Shawn Chen

Programmer Analyst
  • Department of Radiological Sciences

Publications

2018
  1. Shiwen S, Smedley NF, Piedra EAR, Hsu W. Hybrid Hierarchical Model for Lung Cancer Prediction. International Symposium on Biomedical Imaging (ISBI). 2018.
  2. Garcia-Gathright JI, Matiasz NJ, Adame C, Sarma KV, Sauer L, Smedley NF, Spiegel ML, Strunck J, Garon EB, Taira RK, Aberle D, Bui AAT. Evaluating Casama: Contextualized semantic maps for summarization of lung cancer studies. Computers in Biology and Medicine. 2018;92. DOI: 10.1016/j.compbiomed.2017.10.034. PDF
  3. Matiasz NJ, Wood J, Doshi P, Beckemeyer B, Wang W, Hsu W, Silva AJ. ResearchMaps.org for integrating and planning research. PLOS One. 2018;13(5):e0195271. DOI: 10.1371/journal.pone.0195271. PDF
2017
  1. Matiasz NJ, Wood J, Wang W, Hsu W, Silva AJ. Translating literature into causal graphs: Toward automated experiment selection. Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM). Kansas City, MO; 2017. DOI: 10.1109/BIBM.2017.8217713.
  2. Matiasz NJ, Wood J, Wang W, Silva AJ, Hsu W. Computer-aided experiment planning toward causal discovery in neuroscience. Front Neuroinform. 2017 Feb;11(12). DOI: 10.3389/fninf.2017.00012. PDF
  3. Speier W, Chandravadia N, Roberts D, Pendekanti S, Pouratian N. Online BCI Typing using Language Model Classifiers by ALS Patients in their Homes. Brain-Computer Interfaces. 2017;4:114–121.
  4. Chandravadia N, Speier W, Roberts D, Pendekanti S, Pouratian N. Evaluating the effect of stimulus paradigms on typing speed using the P300 speller in an online setting. UC BME Symposium. 2017.
  5. Mostafavi L, Hollada J, Speier W, Ruehm S. Patients’ Perceptions of Risks and Benefits of Cardiac Imaging. Annual Congress of the European Congress of Radiology. 2017.
  6. Shen S, Han SX, Petousis P, Weiss RE, Meng F, Bui AAT, Hsu W. A Bayesian model for estimating multi-state disease progression. Comput Biol Med. 2017;81:1111–120. DOI: 10.1016/j.compbiomed.2016.12.011. PDF
  7. Ho K, Speier W, El-Saden S, Arnold C. Classifying Acute Ischemic Stroke Onset Time using Deep Imaging Features. AMIA Annu Symp Proc. 2017.
  8. Speier W, Deshpande A, Cui L, Chandravadia N, Roberts D, Pouratian N. A comparison of stimulus types in online classification of the P300 speller using language models. Plos One. 2017;12(4):e0175382.
  9. Hollada J, Zide M, Speier W, Roter E. Readability assessment of PCORI public abstracts in relation to accessibility. Epidemiology. 2017;28(4):e37–e38.
  10. Piedra EAR, Ellingson B, Cloughesy T, Taira RK, El-Saden S, Bui AAT, Hsu W. Hybrid Hierarchical Model for Lung Cancer Prediction. International Symposium on Biomedical Imaging (ISBI). 2017.
  11. Piedra EAR, Ellingson B, El-Saden S, Taira RK, Bui AAT, Hsu W. Brain Tumor Segmentation by Variability Characterization of Tumor Boundaries. International Workshop on Brainlesion: Glioma, Multiple Sclerosis, Stroke and Traumatic Brain Injuries. 2017;:206–216.
  12. Roberts D, Speier W, Chandravadia N, Pendekanti S, Pouratian N. Optimizing EEG Electrode Configuration in a P300 Speller Brain-Computer Interface: a step toward Clinical Implementation. UC BME Symposium. 2017.
  13. Piedra EAR, Ellingson B, El-Saden S, Taira RK, Bui AAT, Hsu W. Measuring Tumor Boundary Variability to Improve Automated Segmentation of Brain Tumors Using Multimodal MRI. Poster presented at International Society for Magnetic Resonance in Medicine (ISMRM). 2017.
  14. Piedra EAR, Orosz I, Zide M, El-Saden S, Taira RK, Bui AAT, Hsu W. A Usability Study to Evaluate the Impact of a Novel Automated Brain Tumor Assessment Application. Poster presented at American Medical Informatics Association. 2017.
2016
  1. Ho KC, Scalzo F, Sarma KV, El-Saden S, Arnold CW. A Temporal Deep Learning Approach for MR Perfusion Parameter Estimation in Stroke. 23rd International Conference on Pattern Recognition. Cancun; 2016.
  2. Young S, Lo P, Hoffman J, Kim H, Hsu W, Flores C, Lee G, Brown M, McNitt-Gray M. CAD performance on a large cohort of National Lung Screening Trial patients at screening and sub-screening doses. 2016 Annual Meeting of the Radiological Society of North America. Chicago, IL; 2016.
  3. Piedra EAR, Taira RK, El-Saden S, Ellingson BM, Bui AAT, Hsu W. GlioView: An application that visualizes variability in brain tumor segmentation to inform the clinical assessment of change. 2016 Annual Meeting of the Radiological Society of North America. Chicago, IL; 2016.
  4. Sarma KV, Zhong X, Ho KC, Margolis DJA, Raman S, Scalzo F, Sung KH, Tan N, Arnold C. An Investigational Patch-based Convolutional Neural Network Model for the Detection of Clinically Significant Prostate Cancer using Multiparametric MRI. 2016 Annual Meeting of the Radiological Society of North America. Chicago, IL; 2016.
  5. Ho KC, Scalzo F, Sarma KV, El-Saden S, Bui AAT, Arnold CW. A Novel Bi-Input Convolutional Neural Network for Deconvolution-Free Estimation of Stroke MR Perfusion Parameters. 2016 Annual Meeting of the Radiological Society of North America. Chicago, IL; 2016.
  6. Matiasz NJ, Wood J, Hsu W, Silva AJ. ResearchMaps.org: A free web app for integrating and planning experiments. Proceedings of the 15th Annual Molecular and Cellular Cognition Society (MCCS) Symposium. San Diego; 2016. PDF
  7. Matiasz NJ, Chen W-T, Silva AJ, Hsu W. MedicineMaps: A tool for mapping and linking evidence from experimental and clinical trial literature. AMIA Annu Symp Proc. Chicago, IL; 2016. PDF
  8. Sarma KV, Zhong X, Ho KC, Margolis DJA, Raman S, Scalzo F, Sung KH, Tan N, Arnold CW. Development of a Deep Learning Model for the Detection of Prostate Cancer using MRI. Gordon Research Conference in Advanced Health Informatics. Hong Kong; 2016.
  9. Wibulpolprasert P, Raman SS, Khoshnoodi P, Yu W, Hsu W, Tan N, Huang J, Lu D, Margolis DJ, Reiter R. MP53-05 Performance of 3T multiparameteric MRI in diagnosis of prostate cancer in comparison with whole mount histopathology: A 5 year experience. Urology [Internet]. 2016;195(4):e698. Retrieved from: http://www.jurology.com/article/S0022-5347(16)00790-4/abstract DOI: http://dx.doi.org/10.1016/j.juro.2016.02.502.
  10. Piedra EAR, Taira RK, El-Saden S, Ellingson B, Bui AAT, Hsu W. Assessing Variability in Brain Tumor Segmentation to Improve Volumetric Accuracy and Characterization of Change. 39th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (IEEE-EMBS). 2016. p. 380–383.
  11. Jann K, Smith R, Piedra EAR, Dapretto M, Wang D. Noise reduction in Arterial Spin Labeling based Functional Connectivity Using Nuisance Variables. Frontiers in Neuroscience (Advanced Neuroimaging Methods for Studying Autism Disorder). 2016;:371.
  12. Piedra EAR, Ho KC, Taira RK, El-Saden S, Ellingson B, Bui AAT, Hsu W. Glioblastoma Multiforme Segmentation by Variability Characterization of Tumor Boundaries. Medical Image Computing and Computer Assisted Intervention Society (MICCAI), MICCAI-BRATS Conference Workshop. 2016.
  13. Speier W, Arnold C, Pouratian N. Integrating language models into classifiers for BCI communication: a review. Journal of Neural Engineering. 2016;12:031002.
  14. Speier W, Chandravadia N, Pouratian N. Online BCI Typing using Language Models by ALS Patients in their Homes. International Brain-Computer Interface (BCI) Meeting. 2016.
  15. Speier W, Ong M, Arnold C. Using phrases and document metadata to improve topic modeling of clinical reports. Journal of Biomedical Informatics. 2016;61:260–266.
