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Publications - 2009

Acosta, O., Bourgeat, P., Zuluaga, M., Fripp, J., Salvado, O. & Ourselin, S. Automated voxel-based 3D cortical thickness measurement in a combined Lagrangian-Eulerian PDE approach using partial volume maps. Medical Image Analysis, 13,730-743.

Acosta, O., Bourgeat, P., Zuluaga, M. A., Fripp, J., Ourselin, S., Salvado, O. & Initiative, A. s. D. N. Automated voxel-based 3D cortical thickness measurement in a combined Langrangian-Eulerian PDE approach using partial volume maps. Med. Image Analysis, 13,730-743.

Acosta, O., Rueda, A., Xiao, D., Bonner, E., Fripp, J., Bourgeat, P. & Salvado, O. 3D shape context based non-rigid registration of cortical surfaces. 12th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2009).Springer.

Bonner, E., Acosta, O., Fripp, J. & Salvado, O. A quantitative comparison of cortex unfolding methods. Neuroimage.

Bonner, E., Rueda, A., Acosta, O. & Salvado, O. A quantitative comparison of three methods for inflating cortical meshes. 6th IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2009).IEEE.

Bourgeat, P., Chetelat, G., Villemagne, V., Fripp, J., Raniga, P., Acosta, O., Salvado, O. & et al. b-amyloid burden in the temporal neocortex is related to hippocampal atrophy in non-demented aged subjects. Neurology.

Bourgeat, P., Villemagne, V., Fripp, J., Pike, K., Raniga, P., Acosta, O., Salvado, O. & et al. Relation between amyloid burden, brain atrophy and cognition in Alzheimer's disease [abstract]. International Conference on Alzheimer's Disease (ICAD 2009).

Boyle, J. PAPT - Patient Admissions Prediction Tool. Healthcare IT Management, 4,30-32.

Boyle, J., Bidargaddi, N., Sarela, A. & Karunanithi, M. Automatic Detection of Respiration Rate From Ambulatory Single-Lead ECG. IEEE TRANSACTIONS ON INFORMATION TECHNOLOGY IN BIOMEDICINE, VOL. 13, NO. 6, NOVEMBER 2009, 13,890-896.

Boyle, J., Bidargaddi, N., Sarela, A. & Karunanithi, M. Automatic detection of respiration rate from ambulatory single-lead ECG. IEEE Trans. Inform. Tech. in Biomedicine, 13,890-896.

Cheng, M., Riek, S., Ourselin, S. & Watson, M. Pneumatic haptic interface fuzzy controller for simulation of abdominal palpations during colonoscopy. 3rd Joint EuroHaptics Conference and Symposium on Haptic Interfaces for Virtual Environment and Teleoperator Systems (WorldHaptics 2009).IEEE.

Cheng, M., Riek, S., Ourselin, S., Watson, M., de Visser, H., Passenger, J. & Salvado, O. Characterising abdominal palpation in colonoscopy for simulation using pneumatic haptic device. IEEE Trans. Haptics.

Cheng, M., Watson, M., Riek, S., Passenger, J. & Salvado, O. The development of a haptic device for abdominal palpations in colonoscopy simulation [abstract]. SimTecT Health Simulation Conference 2009.

Chetelat, G., Villemagne, V., Bourgeat, P., Salvado, O. & et al. Atrophy is related to b-amyloid deposition in the non-demented elderly but not in Alzheimer's disease. New England J. Medicine.

Crilly, J., Lind, J., O'Dwyer, M., O'Dwyer, J. & Melki, K. Linking ambulance, emergency department and hospital admission records to examine patient and health service delivery outcomes when opening an additional emergency department: a before and after study [abstract]. 7th International Conference for Emergency Nursing.

Dowling, J. Current and future prospects for optoelectronic retinal prostheses. Eye, 23,1999-2005.

Dowling, J., Bourgeat, P., Fripp, J., Neubert, A., Greer, P., Patterson, J., Denham, J., Gupta, S., Tang, C., Stanwell, P., Ourselin, S. & Salvado, O. Automatic correction of MRI inter-packet non-rigid motion artifacts. J. Magnet. Reson. Med.

