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Xenophon Papademetris, PhD

Professor of Biomedical Informatics & Data Science, and Radiology & Biomedical Imaging; Director: Image Processing and Analysis, Bioimaging Sciences, Radiology and Biomedical Imaging

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Research Summary

Medical Image Analysis; Medical Software Development; Medical AI Regulation

Extensive Research Description

I have twenty five plus years of experience in medical image analysis, machine learning, and software development. I have been involved in a variety of imaging projects ranging from cardiac image analysis, image-guided epilepsy neurosurgery, image-guided prostate biopsy, development of methods for real-time fMRI, vascular image analysis and general neuroimaging analysis. We have used both model-based approaches (biomechanical and physiological models) and more data-driven statistical/machine learning approaches. These projects spanned most of the imaging modalities (MRI, CT, Ultrasound, PET, SPECT, Optical), body parts (brain, head, heart, vasculature, prostate, abdomen, hindlimbs) and a variety of species.

In addition to algorithm research, I have been heavily involved in the development of medical image analysis software. My software work (which is directly linked to the image analysis research) has focused on the creation of tools for image analysis both at Yale and as a consultant for industry. My early work (1990s) used C++/Motif/OpenInventor on Silicon Graphics workstations. Later I used C++/Tcl/VTK as part of the creation of the original Yale BioImage Suite software package. More recently, I have focused on the creation of web-based tools using a combination of JS and C++ (via WebAssembly) to create server-less tools that can be run in a browser. Some of the C++ algorithms are also made available for use in Python and MATLAB scripts.

In addition to actual software development, I teach a class on Medical Software at Yale which formed the basis for our recently released textbook “Introduction to Medical Software: Foundations for Digital Health, Devices and Diagnostics” that was just published by Cambridge University Press (Summer 2022) and a Coursera online class titled “Introduction to Medical Software” that was released in October of 2021 and which currently has more than 14000 enrolled students from all over the world. I am also a member of a number of technical standards committees at the Association for the Advancement of Medical Instrumentation (AAMI) on software and artificial intelligence. These committees work on standards that become one of the core inputs in the development of FDA regulations for medical devices and software.

Coauthors

Research Interests

Biomedical Engineering; Brain; Radiology; Software; Imaging, Three-Dimensional

Research Image

Introduction to Medical Software: Foundations for Digital Health, Devices and Diagnostics. Cambridge University Press 2022

Providing a concise and accessible overview of the design, implementation and management of medical software, this textbook will equip students with a solid understanding of critical considerations for both standalone medical software (software as a medical device/SaMD) and software that is integrated into hardware devices. It includes: practical discussion of key regulatory documents and industry standards, and how these translate into concrete considerations for medical software design; detailed coverage of the medical software lifecycle process ; accessible introduction to quality and risk management systems in the context of medical software; succinct coverage of essential topics in data science, machine learning, statistics, cybersecurity, software engineering and healthcare bring readers up-to-speed; six cautionary real-world case studies illustrate the dangers of improper or careless software processes. Accompanied by online resources for instructors, this is the ideal introduction for undergraduate students in biomedical engineering, electrical engineering and computer science, junior software engineers, and digital health entrepreneurs.