  16. Panigrahi B, Hollada J, Speier W, Harvey S. Innovations in decreasing recall rates for screening mammography. SBI/ACR Breat Imaging Symposium. 2016.
  17. Ho KC, El-Saden S, Scalzo F, Bui AAT, Arnold CW. Abstract WP41: Predicting Acute Ischemic Stroke Tissue Fate Using Deep Learning on Source Perfusion MRI. Stroke. 2016;47.
  18. Piedra EAR, Taira RK, El-Saden S, Ellingson B, Bui AAT, Hsu W. GlioView: An Application to Visualize Variability in Brain Tumor Segmentation to Inform the Clinical Assessment of Change. Applied science presentation at Radiological Society of North America (RSNA). 2016.
  19. Petousis P, Han SX, Aberle D, Bui AAT. Prediction of lung cancer incidence on the low-dose computed tomography arm of the National Lung Screening Trial: A dynamic Bayesian network . Artificial Intelligence in Medicine [Internet]. 2016;72:42–55. Retrieved from: http://www.sciencedirect.com/science/article/pii/S0933365716301063 DOI: http://dx.doi.org/10.1016/j.artmed.2016.07.001. PDF
  20. Hsu W, El-Saden S, Taira RK. Medical Imaging Informatics. In: Shen B, Tang H, Jiang X, editors. Translational Biomedical Informatics: A Precision Medicine Perspective. Singapore: Springer; 2016.
  21. Shen S, Zhong X, Hsu W, Bui AAT, Wu H, Kuo M, Raman S, Margolis DJA, Sung KH. Quantitative MRI-Driven Deep Learning for Detection of Clinical Significant Prostate Cancer. 24th Intl Soc Magnetic Resonance in Medicine (ISMRM) Annual Meeting. Singapore; 2016.
  22. Piedra EAR, Taira RK, El-Saden S, Ellingson BM, Bui AAT, Hsu W. Assessing variability in brain tumor segmentation to improve volumetric accuracy and characterization of change. Biomedical and Health Informatics (BHI), 2016 IEEE-EMBS. Chicago, IL; 2016. DOI: http://dx.doi.org/10.1109/BHI.2016.7455914.
  23. Zaghi S, Alonso J, Orestes M, Kadin N, Hsu W, Berke G. Idiopathic subglottic stenosis: A comparison of tracheal size. Ann Otol Rhinol Laryngol [Internet]. 2016;125(8):622–6. Retrieved from: http://www.jurology.com/article/S0022-5347(16)00790-4/abstract DOI: http://dx.doi.org/10.1016/j.juro.2016.02.502.
  24. Alaa A, Moon K, Hsu W, Schaar M van der. ConfidentCare: A clinical decision support system for personalized breast cancer screening. IEEE Transactions on Multimedia [Internet]. 2016;18(10):1942–55. Retrieved from: http://www.jurology.com/article/S0022-5347(16)00790-4/abstract DOI: http://dx.doi.org/10.1016/j.juro.2016.02.502.
2015
  1. Matiasz NJ, Silva AJ, Hsu W. Synthesizing clinical trials for evidence-based medicine: A representation of empirical and hypothetical causal relations. Proceedings of the 6th Annual Joint Summits on Translational Science: AMIA Summit on Clinical Research Informatics. San Francisco; 2015. PDF
  2. Hsu W, Han SX, Arnold CW, Bui AAT, Enzmann DR. A data-driven approach for quality assessment of radiologic interpretations. J Am Med Inform Assoc. 2015; DOI: 10.1093/jamia/ocv161.
  3. Garcia-Gathright JI, Oh A, Abarca PA, Han M, Sago W, Spiegel ML, Wolf B, Garon EB, Bui AAT, Aberle DR. Representing and extracting lung cancer study metadata: Study objective and study design. Comput Biol Med. 2015;58:63–72. DOI: 10.1016/j.compbiomed.2015.01.004. PDF
  4. Arnold CW, Wallace DW, Chen S, Oh A, Abtin F, Genshaft SJ, Binder S, Aberle DR, Enzmann DR. RadPath: A Web-based system for integrating and correlating radiology and pathology findings during cancer diagnosis. Acad Radiol. 2015;In press. DOI: 10.1016/j.acra.2015.09.009. PDF
  5. Oh A, Arnold CW, Vangala S, Wallace DW, Genshaft SJ, Sarma KV, Aberle DR. Imaging-histologic discordance at percutaneous biopsy of the lung. Acad Radiol. 2015;22:481–7. DOI: 10.1016/j.acra.2014.11.009. PDF
  6. Laviana AA, Ilg AM, Veruttipong D, Tan H-J, Burke MA, Niedzwiecki DR, Kupelian PA, King CR, Steinberg ML, Kundavaram CR, Kamrava M, Kaplan AL, Moriarity AK, Hsu W, Margolis DJA, Hu JC, Saigal CS. Utilizing time-driven activity-based costing to understand the short- and long-term costs of treating localized, low-risk prostate cancer. Cancer. 2015;In press. DOI: 10.1002/cncr.29743. PDF
  7. Abtin F, Suh RD, Nasehi L, Han SX, Hsu W, Quirk M, Genshaft SJ, Gutierrez AJ, Cameron RB. Percutaneous cryoablation for the treatment of recurrent thymoma: Preliminary safety and efficacy. J Vasc Interv Radiol. 2015;26:709–14. DOI: 10.1016/j.jvir.2014.12.024. PDF
  8. Song L, Hsu W, Xu J, Schaar M van der. Using contextual learning to improve diagnostic accuracy: Application in breast cancer screening. IEEE J Biomed Health Inform. 2015; DOI: 10.1109/JBHI.2015.2414934. PDF
  9. Shen S, Bui AAT, Cong J, Hsu W. An automated lung segmentation approach using bidirectional chain codes to improve nodule detection accuracy. Comput Biol Med. 2015;57:139–49. DOI: 10.1016/j.compbiomed.2014.12.008. PDF
  10. Duggan N, Bae E, Shen S, Hsu W, Bui AAT, Jones E, Glavin M, Vese L. A technique for lung nodule candidate detection in CT using global minimization methods. Energy Minimization Methods in Computer Vision and Pattern Recognition. Springer International Publishing; 2015. PDF
  11. Speier W, Arnold CW, Deshpande A, Knall J, Pouratian N. Incorporating advanced language models into the P300 speller using particle filtering. Journal of Neural Engineering. 2015;12:046018. PDF
  12. Speier W, Deshpande A, Pouratian N. A method for optimizing EEG electrode number and configuration for signal acquisition in P300 speller systems. Clin Neurophysiol. 2015;126:1171–7. DOI: 10.1016/j.clinph.2014.09.021. PDF
  13. Hollada J, Mostafavi L, Speier W, Javidi S, Ruehm S. Cardiac Imaging Exams: Patient Awareness of Associated Utilization of Radiation. RSNA Annual Meeting. 2015.
  14. Hollada J, Speier W, Oshiro T, Marzan-McGill R, Ruehm S, Bassett L, Wells C. Patients’ Perceptions of Radiation Exposure Associated with Mammography. American Journal of Roentgenology. 2015;205:215–221.
  15. Mostafavi L, Marfori W, Arellano C, Tognolini A, Speier W, Adibi A, Ruehm S. Prevalence of Coronary Artery Disease Evluated by Coronary CT Angiography in Women with Mammographically Detected Breast Arterial Calcifications. Plos One. 2015;10(4):e0122289.
  16. McNamara M, Arnold CW, Sarma KV, Aberle DR, Garon EB, Bui AAT. Patient portal preferences: Perspectives on imaging information. J Assoc Inf Sci Technol. 2015;66:1606–15. DOI: 10.1002/asi.23269. PDF
  17. Arnold CW, Oh A, Chen S, Speier W. Evaluating topic model interpretability from a primary care physician perspective. Computer Methods and Programs in Biomedicine. 2015;In press. DOI: 10.1016/j.cmpb.2015.10.014. PDF
  18. Smedley NF, Chau N, Petruse A, Bui AAT, Naeim A, Hsu W. A platform for generating and validating breast risk models from clinical data: Towards patient-centered risk stratified screening. AMIA Annu Symp Proc. San Francisco, CA, USA; 2015.
  19. Shen S, Han SX, Petousis P, Meng F, Bui AAT, Hsu W. Continuous Markov Model Approach Using Individual Patient Data to Estimate Mean Sojourn Time of Lung Cancer. AMIA Annu Symp Proc. San Francisco, CA, USA; 2015.
