in-Vitro [PhD thesis]. University of Saskatchewan; June 2023.
2014	Abraham CL. Biomechanical Analysis of Acetabular Dysplasia: Foundations for Improved Clinical Care [PhD thesis]. University of Utah; December 2014.
2014	Pakdel Sefidgar AR. The Craniomaxillofacial Skeleton: New Approaches in Computational Biomechanics and Fracture Stabilization [PhD thesis]. University of Toronto; 2014.
2017	Anwer AO. Advanced Multifunctional Micro-Textured Thermoplastic Elastomeric Fiber Composites [Master's thesis]. University of Toronto; 2017.
2018	Zhang L. Effects of Osteoblast-Specific Gα_S Overexpression on Skeletal Development and Response to Catabolic and Anabolic Stimuli Using a Transgenic Mouse Model [PhD thesis]. University of Toronto; 2018.
2019	Stepniak K. Development of an Anthropomorphic Phantom Coronary Artery Network for CT Imaging [Master's thesis]. University of Toronto; 2019.
2022	Salazar SA. Methodologies for Quantifying and Characterizing Strain Fields Resulting from Focused Ultrasound Therapies in Mouse Achilles Tendon Using Ultrasound Imaging and Digital Image Correlation [Master's thesis]. Virginia Polytechnic Institute and State University; July 7, 2022.
2014	Hu Z. The Development of a Digital X-Ray Imaging System for the Characterization of Transmission of Whole-Body Vibration in Mice [Master's thesis]. London, ON: Western University; 2014.
2019	Knowles NK. Improving Material Mapping in Glenohumeral Finite Element Models: A Multi-Level Evaluation [PhD thesis]. University of Western Ontario; 2019.
2021	Kusins J. A Multi-Level Mechanical Assessment of the Shoulder Coupled With Evaluation of Upper Extremity Predictive Finite Element Models [PhD thesis]. University of Western Ontario; 2021.
2015	Santago AC II. Implications of Aging and Degenerative Rotator Cuff Tears for Upper Limb Muscle Morphology, Strength, and Function [PhD thesis]. Winston-Salem, NC: Wake Forest University; May 2015.
2016	Collins CJ. A Comprehensive Evaluation of Methods to Determine Mechanical Properties of Long Bone [PhD thesis]. University of Wisconsin – Madison; 2016.
2020	Walsh SK. Effects of Age and Mechanical Loading on Articular Cartilage Metabolism and Corresponding Consequences for Tissue Health [PhD thesis]. University of Wisconsin – Madison; 2020.