Selected Publications

Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analysesJin D, Neelakantan U, Lacadie C, Chen T, Rooney B, Liu Y, Wu W, Wang Z, Papademetris X, Hoffman E. Brain Registration and Evaluation for Zebrafish (BREEZE)-mapping: A pipeline for whole-brain structural and activity analyses. STAR Protocols 2023, 4: 102647. PMID: 37897734, PMCID: PMC10641303, DOI: 10.1016/j.xpro.2023.102647.
Dynamic Imaging During Cuff-induced Reactive Hyperemia Can Identify Regional Differences In Skeletal Muscle Perfusion In A Rabbit Model Of Peripheral Arterial DiseaseAlashi A, Vermillion B, Burns R, Guerrera N, Papademetris X, Thorn S, Sinusas A. Dynamic Imaging During Cuff-induced Reactive Hyperemia Can Identify Regional Differences In Skeletal Muscle Perfusion In A Rabbit Model Of Peripheral Arterial Disease. Journal Of Cardiovascular Computed Tomography 2023, 17: s83. DOI: 10.1016/j.jcct.2023.05.206.
High-throughput functional analysis of autism genes in zebrafish identifies convergence in dopaminergic and neuroimmune pathwaysMendes H, Neelakantan U, Liu Y, Fitzpatrick S, Chen T, Wu W, Pruitt A, Jin D, Jamadagni P, Carlson M, Lacadie C, Enriquez K, Li N, Zhao D, Ijaz S, Sakai C, Szi C, Rooney B, Ghosh M, Nwabudike I, Gorodezky A, Chowdhury S, Zaheer M, McLaughlin S, Fernandez J, Wu J, Eilbott J, Wyk B, Rihel J, Papademetris X, Wang Z, Hoffman E. High-throughput functional analysis of autism genes in zebrafish identifies convergence in dopaminergic and neuroimmune pathways. Cell Reports 2023, 42: 112243. PMID: 36933215, PMCID: PMC10277173, DOI: 10.1016/j.celrep.2023.112243.
REST/STRESS DYNAMIC COMPUTED TOMOGRAPHY PERFUSION FOR EVALUATING PERIPHERAL ARTERIAL DISEASE: VALIDATION IN RABBIT MODEL OF HINDLIMB ISCHEMIAAlashi A, Vermillion B, Burns R, Lee S, Bingham B, Guerrera N, Papademetris X, Thorn S, Sinusas A. REST/STRESS DYNAMIC COMPUTED TOMOGRAPHY PERFUSION FOR EVALUATING PERIPHERAL ARTERIAL DISEASE: VALIDATION IN RABBIT MODEL OF HINDLIMB ISCHEMIA. Journal Of The American College Of Cardiology 2023, 81: 1372. DOI: 10.1016/s0735-1097(23)01816-8.
Clustering of KOR PET images separates people with AUD into distinct responses to naltrexoneHoye J, Key J, de Laat B, Cosgrove K, Krishnan-Sarin S, Papademetris X, Morris E. Clustering of KOR PET images separates people with AUD into distinct responses to naltrexone. Brain Imaging And Behavior 2023, 17: 367-371. PMID: 36695971, DOI: 10.1007/s11682-023-00758-6.
HALO: A software tool for real‐time head alignment in the MR scannerZhao Z, Galiana G, Zillo C, Camarro T, Qiu M, Papademetris X, Hampson M. HALO: A software tool for real‐time head alignment in the MR scanner. Magnetic Resonance In Medicine 2022, 89: 1506-1513. PMID: 36426774, PMCID: PMC10753491, DOI: 10.1002/mrm.29535.
High-resolution cortical parcellation based on conserved brain landmarks for localization of multimodal data to the nearest centimeterMcGrath H, Zaveri H, Collins E, Jafar T, Chishti O, Obaid S, Ksendzovsky A, Wu K, Papademetris X, Spencer D. High-resolution cortical parcellation based on conserved brain landmarks for localization of multimodal data to the nearest centimeter. Scientific Reports 2022, 12: 18778. PMID: 36335146, PMCID: PMC9637135, DOI: 10.1038/s41598-022-21543-3.
Functional network properties derived from wide-field calcium imaging differ with wakefulness and across cell typeO’Connor D, Mandino F, Shen X, Horien C, Ge X, Herman P, Hyder F, Crair M, Papademetris X, Lake E, Constable. Functional network properties derived from wide-field calcium imaging differ with wakefulness and across cell type. NeuroImage 2022, 264: 119735. PMID: 36347441, PMCID: PMC9808917, DOI: 10.1016/j.neuroimage.2022.119735.