2014
  1. Matiasz NJ, Hsu W, Silva AJ. ResearchMaps.org, a free web application to track causal information in biology. Proceedings of the 13th Annual Molecular and Cellular Cognition Society (MCCS) Symposium. Washington, D.C.; 2014. PDF
  2. Hollada J, Marfori W, Tognolini A, Speier W, Ristow L, Ruehm SG. Successful patient recruitment in CT imaging clinical trials: What factors influence patient participation? Acad Radiol. 2014;21:52–7. DOI: 10.1016/j.acra.2013.09.016. PDF
  3. Malekmohammaki M, Speier W, Pouratian N. Pallidal-Cortical Beta Coherence is Activity-modulated by not Causally related in PD. ASSFN Biennial Meeting. 2014.
  4. Han SX, Hsu W, Arnold CW, Margolis DJA, Bui AAT, Enzmann DR. RadQA: Automated quality control of radiological interpretations in prostate cancer. RSNA Annual Meeting. Chicago, IL; 2014.
  5. Ho KC, Speier W, El-Saden S, Liebeskind DS, Saver JL, Bui AAT, Arnold CW. Predicting discharge mortality after acute ischemic stroke using balanced data. AMIA Annu Symp Proc. 2014. p. 1787–96. PDF
  6. Singleton KW, Speier W, Bui AAT, Hsu W. Motivating the additional use of external validity: Examining transportability in a model of glioblastoma multiforme. AMIA Annu Symp Proc. 2014. p. 1930–9. PDF
  7. Singleton KW, Bui AAT, Hsu W. Transfer and transport: Incorporating causal methods for improving predictive models. J Am Med Inform Assoc. 2014;21:e374–5. DOI: 10.1136/amiajnl-2014-002968. PDF
  8. Speier W, Arnold CW, Lu J, Deshpande A, Pouratian N. Integrating language information with a hidden Markov model to improve communication rate in the P300 speller. IEEE Trans Neural Syst Rehabil Eng. 2014;22:678–84. DOI: 10.1109/TNSRE.2014.2300091. PDF
  9. McNamara M, Sarma KV, Aberle DR, Bui AAT, Arnold CW. Data model for personalized patient health guidelines: An exploratory study. AMIA Annu Symp Proc. 2014. p. 1835–44. PDF
  10. Ho KC, Speier W, El-Saden S, Liebeskind DS, Saver JL, Bui AAT, Arnold CW. Predicting discharge mortality in acute ischemic stroke patients using support vector machines and affinity propagation. MUCMD. 2014.
2013
  1. Speier W, Knall J, Pouratian N. Unsupervised training of brain-computer interface systems using expectation maximization. Neural Engineering (NER) 2013 6th International IEEE/EMBS Conference. 2013. DOI: 10.1109/NER.2013.6696032. PDF
  2. Love A, Arnold CW, El-Saden S, Liebeskind DS, Andrada LP, Saver JL, Bui AAT. Unifying acute stroke treatment guidelines for a Bayesian belief network. Stud Health Technol Inform. 2013;192:1012. PDF
  3. Speier W, Arnold CW, Pouratian N. Evaluating true BCI communication rate through mutual information and language models. PLoS One. 2013;8:e78432. DOI: 10.1371/journal.pone.0078432. PDF
  4. Lu J, Speier W, Hu X, Pouratian N. The effects of stimulus timing features on P300 speller performance. Clin Neurophysiol. 2013;124:306–14. DOI: 10.1016/j.clinph.2012.08.002. PDF
  5. Chen S, Arnold CW. Integrating UIMA annotators in a web-based text processing framework. Stud Health Technol Inform. 2013;192:1191. PDF
  6. Han SX, Nasehi L, Abtin F, Hsu W. An observational database on thymoma patients for studying cryoablation outcomes. 4th International Thymic Malignancy Interest Group Annual Meeting. 2013.
  7. Abtin F, Sandberg JK, Suh RD, Hsu W, Sayre JW, Cameron RB. Percutaneous cryoablation in management of recurrent mesothelioma after surgical pleurectomy and decortication: Efficacy and predictors of local recurrence. RSNA Annual Meeting. 2013.
  8. McNamara M, Arnold CW, Sarma KV, Aberle DR, Bui AAT. Patient portal for NSCLC with supporting health information. RSNA Annual Meeting. Chicago, IL; 2013.
  9. Arnold CW, McNamara M, El-Saden S, Chen S, Taira RK, Bui AAT. Imaging informatics for consumer health: Towards a radiology patient portal. J Am Med Inform Assoc. 2013;20:1028–36. DOI: 10.1136/amiajnl-2012-001457. PDF
  10. Speier W, Fried I, Pouratian N. Improved P300 speller performance using electrocorticography, spectral features, and natural language processing. Clinical Neurophysiology. 2013;124:1321\textendash1328. DOI: 10.1016/j.clinph.2013.02.002. PDF
  11. Arnold CW, Wallace DW, Abtin F, Ellingson BM, Bui AAT, Binder S, Aberle DR, Enzmann DR. RadPath: An electronic platform for integrating radiology and pathology findings during cancer diagnosis. RSNA Annual Meeting. 2013.
  12. Bui AAT, Hsu W, Arnold CW, El-Saden S, Aberle DR, Taira RK. Imaging-based observational databases for clinical problem solving: The role of informatics. J Am Med Inform Assoc. 2013;20:1053–8. DOI: 10.1136/amiajnl-2012-001340. PDF
2012
  1. Hsu W, Taira RK, El-Saden S, Kangarloo H, Bui AAT. Context-based electronic health record: toward patient specific healthcare. Information Technology in Biomedicine, IEEE Transactions on. 2012;16:228\textendash234. DOI: 10.1109/TITB.2012.2186149. PDF
  2. Suh M-kyung, Moin T, Woodbridge J, Lan M, Ghasemzadeh H, Bui AAT, Ahmadi S, Sarrafzadeh M. Dynamic self-adaptive remote health monitoring system for diabetics. Engineering in Medicine and Biology Society (EMBC), 2012 Annual International Conference of the IEEE. San Diego, CA: IEEE; 2012. DOI: 10.1109/EMBC.2012.6346404. PDF
  3. Suh M-kyung, Nahapetian A, Woodbridge J, Rofouei M, Sarrafzadeh M. Machine learning-based adaptive wireless interval training guidance system. Mobile Networks and Applications. 2012;17:163\textendash177. DOI: 10.1007/s11036-011-0331-5. PDF
  4. Woodbridge J, Mortazavi B, Sarrafzadeh M, Bui AAT. A Monte Carlo approach to biomedicai time series search. Bioinformatics and Biomedicine (BIBM), 2012 IEEE International Conference on. Philadelphia, PA: IEEE; 2012. DOI: 10.1109/BIBM.2012.6392646. PDF
  5. Woodbridge J, Mortazavi B, Bui AAT, Sarrafzadeh M. High performance biomedical time series indexes using salient segmentation. Engineering in Medicine and Biology Society (EMBC), 2012 Annual International Conference of the IEEE. San Diego, CA: IEEE; 2012. DOI: 10.1109/EMBC.2012.6347137. PDF
  6. Speier W, Arnold CW, Lu J, Taira RK, Pouratian N. Using natural language processing methods to improve EEG classification in brain-computer interfaces. NLM Informatics Training Conference. 2012.
  7. Speier W, Fried I, Pouratian N. Improving P300 speller classification using electrocorticography. AANS Annual Scientific Meeting. 2012.
  8. Speier W, Ochs MF. Updating annotations with the distributed annotation system and the automated sequence annotation pipeline. Bioinformatics. 2012;28:2858–9. DOI: 10.1093/bioinformatics/bts530. PDF
  9. Speier W, Arnold CW, Lu J, Taira RK, Pouratian N. Natural language processing with dynamic classification improves P300 speller accuracy and bit rate. Journal of Neural Engineering. 2012;9:016004. DOI: 10.1088/1741-2560/9/1/016004. PDF
  10. Hsu W, Speier W, Taira RK. Automated extraction of reported statistical analyses: towards a logical representation of clinical trial literature. AMIA Annu Symp Proc. 2012. p. 350–9. PDF
  11. Singleton KW, Hsu W, Bui AAT. Comparing predictive models of glioblastoma multiforme built using multi-institutional and local data sources. AMIA Annu Symp Proc. 2012. p. 1385–92. PDF
  12. Arnold CW, Speier W. A topic model of clinical reports. Proc ACM SIGIR Conf Research and Development in Information Retrieval. 2012. p. 1031–1032. PDF
  13. McNamara M, Arnold CW, Chen S, El-Saden S, Taira RK, Bui AAT. Patient portal for neuro-radiology with consumer oriented terminology. National Library of Medicine Informatics Fellowship Conference. 2012.
2011
  1. Speier W, Arnold CW, Hsu W, Bui AAT. Content-based image retrieval using feature density estimates. AMIA Annu Symp Proc. Washington DC; 2011. PDF
  2. Arnold CW, Bui AAT, El-Saden S, Aberle DR, Taira RK. Image and report indexing through automated topic discovery. RSNA Annual Meeting. 2011.