Dowling, J., Bourgeat, P., Raffelt, D., Greer, P., Patterson, J., Denham, J., Gupta, S., Tang, C., Stanwell, P., Ourselin, S. & Salvado, O. Nonrigid correction of interleaving artefacts in pelvic MRI. In: PLUIM, J. P. & DAWANT, B. M. (eds.) Medical Imaging 2009.SPIE.

Dowling, J., Fripp, J., Greer, P., Ourselin, S. & Salvado, O. Automatic atlas-based segmentation of the prostate: a MICCAI 2009 Prostate Segmentation Challenge entry. MICCAI 2009 Prostate Segmentation Challenge Workshop.

Dowling, J., Neubert, A., Fripp, J., Bourgeat, P. & Salvado, O. Atlas-based, automatic segmentation of the pelvis for prostate radiotherapy planning. RANZCR / AIR / FRO / ACPSEM Combined Scientific Meeting 2009.

Dowson, N., Fripp, J., Raffelt, D. & Salvado, O. Hashed non-local means for computing fractional anisotropy from noisy diffusion weighted images. 12th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2009).Springer.

Dowson, N. & Salvado, O. Hashed non-local means for rapid 3D filtering. IEEE Trans. Pattern Anal. Mach. Intell.

Edwards, D., Hansen, D. & Stanjich, J. E. DNA sequence databases. In: EDWARDS, D., STANJICH, J. & HANSEN, D. (eds.) Bioinformatics: Tools and Applications.Springer.

Edwards, D., Stanjich, J. & Hansen, D. Bioinformatics: Tools and Applications. Bioinformatics: Tools and Applications.Springer.

Engstrom, C., Fripp, J., Jurcak, V., Walker, D., Salvado, O. & Crozier, S. Segmentation of the Quadratus lumborum muscle. IEEE Trans. Biomed. Engin.

Fripp, J., Bourgeat, P., Engstrom, C., Ourselin, S., Crozier, S. & Salvado, O. Automated segmentation of the menisci from MR images. 6th IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2009).IEEE.

Fripp, J., Bourgeat, P., Raniga, P., Acosta, O. & Salvado, O. MR-less approach for the analysis of 11C PiB PET images: population of elderly, mildly cognitive impaired and Alzheimer disease subjects. Neuroimage.

Fripp, J., Salvado, O., Engstrom, C., Crozier, S., Jurcak, V. & Walker, D. Segmentation of the quadratus lumborum muscle using statistical shape modeling. J. MRI.

Fripp, J., Villemagne, V., Bourgeat, P., Raniga, P., Acosta, O., Salvado, O. & et al. Characterizing 11C PiB PET images [abstract]. International Conference on Alzheimer's Disease (ICAD 2009).

Hansen, D. P., Giermanski, M., Dujmovic, M., Passenger, J. & Lawley, M. J. Building SNOMED CT reference sets for use as interface terminologies. Health Informatics Conference (HIC 2009).

Hansen, D. P., Lawley, M. J., Allain, C. & Nguyen, A. Modeling cancer stage guidelines in an existing terminology. 26th International Conference on Quality in Health Care (ISQua 2009).

Hansen, D. P. & O'Keefe, C. M. Data privacy and patient consent. In: OZSU, M. T. & LIU, L. (eds.) Encyclopedia of Database Systems.Springer.

He, J., Zhang, Y., Huang, G. & Pang, C. High level complexity-based computation time model: enabling time efficient control-flow in data-intensive scientific workflow. Concurrency Computat.: Pract. Exper.

Hettel, T., Lawley, M. & Raymond, K. Towards model round-trip engineering: an abductive approach. Theory and Practice of Model Transformations : 2nd International Conference, ICMT 2009, Proceedings.Springer.