445 Three-dimensional High Resolution Lagrangian Strain Analysis In The Right Ventricle Using Cinect In A Porcine ModelSavarimuthu S, Midgett D, Thorn S, Ahn S, Avendano R, Melvinsdottir I, Duncan J, Papademetris X, Sinusas A. 445 Three-dimensional High Resolution Lagrangian Strain Analysis In The Right Ventricle Using Cinect In A Porcine Model. Journal Of Cardiovascular Computed Tomography 2022, 16: s21. DOI: 10.1016/j.jcct.2022.06.050.
Introduction to Medical SoftwarePapademetris X, Quraishi A, Licholai G. Introduction to Medical Software. 2022 DOI: 10.1017/9781009091725.
Mouse rsfMRI connectome fingerprinting recovers subject as well as genetically encoded Ca2+ indicator lociMandino F, Horien C, Shen X, O'Connor D, Ge X, Herman P, Qu A, Onofrey J, Crair M, Papademetris X, Constable T, Lake E. Mouse rsfMRI connectome fingerprinting recovers subject as well as genetically encoded Ca2+ indicator loci. Proceedings Of The International Society For Magnetic Resonance In Medicine ... Scientific Meeting And Exhibition. 2022 DOI: 10.58530/2022/0414.
Longitudinal simultaneous cortex wide Ca2+ imaging and whole brain functional magnetic resonance imaging in awake mice across the lifespanMandino F, Shen X, O'Connor D, Mukherjee B, DeLuca K, Owens A, Qu A, Onofrey J, Papademetris X, Strittmatter S, Lake E. Longitudinal simultaneous cortex wide Ca2+ imaging and whole brain functional magnetic resonance imaging in awake mice across the lifespan. Proceedings Of The International Society For Magnetic Resonance In Medicine ... Scientific Meeting And Exhibition. 2022 DOI: 10.58530/2022/0417.
CineCT platform for in vivo and ex vivo measurement of 3D high resolution Lagrangian strains in the left ventricle following myocardial infarction and intramyocardial delivery of theranostic hydrogelMidgett D, Thorn S, Ahn S, Uman S, Avendano R, Melvinsdottir I, Lysyy T, Kim J, Duncan J, Humphrey J, Papademetris X, Burdick J, Sinusas A. CineCT platform for in vivo and ex vivo measurement of 3D high resolution Lagrangian strains in the left ventricle following myocardial infarction and intramyocardial delivery of theranostic hydrogel. Journal Of Molecular And Cellular Cardiology 2022, 166: 74-90. PMID: 35227737, PMCID: PMC9035115, DOI: 10.1016/j.yjmcc.2022.02.004.
In-vivo Measurement Of 3d Left Ventricular Myocardial Strain Using CineCT Imaging Post Myocardial Infarction And Following Intramyocardial Delivery Of Theranostic HydrogelMidgett D, Thorn S, Awn S, Uman S, Lysyy T, Kim J, Duncan J, Humphrey J, Papademetris X, Burdick J, Sinusas A. In-vivo Measurement Of 3d Left Ventricular Myocardial Strain Using CineCT Imaging Post Myocardial Infarction And Following Intramyocardial Delivery Of Theranostic Hydrogel. Journal Of Cardiovascular Computed Tomography 2021, 15: s26-s27. DOI: 10.1016/j.jcct.2021.06.215.
Multiple-Shooting Adjoint Method for Whole-Brain Dynamic Causal ModelingZhuang J, Dvornek N, Tatikonda S, Papademetris X, Ventola P, Duncan J. Multiple-Shooting Adjoint Method for Whole-Brain Dynamic Causal Modeling. 2021, 12729: 58-70. DOI: 10.1007/978-3-030-78191-0_5.
Deep-learned placental vessel segmentation for intraoperative video enhancement in fetoscopic surgerySadda P, Imamoglu M, Dombrowski M, Papademetris X, Bahtiyar MO, Onofrey J. Deep-learned placental vessel segmentation for intraoperative video enhancement in fetoscopic surgery. International Journal Of Computer Assisted Radiology And Surgery 2018, 14: 227-235. PMID: 30484115, PMCID: PMC6438174, DOI: 10.1007/s11548-018-1886-4.