  3. Speier W, Iglesias JE, El-Kara L, Tu Z, Arnold CW. Robust skull stripping of clinical glioblastoma multiforme data. Med Image Comput Comput Assist Interv. 2011;14:659–66. PDF
  4. Favorov A, Lvovs D, Speier W, Parmigiani G, Ochs M. OnionTree XML: A Format to Exchange Gene-Related probabilities. J Biomol Struct Dyn. 2011;29(2):417–423.
  5. Prasad G, Jahanshad N, Aganj I, Lenglet C, Sapiro G, Toga AW, Thompson P. Atlas-based fiber clustering for multi-subject analysis of high angular resolution diffusion imaging tractography. Symp Biomed Imaging 2011 IEEE International Conference. 2011. p. 276–280. DOI: 10.1109/ISBI.2011.5872405. PDF
  6. Cong J, Sarkar V, Reinman G, Bui AAT. Customizable domain-specific computing. IEEE Design & Test of Computers. 2011;28:6–15. DOI: 10.1109/MDT.2010.141. PDF
  7. Suh M-kyung, Chen CA, Woodbridge J, Tu MK, Kim JI, Nahapetian A, Evangelista LS, Sarrafzadeh M. A remote patient monitoring system for congestive heart failure. J Med Syst. 2011;35:1165–79. DOI: 10.1007/s10916-011-9733-y. PDF
  8. Watt E, Sayre JW, Bui AAT. Applying an instance-specific model to longitudinal clinical data for prediction. Healthcare Informatics, Imaging and Systems Biology (HISB) 2011 IEEE First International Conference. 2011. DOI: 10.1109/hisb.2011.12. PDF
  9. Woodbridge J, Lan M, Sarrafzadeh M, Bui AAT. Salient segmentation of medical time series signals. Healthcare Informatics, Imaging and Systems Biology (HISB), 2011 First IEEE International Conference. 2011. DOI: 10.1109/HISB.2011.41. PDF
  10. Arnold CW, Chen X, McNamara M, El-Saden S, Taira RK. A web-based patient radiology portal for result presentation and education. RSNA Annual Meeting. Chicago, IL; 2011.
  11. Suh M-kyung, Woodbridge J, Lan M, Bui AAT, Evangelista LS, Sarrafzadeh M. Missing data imputation for remote CHF patient monitoring systems. Engineering in Medicine and Biology Society (EMBC), 2011 Annual International Conference of the IEEE. Boston, MA; 2011. DOI: 10.1109/IEMBS.2011.6090867. PDF
  12. Jahanshad N, McMahon KL, Zubicaray GI de, Medland SE, Montgomery GW, Martin NG, Wright MJ, Toga AW, Thompson P. Blood-iron independent genetic associations of brain structure to serum transferrin levels: a bivariate MRI and DTI analysis of 615 twins and siblings. Organization for Human Brain Mapping. 2011. PDF
  13. Singleton KW, Lan M, Arnold CW, Vahidi M, Arangua L, Gelberg L, Bui AAT. Wireless data collection of self-administered surveys using tablet computers. AMIA Annu Symp Proc. 2011. p. 1261–9. PDF
  14. Hsu W, Sayre JW, Bui AAT, Taira RK. Modeling medical imaging and molecular biology correlates from literature. AMIA Annu Symp Proc. Washington DC; 2011. PDF
  15. Meng F, Morioka CA, El-Saden S. Determining word sequence variation patterns in clinical documents using multiple sequence alignment. AMIA Annu Symp Proc. 2011. p. 934–43. PDF
  16. Moazeni M, Bui AAT, Sarrafzadeh M. Dynamic programming on data-parallel many-core architectures. Symp Application Accelerators in High Performance Computing (SAAHPC). Knoxville, Tennessee; 2011.
2010
  1. Suh M-kyung, Lee KJ, Heu A, Nahapetian A, Sarrafzadeh M. Bayesian networks-based interval training guidance system for cancer rehabilitation. Mobile Computing, Applications, and Services. Springer; 2010. p. 236\textendash253.
  2. Arnold CW, El-Saden S, Bui AAT, Taira RK. Clinical case-based retrieval using latent topic analysis. AMIA Annu Symp Proc. 2010;2010:26–30.
  3. Iglesias JE, Dinov I, Singh J, Tong G, Tu Z. Synthetic MRI signal standardization: application to multi-atlas analysis. Med Image Comput Comput Assist Interv. 2010;13:81–8.
  4. Suh M-kyung, Evangelista LS, Chen CA, Han K, Kang J, Tu MK, Chen V, Nahapetian A, Sarrafzadeh M. An automated vital sign monitoring system for congestive heart failure patients. Proceedings of the ACM international conference on Health informatics - IHI\textquoteright10. Association for Computing Machinery (ACM); 2010. DOI: 10.1145/1882992.1883010.
  5. Suh M-kyung, Evangelista LS, Chen V, Hong WS, Macbeth J, Nahapetian A, Figueras FJ, Sarrafzadeh M. WANDA B.: Weight and activity with blood pressure monitoring system for heart failure patients. 2010 IEEE International Symposium on "A World of Wireless, Mobile and Multimedia Networks" (WoWMoM). Institute of Electrical & Electronics Engineers (IEEE); 2010. DOI: 10.1109/wowmom.2010.5534983.
  6. Woodbridge J, Bui AAT, Sarrafzadeh M. Linear frequency estimation technique for reducing frequency based signals. Proceedings of the 3rd International Conference on PErvasive Technologies Related to Assistive Environments - PETRA\textquoteright10. Association for Computing Machinery (ACM); 2010. DOI: 10.1145/1839294.1839359.
  7. Shpitser I. Disease models, part I: Graphical models. Medical Imaging Informatics. Springer; 2010. p. 335\textendash369. PDF
  8. Tong M, Wu JA, Chae S, Chern A, Speier W, Hsu W, Taira RK. Computer-assisted systematic review and interactive visualization of published literature. RSNA Annual Meeting. 2010.
  9. Aberle DR, El-Saden S, Abbona P, Gomez A, Motamedi K, Ragavendra N, Bassett L, Seeger L, Brown M, Brown K, others. A primer on imaging anatomy and physiology. Medical Imaging Informatics. Springer; 2010. p. 15\textendash90.
  10. Jahanshad N, Stein JL, McMahon KL, Zubicaray GI de, Wright MJ, Hickie I, Toga AW, Thompson P. White Matter Development and Asymmetry Mapped using DTI in 12-21 Year Old Twins. Organization for Human Brain Mapping. 2010;
  11. Jahanshad N, Stein JL, Thomason ME, McMahon KL, Zubicaray GI de, Martin NG, Wright MJ, Toga AW, Thompson P. Boosting power to detect genes that influence fiber tracts. Proc Organization for Human Brain Mapping. 2010.
  12. Watt E, Arnold CW, Sayre JW. Evaluation. Medical Imaging Informatics. Springer; 2010. p. 403\textendash438.
  13. Favorov A, Lvovs D, Speier W, Parmigiani G, Ochs M. ONION: an XML format to exchange gene-related probabilities. Information Technologies and Systems. 2010.
2009
  1. Wong Y-N, Meropol N, Speier W, Sargeant D, Goldberg R, Beck JR. Cost Implications of New Treatments for Advanced Colorectal Cancer. Cancer. 2009;115(10):2081–2091.
  2. Hsu W, Antani S, Long RL, Neve L, Thoma GR. SPIRS: A Web-based image retrieval system for large biomedical databases. Int J Med Inform. 2009;78 Suppl 1:S13–24. DOI: 10.1016/j.ijmedinf.2008.09.006.
  3. Singleton KW, Garcia-Gathright JI, Burns B, Rocks K, Iglesias JE, Bui AAT. Semi-automated medical text and image selection for multimedia presentation at tumor board reviews. Radiological Society of North America. Chicago, United Stats of America: Radiological Society of North America; 2009.
  4. Jahanshad N, Shikuma CM, Kallianpur K, Nakamoto B, Valcour VG, Thompson P, Francisco CA. Impact of cerebrovascular risk factors on brain function and structure in HIV-infected individuals. Antivir Ther. 2009.
  5. Arnold CW, Davis M, Knoop S, Gruhl D. A scalable architecture for medical report driven information retrieval. Proc AMIA Annu Symp. 2009.