Je, J., Zhang, Y., Huan, G. & Pang, C. A Novel Time Computation Model based on Algorithm Complexity for Data Intensive Scientific Workflow Design and Scheduling. J ournal of Concurrency and Computation: PRACTICE AND EXPERIENCE. Volume 21 , Issue 16 (November 2009) (Core A journal). Journal of Concurrency and Computation, 21,2070-2083.

Karunanithi, M., Bidargaddi, N. & Sarela, A. Determination of 6-minute walk test using accelerometer-based ambulatory monitoring device for the assessment of patient's progress in cardiac rehabilitation. World Congress on Medical Physics and Biomedical Engineering (WC 2009).

Karunanithi, M. & Sarela, A. A home-based care model of cardiac rehabilitation using digital technology. In: YOGESAN, K. (ed.) ICMCC Digital Homecare Book.Springer.

Karunanithi, M. & Sarela, A. A home-based care model of cardiac rehabilitation using digital technology. World Congress on Medical Physics and Biomedical Engineering (WC 2009).

Khanna, S., Hansen, D., Sattar, A. & Bela, S. An efficient algorithm for solving dynamic complex DCOP problems. 8th International Conference on Autonomous Agents and Multiagent Systems (AAMAS 2009).ACM.

Khanna, S., Sattar, A., Hansen, D. & Bela, S. An Efficient Algorithm For Solving Dynamic Complex DCOP Problems. 2009 IEEE/WIC/ACM International Conference on Intelligent Agent Technology (IAT 2009).Milan, Italy: IEEE Computer Society.

Khanna, S., Sattar, A., Hansen, D. & Bela, S. An efficient algorithm for solving dynamic complex DCOP problems. 2009 IEEE/ACM International Conference on Intelligent Agent Technology (IAT 2009).

Lambert, J., Dowling, J. & Salvado, O. Investigation of bulk electron density planning and automatic bone segmentation on T2* MR images for MR-based prostate radiotherapy planning [abstract]. Engineering and Physical Sciences in Medicine and the Australian Biomedical Engineering Conference 2009 (EPSM ABEC 2009).

Locke, S. & Hansen, D. Time synchronization of multiple portable audio and video recorder files. IEEE Trans. Audio, Speech, Lang. Process.

Locke, S. E. & Hansen, D. P. Synchronisation of multiple portable audio and video recorders. InterSpeech 2009: 10th Annual Conference of the International Speech Communication Association.

Mattila, E., Korhonen, I., Salminem, J., Ahtinen, A., Koskinen, E. & Sarela, A. Empowering citizens for wellbeing and chronic disease management with wellness diary. IEEE Trans. Inform. Tech. in Med.

Mattila, J., Ding, H., Mattila, E. & Sarela, A. Mobile tools for home-based cardiac rehabilitation based on heart rate and movement activity analysis. 31st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (IEEE EMBC 2009).IEEE.

Md Sabri, A. & Dowson, N. Technical report on implementation of random walks image segmentation algorithm. CSIRO ICT Centre.

Nguyen, A., Dowling, J., Maeder, A. J., Nguyen, P. & Brunton, E. Characterizing image properties for digital mammograms. Australasian Workshop on Health Informatics and Knowledge Management (HIKM 2009).ACS/ACM.

Nguyen, A., Lawley, M. & Hansen, D. Automated metastasis stage classification for lung cancer patients using free text radiology reports. Artificial Intell. Medicine.

Nguyen, A., Lawley, M. & Hansen, D. Surgical pathology cancer case checklist reporting from free text reports [abstract]. Clinical Oncology Society of Australia 36th Annual Scientific Meeting (COSA ASM 2009).

Nguyen, A., Lawley, M., Hansen, D., Bowman, R., Clarke, B., Duhig, E. & Colquist, S. Surgical Pathology Cancer Case Checklist Reporting from Free Text Reports. Clinical Oncological Society of Australia (COSA) Annual Scientific Meeting.Gold Coast: Wiley-Blackwell.

Nguyen, A., Lawley, M., Hansen, D. & Colquist, S. A Simple Pipeline Application for Identifying and Negating SNOMED Clinical Terminology in Free Text. Health informatics Conference.Canberra

Canberra, Australia: HISA Ltd.