Deep Learning Retinal Vessel Segmentation from a Single Annotated Example: An Application of Cyclic Generative Adversarial Neural NetworksSadda P, Onofrey J, Papademetris X. Deep Learning Retinal Vessel Segmentation from a Single Annotated Example: An Application of Cyclic Generative Adversarial Neural Networks. 2018, 11043: 82-91. DOI: 10.1007/978-3-030-01364-6_10.
Better Feature Matching for Placental Panorama ConstructionSadda P, Onofrey J, Bahtiyar M, Papademetris X. Better Feature Matching for Placental Panorama Construction. 2018, 11076: 128-137. DOI: 10.1007/978-3-030-00807-9_13.
Segmenting the Brain Surface From CT Images With Artifacts Using Locally Oriented Appearance and Dictionary LearningOnofrey JA, Staib LH, Papademetris X. Segmenting the Brain Surface From CT Images With Artifacts Using Locally Oriented Appearance and Dictionary Learning. IEEE Transactions On Medical Imaging 2018, 38: 596-607. PMID: 30176584, PMCID: PMC6476428, DOI: 10.1109/tmi.2018.2868045.
Abstract 124: Radiotracer Imaging of Serial Changes in Angiosome Foot Perfusion in Critical Limb Ischemia Patients Undergoing Lower Extremity Revascularization: Association With 12-month Limb Salvage OutcomesChou T, Alvelo J, Papademetris X, Sumpio B, Sinusas A, Mena-Hurtado C, Stacy M. Abstract 124: Radiotracer Imaging of Serial Changes in Angiosome Foot Perfusion in Critical Limb Ischemia Patients Undergoing Lower Extremity Revascularization: Association With 12-month Limb Salvage Outcomes. Arteriosclerosis Thrombosis And Vascular Biology 2018, 38 DOI: 10.1161/atvb.38.suppl_1.124.
A Fetal FMRI Specific Motion Correction Algorithm Using 2ND Order Edge FeaturesScheinost* D, Onofrey J, Kwon S, Cross S, Sze G, Ment L, Papademetris X. A Fetal FMRI Specific Motion Correction Algorithm Using 2ND Order Edge Features. 2018, 1288-1292. DOI: 10.1109/isbi.2018.8363807.
The Generalized Steiner Cable-Trench Problem with Application to Error Correction in Vascular Image AnalysisLandquist E, Vasko F, Kresge G, Tal A, Jiang Y, Papademetris X. The Generalized Steiner Cable-Trench Problem with Application to Error Correction in Vascular Image Analysis. 2017, 391-397. DOI: 10.1007/978-3-319-55702-1_52.
RADIOTRACER IMAGING ALLOWS FOR ASSESSMENT OF SERIAL CHANGES IN ANGIOSOME FOOT PERFUSION FOLLOWING REVASCULARIZATION AND PREDICTS LIMB SALVAGE OUTCOMES IN PATIENTS WITH CRITICAL LIMB ISCHEMIABuckley J, Mena-Hurtado C, Jeon S, Papademetris X, Blume P, Sumpio B, Sinusas A, Stacy M. RADIOTRACER IMAGING ALLOWS FOR ASSESSMENT OF SERIAL CHANGES IN ANGIOSOME FOOT PERFUSION FOLLOWING REVASCULARIZATION AND PREDICTS LIMB SALVAGE OUTCOMES IN PATIENTS WITH CRITICAL LIMB ISCHEMIA. Journal Of The American College Of Cardiology 2017, 69: 1393. DOI: 10.1016/s0735-1097(17)34782-4.
RADIOTRACER IMAGING OF ANGIOSOME FOOT PERFUSION CORRELATES WITH ANKLE-BRACHIAL INDEX AND DIFFERENTIATES CRITICAL LIMB ISCHEMIA PATIENTS FROM HEALTHY SUBJECTSBuckley J, Papademetris X, Mena-Hurtado C, Blume P, Sumpio B, Sinusas A, Stacy M. RADIOTRACER IMAGING OF ANGIOSOME FOOT PERFUSION CORRELATES WITH ANKLE-BRACHIAL INDEX AND DIFFERENTIATES CRITICAL LIMB ISCHEMIA PATIENTS FROM HEALTHY SUBJECTS. Journal Of The American College Of Cardiology 2017, 69: 1518. DOI: 10.1016/s0735-1097(17)34907-0.