  6. Moazeni M, Bui AAT, Sarrafzadeh M. A memory optimization technique for software-managed scratchpad memory in GPUs. Application Specific Processors, 2009 SASP\textquoteright09 IEEE 7th Symposium on. IEEE; 2009. PDF
  7. Moazeni M, Bui AAT, Sarrafzadeh M. Accelerating total variation regularization for matrix-valued images on GPUs. Proceedings of the 6th ACM conference on Computing frontiers. ACM; 2009. PDF
  8. Suh M-kyung, Lee KJ, Nahapetian A, Sarrafzadeh M. Interval training guidance system with music and wireless group exercise motivations. Industrial Embedded Systems, 2009 SIES\textquoteright09 IEEE International Symposium on. IEEE; 2009. PDF
  9. Suh M-kyung, Rofouei M, Nahapetian A, Kaiser WJ, Sarrafzadeh M. Optimizing interval training protocols using data mining decision trees. Wearable and Implantable Body Sensor Networks, 2009 BSN 2009 Sixth International Workshop on. IEEE; 2009. PDF
  10. Au LK, Batalin MA, Stathopoulos T, Bui AAT, Kaiser WJ. Episodic sampling: Towards energy-efficient patient monitoring with wearable sensors. Conf Proc IEEE Eng Med Biol Soc. 2009;2009:6901–5. DOI: 10.1109/IEMBS.2009.5333615.
2008
  1. Wu WH, Au LK, Jordan B, Stathopoulos T, Batalin MA, Kaiser WJ, Vahdatpour A, Sarrafzadeh M, Fang M, Chodosh J. The SmartCane System: An Assistive Device for Geriatrics. Proceedings of the ICST 3rd International Conference on Body Area Networks. ICST, Brussels, Belgium, Belgium: ICST (Institute for Computer Sciences, Social-Informatics and Telecommunications Engineering); 2008.
  2. Au LK, Wu WH, Batalin MA, Stathopoulos T, Kaiser WJ, others. Demonstration of active guidance with SmartCane. Information Processing in Sensor Networks, 2008 IPSN\textquoteright08 International Conference on. IEEE; 2008.
  3. Tameem HZ, Dube S, Sinha U. Content based image retrieval applied to contrast enhancing brain tumors. Proc SPIE Medical Imaging: PACS and Imaging Informatics. San Diego, CA: SPIE; 2008.
  4. Dube S, Corso JJ, Yuille AL, Cloughesy TF, El-Saden S, Sinha U. Hierarchical segmentation of malignant gliomas via integrated contextual filter response. 2008. DOI: 10.1117/12.770769. PDF
  5. Corso JJ, Sharon E, Dube S, El-Saden S, Sinha U, Yuille AL. Efficient multilevel brain tumor segmentation with integrated bayesian model classification. IEEE Transactions on Medical Imaging. 2008. p. 629\textendash640. DOI: 10.1109/TMI.2007.912817. PDF
  6. Son RY, Taira RK, Kangarloo H, Cardenas AF. Context-sensitive correlation of implicitly related data: An episode creation methodology. IEEE Trans Inf Technol Biomed. 2008;12:549–60. DOI: 10.1109/TITB.2008.917901.
  7. D\textquoterightAvolio L, Litwin MS, Rogers SO, Bui AAT. Facilitating clinical outcomes assessment through the automated identification of quality measures for prostate cancer surgery. J Am Med Inform Assoc. 2008;15:341–8. DOI: 10.1197/jamia.M2649.
  8. Morioka CA, El-Saden S, Pope W, Sayre JW, Duckwiler G, Meng F, Bui AAT, Kangarloo H. A methodology to integrate clinical data for the efficient assessment of brain-tumor patients. Inform Health Soc Care. 2008;33:55–68. DOI: 10.1080/17538150801956762.
  9. Taira RK, Bui AAT, Hsu W, Bashyam V, Dube S, Watt E, Andrada LP, El-Saden S, Cloughesy TF, Kangarloo H. A tool for improving the longitudinal imaging characterization for neuro-oncology cases. AMIA Annu Symp Proc. 2008. p. 712–6.
2007
  1. Morioka CA, Dionisio J, Bui AAT, El-Saden S, Kangarloo H. StructConsult: Structured real-time wet read consultation infrastructure to support patient care. Stud Health Technol Inform. 2007;129:429–33.
  2. Tameem HZ, Ardekani S, Sinha U. MR bone atlases for shape characterization. Proc Joint Annual Meeting International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology. Berlin, Germany: International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology; 2007.
  3. Tameem HZ, Morioka CA, Bennett D, El-Saden S, Sinha U, Taira RK, Bui AAT, Kangarloo H. Development of an indexed integrated neuroradiology reports for teaching file creation. Proceedings of SPIE. San Diego, CA: SPIE Medical Imaging; 2007.
  4. D\textquoterightAvolio L, Litwin MS, Rogers SO, Bui AAT. Automatic identification and classification of surgical margin status from pathology reports following prostate cancer surgery. AMIA Annu Symp Proc. 2007. p. 160–4.
  5. Wu WH, Batalin MA, Bui AAT, Sarrafzadeh M, Kaiser WJ. A Novel Method and Testbed for Sensor Management and Patient Diagnosis. Proc Joint Workshop On High Confidence Medical Devices, Software, and Systems (HCMDSS) and Medical Device Plug-and-Play (MD PnP) Interoperability (HCMDSS/MD PnP\textquoteright07). Boston, MA: IEEE; 2007.
  6. Ardekani S, Kumar A, Bartzokis G, Sinha U. Exploratory voxel-based analysis of diffusion indices and hemispheric asymmetry in normal aging. Magn Reson Imaging. 2007;25:154–67. DOI: 10.1016/j.mri.2006.09.045.
  7. Tameem HZ, Selva LE, Sinha U. Texture measure from low resolution MR images to determine trabecular bone integrity in osteoporosis. Conf Proc IEEE Eng Med Biol Soc. 2007;2007:2027–30. DOI: 10.1109/IEMBS.2007.4352717.
  8. Tameem HZ, Sinha U. MR atlas for articular cartilage morphology: Potential to detect shape differences. Stud Health Technol Inform. 2007;129:1329–33.
  9. Tameem HZ, Selva LE, Sinha U. Morphological atlases of knee cartilage: Shape indices to analyze cartilage degradation in osteoarthritic and non-osteoarthritic population. Conf Proc IEEE Eng Med Biol Soc. 2007;2007:1310–3. DOI: 10.1109/IEMBS.2007.4352538.
  10. Hsu W, Aberle DR, El-Saden S, Kangarloo H, Bui AAT. A visual query application for interacting with a probabilistic model of tumor image features. RSNA. Chicago, IL, 2007.
  11. Shpitser I, Pearl J. What Counterfactuals Can Be Tested. Uncertainty in Artificial Intelligence. Vancouver, Canada; 2007.
  12. Bui AAT, Morioka CA, Dionisio J, Johnson D, Sinha U, Ardekani S, Taira RK, Aberle DR, El-Saden S, Kangarloo H. OpenSourcePACS: An extensible infrastructure for medical image management. IEEE Trans Inf Technol Biomed. 2007;11:94–109.
  13. Arnold CW, Bui AAT, Morioka CA, El-Saden S, Kangarloo H. Informatics in radiology: A prototype Web-based reporting system for onsite-offsite clinician communication. Radiographics. 2007;27:1201–11. DOI: 10.1148/rg.274065124.
  14. Bashyam V, Morioka CA, El-Saden S, Bui AAT, Taira RK. Identifying relevant medical reports from an assorted report collection using the naı̈ve Bayes classifier and the UMLS. Indian Journal of Medical Informatics. 2007;2.
  15. Dube S, Cloughesy TF, Sayre JW, Sinha U. Multivariate linear modeling of quantitative MR features for prognosis in patients with glioblastoma multiforme. Proc Joint Annual Meeting International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology. Berlin, Germany: International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology; 2007.
  16. Dube S, El-Saden S, Cloughesy TF, Sinha U. Content-based Image Retrieval of Glioblastoma Multiforme. Medinfo 2007: Proceedings of the 12th World Congress on Health (Medical) Informatics. 2007. DOI: 2006;1:3337-40.
  17. Dube S, Corso JJ, Cloughesy TF, El-Saden S, Yuille AL, Sinha U. Automated MR image processing and analysis of malignant brain tumors: enabling technology for data mining. Data Mining, Systems Analysis, and Optimization in Biomedicine(AIP Conference Proceedings Volume 953). 2007. DOI: 10.1063/1.2817354.
  18. Christiansen O, Lee T-M, Lie J, Sinha U, Chan TF. Total variation regularization of matrix-valued images. International journal of biomedical imaging. 2007;2007. DOI: 10.1155/2007/27432.
  19. Tameem HZ, Sinha U. Trabecular Bone Analysis: Correlation of 3D Structural Features with 3D Texture Analysis. Proc Joint Annual Meeting International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology. Berlin, Germany: International Society of Magnetic Resonance Imaging-European Society of Magnetic Resonance Imaging in Biology; 2007.