Nguyen, A., Lawley, M., Hansen, D., Colquist, S. & Bowman, R. Cancer synoptic reporting and staging from free text surgical pathology reports. J. Amer. Med. Informatics Assoc.

Nguyen, A. N., Lawley, M. J. & Hansen, D. P. Automated metastasis stage classification for lung cancer patients using free text radiology reports. American Medical Informatics Association Annual Symposium (AMIA 2009).

O'Dwyer, J., Harrap, T., Armstrong, S., Stanbridge, C. & Ryan-Brown, J. Creating a patient master list [poster]. 20th Australian Software Engineering Conference (ASWEC 2009).IEEE.

O'Dwyer, M., O'Dwyer, J. & Melki, K. Applied data linkage: from dirty data to clean complete patient records in emergency healthcare. Health Informatics Conference (HIC 2009).

Pang, C. Minimal common container of tree patterns. 18th ACM Conference on Information and Knowledge Management (CIKM 2009).ACM.

Pang, C., Gu, L., Hansen, D. P. & Maeder, A. J. Privacy-preserving fuzzy matching using a public reference table. In: MCCLEAN, S. (ed.) Intelligent Patient Management.Springer.

Pang, C., Zhang, Q., Hansen, D. P. & Maeder, A. J. Unrestricted wavelet synopses under maximum error bound. 12th International Conference on Extending Database Technology (EDBT 2009).ACM.

Passenger, J. D., Conlan, D., Hellier, D., Russ, C., Bauer, S., de Visser, H. & Salvado, O. Development of a realistic, patient free colonoscopy training environment using patient data [abstract]. 26th International Conference of the International Society for Quality in Healthcare (ISQua 2009).

Passsenger, J., Conlan, D., de Visser, H., Cheng, M., Hellier, D., Borda, J., Russ, C., Taylor, J. & Salvado, O. Harnessing the GPU for surgical training and preoperative planning [abstract]. NVIDIA GPU Developers Summit.

Raffelt, D., Tournier, D., Fripp, J., Lepore, S., Crozier, S., Connelly, A. & Salvado, O. Non-rigid registration of diffusion weighted images using fibre orientation distributions. International Society for Magnetic Resonance in Medicine 17th Scientific Meeting & Exhibition (ISMRM 2009).

Raffelt, D., Tournier, J.-D., Fripp, J., Crozier, S., Connelly, A. & Salvado, O. Non-linear spatial normalization of high angular resolution diffusion imaging data using fiber orientation distributions. 12th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2009).Springer.

Raniga, P., Bourgeat, P., Fripp, J., Acosta, O., Ourselin, S., Rowe, C., Villemagne, V. L. & Salvado, O. Alzheimer's disease detection using 11C-PiB with improved partial volume effect correction. In: HU, X. P. & CLOUGH, A. V. (eds.) Medical Imaging 2009 : Biomedical Applications in Molecular, Structural, and Functional Imaging.SPIE.

Raniga, P., Fripp, J., Acosta, O., Bourgeat, P., Ourselin, S., Villemagne, V. L., Masters, C. L., Ames, D., Rowe, C. & Salvado, O. Effects of partial volume correction on the analysis of 11C-PiB PET in assessing Alzheimer's disease. J. Nucl. Med.

Raniga, P., Fripp, J., Acosta, O., Bourgeat, P., Ourselin, S., Villemagne, V. L., Masters, C. L., Ames, D., Rowe, C. C. & Salvado, O. Correlation between white matter hyperintensities in MRI-FLAIR and 11C-PiB PET retention: results from AIBL. Academic Radiology.

Raniga, P., Villemagne, V. L., Fripp, J., Bourgeat, P., Acosta, O., Szoeke, C., Ourselin, S., Ames, D., Ellis, K. A., Masters, C. L., Salvado, O. & Rowe, C. C. Correlation between white matter hyperintensities in MRI-FLAIR and 11C-PiB PET retention: a new potential for early identification of disease [abstract]. International Conference on Alzheimer's Disease (ICAD 2009).

Reichl, T., Passenger, J., Acosta, O. & Salvado, O. Ultrasound goes GPU: real-time simulation using CUDA. In: MIGA, M. I. & WONG, K. H. (eds.) Medical Imaging 2009 : Visualization, Image-Guided procedures, and Modeling.SPIE.

Reichl, T., Passenger, J., Acosta, O. & Salvado, O. Echtzeit-Ultraschallsimulation auf Grafik-Prozessoren mit CUDA. Bildverarbeitung f??r die Medizin 2009 : Algorithmen-Systeme-Andwendungen (BVM 2009).Springer.

Rueda, A., Acosta, O., Bourgeat, P., Fripp, J., Bonner, E., Dowson, N., Couprie, M., Romero, E. & Salvado, O. Partial volume estimation of brain cortex from MRI using topology-corrected segmentation. 6th IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2009).IEEE.

Rueda, A., Acosta, O., Couprie, M., Bourgeat, P., Fripp, J., Romero, E. & Salvado, O. Topology-corrected segmentation and local intensity estimates for improved partial volume classification of brain cortex in MRI. J. Neuroscience Methods.

Salvado, O. Removal of out-of-plane fluorescence for single cell visualization and quantification in cryo-imaging. Annals of biomedical engineering, 37,1613-1628.

Sarela, A. A home-based care model for outpatient cardiac rehabilitation based on mobile technologies. 3rd International Conference on Pervasive Computing Technologies for Healthcare 2009 (Pervasive Health 2009).IEEE.

Sarela, A., Din, H., Beetham, J., Gibson, M., Karunanithi, M. & et al. A mobile phone-based cardiac rehabilitation program [abstract]. International Conference on Successes and Failures in Telehealth.

Sarela, A., Ding, H., Gibson, M., Beetham, J., Karunanithi, M., Walters, D. & Fairfull, A. Physiological measurements and health observations through mobile phones and web services in a home-based cardiac rehabilitation model [abstract]. 4th e-Health and Telemedicine (eHT) Workshop.

Sarela, A., Whittaker, F. & Korhonen, I. Service and business model for technology enabled and home-based cardiac rehabilitation programs. 31st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (IEEE EMBC 2009).IEEE.

Shen, K., Bourgeat, P., Fripp, J., Meriaudeau, F., Ames, D., Ellis, K. A., Masters, C. L., Villemagne, V. L., Rowe, C. C. & Salvado, O. Supervised method to build an atlas database for multi-atlas segmentation-propagation. CSIRO ICT Centre.

Shen, K., Bourgeat, P., Fripp, J., Meriaudeau, F., Ames, D., Ellis, K. A., Masters, C. L., Villemagne, V. L., Rowe, C. C. & Salvado, O. Supervised method to build an atlas database for multi-atlas segmentation-propagation. 12th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2009).Springer.

Stanbridge, C. Triage techniques for defect classification [abstract]. ANZTB Test 2009 Conference.

Stanbridge, C. & Ryan-Brown, J. Introducing combinatorial methods for automating the generation of test suites. Aust. J. Elec. Electron. Engin., 6,69-80.

Stanbridge, C., Ryan-Brown, J. & McBride, S. Do pure agile development practices make system testing superfluous? Aust. J. Electron. Elect. Engin.

Stanbridge, C., Ryan-Brown, J. & McBride, S. Do pure agile development practices make system testing superfluous? [ext. abstract]. 20th Australian Software Engineering Conference : ASWEC 2009 Conference Manual.IEEE.

Steyer, G., Roy, D., Salvado, O., Stone, M. E. H. & Wilson, D. L. Cryo-imaging of fluorescently labeled single cells in a mouse. In: HU, X. P. & CLOUGH, A. V. (eds.) Medical Imaging 2009 : Biomedical Applications in Molecular, Structural, and Functional Imaging.SPIE.