Older
  1. Sinha S, Sinha U, Edgerton VR. In vivo diffusion tensor imaging of the human calf muscle. J Magn Reson Imaging. 2006;24:182–90. DOI: 10.1002/jmri.20593.
  2. Dube S, El-Saden S, Cloughesy TF, Sinha U. Content based image retrieval for MR image studies of brain tumors. Conf Proc IEEE Eng Med Biol Soc. 2006;1:3337–40. DOI: 10.1109/IEMBS.2006.260262.
  3. Ardekani S, Selva LE, Sayre JW, Sinha U. Quantitative metrics for evaluating parallel acquisition techniques in diffusion tensor imaging at 3 Tesla. Invest Radiol. 2006;41:806–14. DOI: 10.1097/01.rli.0000242859.75922.be.
  4. Ardekani S, Sinha U. Statistical representation of mean diffusivity and fractional anisotropy brain maps of normal subjects. J Magn Reson Imaging. 2006;24:1243–51. DOI: 10.1002/jmri.20745.
  5. Grinstead J, Sinha U, Sinha S. Application of a wavelet packet denoising algorithm to diffusion tensor imaging. Journal of Magnetic Resonance Imaging. 2006;24:182\textendash190.
  6. Corso JJ, Sharon E, Yuille AL. Multilevel segmentation and integrated bayesian model classification with an application to brain tumor segmentation. Medical Image Computing and Computer-Assisted Intervention. 2006.
  7. Hsu W, Dordoni A, El-Saden S, Bui AAT. A visual query interface for assisting in decision support of tumors using image findings structured by Bayesian networks. Proc ARRS. Vancouver, Canada; 2006. p. A31.
  8. Lee TM, Sinha U. Denoising diffusion tensor images: preprocessing for automated detection of subtle diffusion tensor abnormalities between populations. Proc SPIE Medical Imaging. 2006. DOI: 10.1117/12.654264.
  9. Shah SK, Kleerup EC, Arroyo LL, Lindberg DC, Wakeman KS, Bui AAT. A structured radiologic, pathologic, and clinical teaching file for thoracic diseases. Radiological Society of North America. McCormick Place, Chicago; 2005.
  10. Cho PS, Taira RK, Kangarloo H. Syntactic parsing of medical reports using evolutionary optimization. AMIA Annu Symp Proc. 2005. p. 920.
  11. Ardekani S, Sinha U. Geometric distortion correction of high-resolution 3 T diffusion tensor brain images. Magn Reson Med. 2005;54:1163–71. DOI: 10.1002/mrm.20651.
  12. Morioka CA, El-Saden S, Pope W, Duckwiler G, Bui AAT, Kangarloo H. Integration of HIS/RIS clinical document with PACS image studies for neuroradiology. The International Society for Optical Engineering (SPIE) International Symposium on Medical Imaging. 2005. DOI: doi:10.1117/12.595920.
  13. Selva LE, El-Saden S, Sayre JW, Kangarloo H, Sinha U. Automated decision support for brain MRI protocol selection. Proc IEEE METMBS. 2004. p. 23–30.
  14. Ardekani S, Sinha U. Constrained free form deformation based algorithm for geometric distortion correction of echo planar diffusion tensor images. 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano. Washington, DC, USA: IEEE; 2004. p. 340–343. DOI: 10.1109/ISBI.2004.1398544.
  15. Son RY, Taira RK, Kangarloo H. Inter-document coreference resolution of abnormal findings in radiology documents. Stud Health Technol Inform. 2004;107:1388–92.
  16. Meng F, Chen AA, Son RY, Taira RK, Churchill BM, Kangarloo H. Information Extraction Using Semantic Patterns for Populating Clinical Data Models. METMBS. 2004.
  17. Sinha U, Ardekani S. Parametric brain MR atlases: Standardization for imaging informatics. Stud Health Technol Inform. 2004;107:1374–8.
  18. Son RY, Meng F, Chen AA, Taira RK, Kangarloo H. Towards Semantics-Based Intra-Document Coreference Resolution. METMBS. 2004.
  19. Sinha S, Sinha U. In vivo diffusion tensor imaging of the human prostate. Magn Reson Med. 2004;52:530–7. DOI: 10.1002/mrm.20190.
  20. Bui AAT, Taira RK, Goldman D, Dionisio J, Aberle DR, El-Saden S, Sayre JW, Rice T, Kangarloo H. Effect of an imaging-based streamlined electronic healthcare process on quality and costs. Acad Radiol. 2004;11:13–20.
  21. Bui AAT, Taira RK, El-Saden S, Dordoni A, Aberle DR. Automated medical problem list generation: Towards a patient timeline. Stud Health Technol Inform. 2004;107:587–91. PDF
  22. Selva LE, Brennan M, Sinha U. Automated processing of diffusion tensor data for integration within a PAC system. IEEE METMBS Conference. 2004.
  23. Yu NC, Choi JW, Morioka CA, Lu DSK, Kim YJ, Raman SS, Bui AAT. Hepatocellular Carcinoma TimeLine: A visualization paradigm for the follow-up of the effect of minimally invasive therapy. Radiological Society of North America. McCormick Place, Chicago; 2004.
  24. Morioka CA, Sarnoski J, Taira RK, Bui AAT, Kangarloo H. Mapping GI/GU anatomical locations and conditions to UMLS and to an image model based on the Visual Human male dataset. Radiological Society of North America. 2004.
  25. Selva LE, Brennan M, Sinha U. Automated processing of diffusion tensor data for integration within a PAC system. Radiological Society of North America. 2004.
  26. Ardekani S, Sinha U. Quantitative assessment of parallel acquisition techniques in diffusion tensor imaging at 3.0 Tesla. Proc Intl Conf IEEE METMBS. San Francisco: IEEE; 2004. DOI: 10.1109/IEMBS.2004.1403349.
  27. Chen AA, Meng F, Son RY, Taira RK, Churchill BM, Kangarloo H. Framework for the automated validation of nomograms for the prediction of cancer outcomes. Proc IEEE METMBS Conference. Las Vegas; 2004.
  28. Cho PS, Taira RK, Bui AAT, Kangarloo H. Construction of Knowledge Frames for Medical Reports. Proc Intl Medical Informatics Assoc (MedInfo). San Francisco; 2004.
  29. Son RY, Taira RK, Bui AAT, Cardenas AF, Kangarloo H. Imaging-based episode creation. Radiological Society of North America. Chicago, IL: RSNA; 2003.
  30. Morioka CA, El-Saden S, Duckwiler G, Zou Q, Ying R, Bui AAT, Johnson D, Kangarloo H. Workflow management of HIS/RIS textual documents with PACS image studies for neuroradiology. AMIA Annu Symp Proc. 2003. p. 475–9.
  31. Sinha U, El-Saden S, Duckwiler G, Thompson LL, Ardekani S, Kangarloo H. A customizable MR brain imaging atlas of structure and function for decision support. AMIA Annu Symp Proc. 2003. p. 604–8.
  32. Taira RK, Cho PS, Kangarloo H. Natural language processing of GU radiology reports. Radiological Society of North America. Chicago, IL: RSNA; 2003.
  33. Cho PS, Taira RK, Kangarloo H. Automatic section segmentation of medical reports. AMIA Annu Symp Proc. 2003. p. 155–9.
  34. Sinha U, Thompson LL, El-Saden S, Ardekani S, Dionisio J, Kangarloo H. Automated MR brain image study summarization. Radiological Society of North America. Chicago, IL: RSNA; 2003.
  35. Ardekani S, Sinha U. Diffusion model based non-linear warping for distortion corrections in diffusion tensor images. Proc Intl Soc Mag Reson Med. 2003.
  36. Sinha S, Lucas-Quesada FA, Sinha U, DeBruhl N, Bassett L. In vivo diffusion-weighted MRI of the breast: potential for lesion characterization. J Magn Reson Imaging. 2002;15:693–704. DOI: 10.1002/jmri.10116.
  37. Bui AAT, Weinger GS, Barretta SJ, Dionisio J, Kangarloo H. An XML gateway to patient data for medical research applications. Ann N Y Acad Sci. 2002;980:236–46.
  38. Sinha U, Bui AAT, Taira RK, Dionisio J, Morioka CA, Johnson D, Kangarloo H. A review of medical imaging informatics. Ann N Y Acad Sci. 2002;980:168–97.
  39. Son RY, Taira RK, Bui AAT, Kangarloo H, Cardenas AF. A context-sensitive methodology for automatic episode creation. Proc AMIA Symp. 2002;2002:707–11.
  40. Bui AAT, Dionisio J, Morioka CA, Sinha U, Taira RK, Kangarloo H. DataServer: An infrastructure to support evidence-based radiology. Acad Radiol. 2002;9:670–8.
  41. Bui AAT, Taira RK, Dionisio J, Aberle DR, El-Saden S, Kangarloo H. Evidence-based radiology: Requirements for electronic access. Acad Radiol. 2002;9:662–9.
  42. Morioka CA, Sinha U, Taira RK, El-Saden S, Duckwiler G, Kangarloo H. Structured reporting in neuroradiology. Ann N Y Acad Sci. 2002;980:259–66.
  43. Sinha U, Kangarloo H. Image study summarization of MR brain images by automated localization of relevant structures. Ann N Y Acad Sci. 2002;980:278–86.
  44. Sinha U, Kangarloo H. Principal component analysis for content-based image retrieval. Radiographics. 2002;22:1271–89. DOI: 10.1148/radiographics.22.5.g02se021271.
  45. Sinha U, Yao L. In vivo diffusion tensor imaging of human calf muscle. J Magn Reson Imaging. 2002;15:87–95.
  46. Sinha S, Sinha U. Functional magnetic resonance of human breast tumors: diffusion and perfusion imaging. Ann N Y Acad Sci. 2002;980:95–115.
  47. Oshiro T, Sinha U, Lu D, Sinha S. Reduction of electronic noise from radiofrequency generator during radiofrequency ablation in interventional MRI. J Comput Assist Tomogr. 2002;26:308–16.
  48. Dionisio J, Bui AAT, Johnson D, Thompson LL, Sinha U. Designing a patient education framework via use case analysis. Ann N Y Acad Sci. 2002;980:225–35.
  49. Close RA, Abbey CK, Morioka CA, Whiting JS. Evaluation of layer decomposition for multiframe quantitative coronary angiography. Med Phys. 2002;29:311–8.
  50. Dionisio J, Bui AAT, Johnson D, Thompson LL, Sinha U. A Java-based framework for maintaining patient education content. Ann of N Y Acad Sci. 2002. p. 226–235.
  51. Bui AAT, Taira RK, Morioka CA, Hall T, Boechat IM, Sayre JW, Leazer GH, Kangarloo H. A multimedia record for pediatric patients. Proc Mathematics and Engineering Techniques in Medicine and the Biological Sciences (METMBS). Mathematics and Engineering Techniques in Medicine and the Biological Sciences (METMBS); 2002.
  52. Dionisio J, Johnson D, Bui AAT, Sinha U, Kangarloo H. A design for integrating parallel and overlapping software development projects. Proc Mathematics and Engineering Techniques in Medicine and the Biological Sciences. 2002;
  53. Ardekani S, Sinha U. Non-linear warping integrating intensity matching for geometric distortion correction in DW-MRI. Biomedical Engineering Society (BMES). 2002;
  54. Ardekani S, Kangarloo H, Sinha U. Region based fuzzy clustering for automated brain segmentation. Engineering in Medicine and Biology, 2002 24th Annual Conference and the Annual Fall Meeting of the Biomedical Engineering Society EMBS/BMES Conference, 2002 Proceedings of the Second Joint. IEEE; 2002.
  55. Son RY, Taira RK, Bui AAT, Kangarloo H, Cardenas AF. A Probabilistic Model for Constructing Healthcare Episodes. Proc METMBS 2002. 2002;:3\textendash10.
  56. Sinha U, Taira RK, Kangarloo H. Structure localization in brain images: Application to relevant image selection. Proc AMIA Symp. 2001;:622–6.
  57. Morioka CA, Bui AAT, Sinha U, El-Saden S, Duckwiler G. DICOM structured report hyperlinked to DICOM presentation state in neuroradiology. Radiological Society of North America (RSNA). 2001;
  58. Close RA, Abbey CK, Morioka CA, Whiting JS. Accuracy assessment of layer decomposition using simulated angiographic image sequences. IEEE Trans Med Imaging. 2001;20:990–8. DOI: 10.1109/42.959296.
  59. Sinha S, Sinha U, Lucas-Quesada FA, DeBruhl N. Apparent diffusion coefficient of the normal prostate. 9th Intl Soc Mag Res Med (ISMRM) Meeting. 2001.
  60. Sinha U, Kangarloo H. Relevant MR imaging selection by automated localization of structure. Proc Mathematics and Engineering Techniques in Medicine and the Biological Sciences (METMBS). 2001;
  61. Taira RK, Soderland SG, Jakobovits R. Automatic structuring of radiology free-text reports. Radiographics. 2001;21:237–45. DOI: 10.1148/radiographics.21.1.g01ja18237.
  62. Morioka CA, Valentino DJ, Duckwiler G, El-Saden S, Sinha U, Bui AAT, Kangarloo H. Disease specific intelligent pre-fetch and hanging protocol for diagnostic neuroradiology workstations. Proc AMIA Symp. 2001. p. 468–72.
  63. Morioka CA, Sinha U, El-Saden S, Duckwiler G, Kangarloo H. DICOM structured reporting in neuroradiology. Proc Mathematics and Engineering Techniques in Medicine and the Biological Sciences (METMBS). 2001. p. 408–412.
  64. Sinha U, Ton A, Yaghmai A, Taira RK, Kangarloo H. Image content extraction: Application to MR images of the brain. Radiographics. 2001;21:535–47. DOI: 10.1148/radiographics.21.2.g01mr18535.
  65. Yao L, Sinha U. Imaging the microcirculatory proton fraction of muscle with diffusion-weighted echo-planar imaging. Acad Radiol. 2000;7:27–32.
  66. Sinha U, Dai BY, Johnson D, Taira RK, Dionisio J, Tashima G, Golamco M, Kangarloo H. Interactive software for generation and visualization of structured findings in radiology reports. AJR Am J Roentgenol. 2000;175:609–12. DOI: 10.2214/ajr.175.3.1750609.
  67. Sinha U, Ton A, Taira RK, Kangarloo H. Structuring MR image datasets: Image content modeling. RSNA. 2000.
  68. Soderland SG, Taira RK, Jakobovits R, Warner A. Analysis of serial CT reports for pediatric patients with metastatic lung disease. Radiological Society of North America. 2000. p. 704.
  69. Thompson LL, Sinha U, Madu E, Ratib OM, Dionisio J, Dai BY, Taira RK, Kangarloo H. Structured data entry for cardiology and cardiac imaging: user profile based templates. Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS). 2000. p. 521–6.
  70. Valdez JA, Dionisio J, Golamco M, Son RY, Kangarloo H. Creation of a health services research client in a distributed telemedicine environment. Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS). 2000. p. 505–512.
  71. Sinha U, Sinha S, Oshiro T. Temperature-Sensitive Magnetic Resonance Sequences. Open Field Magnetic Resonance Imaging. Springer; 2000. p. 95\textendash106. DOI: 10.1007/978-3-642-59581-3_9.
  72. Dionisio J, Taira RK, Sinha U, Johnson D, Dai BY, Tashima G, Blythe S, Johnson R, Kangarloo H. Teleradiology as a foundation for an enterprise-wide health care delivery system. Radiographics. 2000;20:1137–50. DOI: 10.1148/radiographics.20.4.g00jl321137.
  73. Gupta RK, Cloughesy TF, Sinha U, Garakian J, Lazareff J, Rubino G, Rubino L, Becker DP, Vinters HV, Alger JR. Relationships between choline magnetic resonance spectroscopy, apparent diffusion coefficient and quantitative histopathology in human glioma. J Neurooncol. 2000;50:215–26.
  74. Dai BY, Sinha U, Taira RK, Thompson LL, Dionisio J, Kangarloo H. Free-text radiology reports to standardized structured representations: The next step. Decisions in Imaging Informatics. 2000;13:14–20.
  75. Dionisio J, Johnson D, Bui AAT, Son RY, Churchill BM, Kangarloo H. Individually tailored, multimedia physician-patient communication. Proc Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS). Mathematics and Engineering Techniques in Medicine and Biological Sciences (METMBS); 2000. p. 513–520.
  76. Sinha U, Yaghmai A, Thompson LL, Dai BY, Taira RK, Dionisio J, Kangarloo H. Evaluation of SNOMED3.5 in representing concepts in chest radiology reports: integration of a SNOMED mapper with a radiology reporting workstation. Proc AMIA Symp. 2000;:799–803.
  77. Lucas-Quesada FA, Sinha S, Sinha U. Apparent diffusion coefficient - An additional feature to increase specificity in the classification of breast lesions. 8th Intl Soc Mag Res Med Meeting (ISMRM). International Society of Magnetic Resonance in Medicine(ISMRM); 2000.
  78. Jakobovits R, Soderland SG, Taira RK, Brinkley JF. Requirements of a Web-based experiment management system. Proc AMIA Symp. 2000;:374–8.
  79. Sinha S, Lucas-Quesada FA, Sinha U, DeBruhl N. Use of apparent diffusion coefficient to enhance the specificity of MR imaging of breast lesions. European Radiology. 2000;10:F43–F44.