Taylor, Z. A., Comas, O., Cheng, M., Passenger, J., Hawkes, D. J., Atkinson, D. & Ourselin, S. On modelling of anisotropic viscoelasticity for soft tissue simulation: continuum formulation and GPU execution. Medical Image Analysis, 13,234-244.

Vickers, D. M. & Lawley, M. J. Mapping existing medical terminologies to SNOMED CT: an investigation of the non-expert user's experience. Health Informatics Conference (HIC 2009).

Walters, D., Sarela, A., Karunanithi, M. & et al. A mobile phone-based care model for outpatient cardiac rehabilitation: the care assessment platform (CAP). BMC Cardiovascular Disorders.

Wang, J., Yu, J. X., Pang, C. & Liu, C. Minimal Common Container of Tree Patterns. CIKM 2009 (The 18th ACM Conference on Information and Knowledge Management ).Hong Kong: ACM.

Wimberley, C., Xiao, D., Zahra, D., Shepherd, R., Berghofer, P., Millard, E., Salvado, O. & Gregoire, M.-C. Predicting tumour location when imaging early growth phase with PET/CT [abstract]. 2009 World Molecular Imaging Congress (WMIC 2009).

Xiao, D., Bourgeat, P., Acosta, O., Berghofer, P., Fripp, J., Gregoire, M. C. & Salvado, O. Hybrid non-rigid registration method for registering rat skeletons from micro-CT images. J. Nucl. Med, 50,282P.

Xiao, D., Bourgeat, P., Fripp, J., Acosta, O., Gregoire, M. C. & Salvado, O. Non-rigid registration of small animal skeletons from micro-CT using 3D shape context. In: PLUIM, J. P. & DAWANT, B. M. (eds.) Medical Imaging 2009 : Image Processing.SPIE.

Xiao, D., Bourgeat, P., Zahra, D., Fripp, J., Acosta, O., Berghofer, P., Gregoire, M. C. & Salvado, O. An improved 3D shape context based non-rigid registration method and its application to small animal skeletons registration. 12th International Conference on Medical Image Computing and Computer Assisted Intervention (MICCAI 2009).Springer.

Xiao, D., Bourgeat, P., Zahra, D., Fripp, J., Acosta, O., Gregoire, M.-C. & Salvado, O. An improved 3D shape context based non-rigid registration method and its application to small animal skeletons registration. Comput. Med. Imag. Graphics.

Xiao, D., Ribic, J., Butzkueven, H., Fang, K., Kilpatrick, T. J., Egan, G. F. & Salvado, O. Method for optic nerve intensity characterization in mice from Mn2+ enhanced MRI images. In: SAMEJ, E. & HSIEH, J. (eds.) Medical Imaging 2009: Physics of Medical Imaging.SPIE.

Xiao, D., Zahra, D., Bourgeat, P., Berghofer, P., Acosta, O., Wimberley, C., Gregoire, M.-C. & Salvado, O. Mouse whole body skeleton non-rigid registration. 6th CSIRO ICT Centre Conference (ICTCC 2009) : Abstracts & Information.CSIRO ICT Centre.

Xiao, D., Zahra, D., Bourgeat, P., Berghofer, P., Acosta, O., Wimberley, C., Gregoire, M.-C. & Salvado, O. An improved 3D shape context non-rigid registration method for surface registration. 6th CSIRO ICT Centre Conference (ICTCC 2009) : Abstracts & Information.CSIRO ICT Centre.

Zhang, Q. Data sampling. In: ZSU, M. T. & LIU, L. (eds.) Encylopedia of Database Systems.Springer.

Zhang, Q. Histogram. In: ZSU, M. T. & LIU, L. (eds.) Encylopedia of Database Systems.Springer.

Zhang, Q., Pang, C. & Hansen, D. P. On multidimensional wavelet synopses for maximum error bounds. Database Systems for Advanced Applications : 14th International Conference, DASFAA 2009.Springer.

Zhang, Y., Pang, C., Zhang, Q. & He, J. Synchronized universal wavelet representations under error bound [ext. abstract]. 20th International Conference on Multiple Criteria Decision Making (MCDM 2009).

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