  80. Kangarloo H, Valdez JA, Yao L, Chen S, Curran J, Goldman D, Sinha U, Dionisio J, Taira RK, Sayre JW, Seeger L, Johnson R, Barbaric Z, Steckel RJ. Improving the quality of care through routine teleradiology consultation. Acad Radiol. 2000;7:149–55.
  81. Morioka CA, Abbey CK, Eckstein M, Close RA, Whiting JS, LeFree M. Simulating coronary arteries in x-ray angiograms. Med Phys. 2000;27:2438–44.
  82. Dionisio J, Sinha U, Dai BY, Johnson D, Taira RK. Initial experiences with building a health care infrastructure based on Java and object-oriented database technology. Proc AMIA Symp. 1999;:515–9.
  83. Sinha U, Dai BY, Thompson LL, Taira RK, Dionisio J, Kangarloo H. Dictated radiology report to standardized representation. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999.
  84. Sinha S, Oshiro T, Sinha U, Daniell AL, Lu D, Lufkin RB. MR contrast optimization for a breathold 3D sequence: Applications to cardiac imaging. 7th ed. International Society for Magnetic Resonance in Medicine. Philadelphia, Pennsylvania, USA: International Society for Magnetic Resonance in Medicine; 1999.
  85. Sinha S, Oshiro T, Ong K, Sinha U, Daniell AL, Lu D, Lufkin RB. In vivo laser ablation of a porcine model: Real-time temperature monitoring and tissue damage modeling. International Society for Magnetic Resonance in Medicine. Philadelphia, Pennsylvania, USA: International Society for Magnetic Resonance in Medicine; 1999.
  86. Johnson D, Dionisio J, Sinha U, Ratib OM, Kangarloo H. Using digital ink for structured medical reporting. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999.
  87. Gupta RK, Sinha U, Cloughesy TF, Alger JR. Inverse correlation between choline magnetic resonance spectroscopy signal intensity and the apparent diffusion coefficient in human glioma. Magn Reson Med. 1999;41:2–7.
  88. Sinha U, Dionisio J, Dai BY, Tashima G, Valdez JA, Kangarloo H. Decision table formalism for guideline representation of cholesterol management: Application to patient/physicians collaborative path for risk reduction of heart disease. American Medical Informatics Association Symposium. Washington, DC: American Medical Informatics Association; 1999.
  89. Dai BY, Sinha U, Dionisio J, Tashima G, Johnson R, Taira RK, Kangarloo H. Individually Tailored Time Management: Patient-Centric Scheduling. Proc AMIA Symp. 1999.
  90. Daniell AL, Sinha S, Sinha U. A real-time, low-cost MR image reconstruction device: Applications to interventional MRI. Intl Soc Mag Res Med Meeting (ISMRM). 1999.
  91. Kangarloo H, Dionisio J, Sinha U, Johnson D, Taira RK. Process models for telehealth: an industrial approach to quality management of distant medical practice. Proc AMIA Symp. 1999;1999:545–9.
  92. Caruana R, Kangarloo H, Dionisio J, Sinha U, Johnson D. Case-based explanation of non-case-based learning methods. Proc AMIA Symp. 1999;1999:212–5.
  93. Taira RK, Soderland SG. A statistical natural language processor for medical reports. Proc AMIA Symp. 1999;:970–4.
  94. Dionisio J, Johnson D, Bui AAT, Son RY, Churchill BM, Kangarloo H. Individually tailored, multimedia physician-patient communication. Radiological Society of North America. 1999.
  95. Dai BY, Sinha U, Dionisio J, Tashima G, Johnson R. Individually tailored time management - A patient centric scheduler. Radiological Society of North America. 1999.
  96. Bui AAT, Aberle DR, Dionisio J, Son RY, McNitt-Gray MF, Cardenas AF. TimeLine: A platform-independent, configurable interface for problem-centric multimedia patient records. RSNA. 1999.
  97. Valdez JA, Sinha U, Caruana R, Ratib OM, Madu E, Kangarloo H. Simulation model for evaluating diagnostic technologies used in the identification of acute cardiac ischemia. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999.
  98. Thompson LL, Sinha U, Ratib OM, Madu E, Dionisio J, Kangarloo H. Focused knowledge navigation implementing structured data entry for cardiology and cardiac imaging. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999. p. 580.
  99. Son RY, Valdez JA, Sinha U, Cardenas AF, Taira RK, Kangarloo H. A health services research workstation and imaging based episode creator to facilitate evidence-based medical research. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999.
  100. Sinha U, Taira RK, Johnson D, JD D, Kangarloo H. Image content modeling for evidence based medical practice. Radiological Society of North America. Chicago, Illinois, USA: Radiological Society of North America; 1999.
  101. Sinha U, Taira RK, Dai BY, Soderland SG, Johnson D, Kangarloo H. Informatics for cancer clinical trials: Standardized, structured data entry. American Medical Informatics Association. Washington, DC: American Medical Informatics Association; 1999.
  102. Sinha U, Sinha S, Yao L. In vivo measurements of the diffusion tensor in muscle: Tetrahedrally encoded diffusion gradients with echo planar acquisition. 7th ed. International Society for Magnetic Resonance in Medicine. Philadelphia, Pennsylvania, USA: International Society for Magnetic Resonance in Medicine; 1999.
  103. Sinha U, Sinha S, Chan J, Lufkin RB. In vivo measurements of trace diffusion coefficient in normal head and neck - Tetrahedrally encoded diffusion gradients with EPI. 7th ed. International Society for Magnetic Resonance in Medicine. Philadelphia, Pennsylvania, USA: International Society for Magnetic Resonance in Medicine; 1999.
  104. Sinha U, Dai BY, Kangarloo H, Taira RK, Johnson D, Golamco M. Using speech recognition and natural language processing for semi-automatic structured radiology reporting. Radiological Society of North America (RSNA). Chicago, IL, USA: Radiological Society of North America (RSNA); 1998.
  105. Sinha S, Oshiro T, Sinha U, Lufkin RB. Phase imaging on a .2-T MR scanner: application to temperature monitoring during ablation procedures. J Magn Reson Imaging. 1997;7:918–28.
  106. Sinha S, Mather R, Sinha U, Goldin J, Fonarow G, Yoon H-C. Estimation of the left ventricular ejection fraction using a novel multiphase, dark-blood, breath-hold MR imaging technique. AJR Am J Roentgenol. 1997;169:101–12. DOI: 10.2214/ajr.169.1.9207508.
  107. Sinha U, Sinha S. High speed diffusion imaging in the presence of eddy currents. J Magn Reson Imaging. 1996;6:657–66.
  108. Sinha S, Sinha U. Black blood dual phase turbo FLASH MR imaging of the heart. J Magn Reson Imaging. 1996;6:484–94.
  109. Lucas-Quesada FA, Sinha U, Sinha S. Segmentation strategies for breast tumors from dynamic MR images. J Magn Reson Imaging. 1996;6:753–63.
  110. Kangarloo H, Ho BK, Lufkin RB, Barbaric Z, Kirlew K, Yaghmai S, Scholem D, Steckel RJ. Effect of conversion from a fee-for-service plan to a capitation reimbursement system on a circumscribed outpatient radiology practice of 20,000 persons. Radiology. 1996;201:79–84. DOI: 10.1148/radiology.201.1.8816525.
  111. Ho BK, Taira RK, Steckel RJ, Kangarloo H. Technical considerations in planning a distributed teleradiology system. Telemed J. 1995;1:53–65.
  112. Sinha S, Sinha U, Czernin J, Porenta G, Schelbert HR. Noninvasive assessment of myocardial perfusion and metabolism: feasibility of registering gated MR and PET images. AJR Am J Roentgenol. 1995;164:301–7. DOI: 10.2214/ajr.164.2.7839959.
  113. Huang HK, Taira RK, Lou S-L, Wong AWK, Breant C, Ho BK, Chuang KS, Stewart BK, Andriole K, Tecotzky R. Implementation of a large-scale picture archiving and communication system. Comput Med Imaging Graph. 1993;17:1–11.
  114. Sinha S, Sinha U, Kangarloo H, Huang HK. A PACS-based interactive teaching module for radiologic sciences. AJR Am J Roentgenol. 1992;159:199–205. DOI: 10.2214/ajr.159.1.1609698.
  115. Sinha S, Sinha U, Kangarloo H, Huang HK. Magnetic resonance image synthesis from analytic solutions of spin-echo and radio frequency-spoiled gradient-echo images. Invest Radiol. 1992;27:856–64.
  116. Huang HK, Kangarloo H, Cho PS, Taira RK, Ho BK, Chan KK. Planning a totally digital radiology department. AJR Am J Roentgenol. 1990;154:635–9. DOI: 10.2214/ajr.154.3.2106235.