Using connectome-based predictive modeling to predict individual behavior from brain connectivityShen X, Finn ES, Scheinost D, Rosenberg MD, Chun MM, Papademetris X, Constable RT. Using connectome-based predictive modeling to predict individual behavior from brain connectivity. Nature Protocols 2017, 12: 506-518. PMID: 28182017, PMCID: PMC5526681, DOI: 10.1038/nprot.2016.178.
Abstract No. 34 Identifying enhancement-based staging markers on baseline MR imaging in patients with colorectal cancer liver metastases undergoing loco-regional tumor therapyGhani M, Chapiro J, Letzen B, Thakur V, Lin M, Papademetris X, Schernthaner R, Huber S, Geschwind J. Abstract No. 34 Identifying enhancement-based staging markers on baseline MR imaging in patients with colorectal cancer liver metastases undergoing loco-regional tumor therapy. Journal Of Vascular And Interventional Radiology 2017, 28: s17-s18. DOI: 10.1016/j.jvir.2016.12.621.
Abstract No. 179 Assessing tumor response to TACE in infiltrative HCC using an enhancement-based whole-liver approachLiu C, Smolka S, MU L, Papademetris X, Treilhard J, Chapiro J, Lin M, Geschwind J. Abstract No. 179 Assessing tumor response to TACE in infiltrative HCC using an enhancement-based whole-liver approach. Journal Of Vascular And Interventional Radiology 2017, 28: s79-s80. DOI: 10.1016/j.jvir.2016.12.781.
MRI-TRUS Image Synthesis with Application to Image-Guided Prostate InterventionOnofrey J, Oksuz I, Sarkar S, Venkataraman R, Staib L, Papademetris X. MRI-TRUS Image Synthesis with Application to Image-Guided Prostate Intervention. 2016, 9968: 157-166. DOI: 10.1007/978-3-319-46630-9_16.
Abstract 325: Non-Invasive Volumetric Assessment of Angiosome Perfusion in Diabetic Patients With Critical Limb Ischemia and Non-Healing Ulcers Using Radiotracer ImagingBuckley J, Mena C, Papademetris X, Blume P, Sumpio B, Sinusas A, Stacy M. Abstract 325: Non-Invasive Volumetric Assessment of Angiosome Perfusion in Diabetic Patients With Critical Limb Ischemia and Non-Healing Ulcers Using Radiotracer Imaging. Arteriosclerosis Thrombosis And Vascular Biology 2016, 36 DOI: 10.1161/atvb.36.suppl_1.325.
Learning intervention-induced deformations for non-rigid MR-CT registration and electrode localization in epilepsy patientsOnofrey JA, Staib LH, Papademetris X. Learning intervention-induced deformations for non-rigid MR-CT registration and electrode localization in epilepsy patients. NeuroImage Clinical 2015, 10: 291-301. PMID: 26900569, PMCID: PMC4724039, DOI: 10.1016/j.nicl.2015.12.001.
A simple and efficient strategy for solving very large‐scale generalized cable‐trench problemsVasko F, Landquist E, Kresge G, Tal A, Jiang Y, Papademetris X. A simple and efficient strategy for solving very large‐scale generalized cable‐trench problems. Networks 2015, 67: 199-208. DOI: 10.1002/net.21614.
Corrigendum to “Contour tracking in echocardiographic sequences via sparse representation and dictionary learning” [Med. Image Anal. 18 (2) (2014) 253–271]Huang X, Dione D, Compas C, Papademetris X, Lin B, Bregasi A, Sinusas A, Staib L, Duncan J. Corrigendum to “Contour tracking in echocardiographic sequences via sparse representation and dictionary learning” [Med. Image Anal. 18 (2) (2014) 253–271]. Medical Image Analysis 2015, 22: 21. DOI: 10.1016/j.media.2015.01.006.
Abstract 297: SPECT/CT Imaging of Regional Foot Perfusion Provides a Quantitative Index for Evaluation of Targeted Revascularization in the Diabetic FootStacy M, Papademetris X, Sumpio B, Sumpio B, Mena C, Sinusas A. Abstract 297: SPECT/CT Imaging of Regional Foot Perfusion Provides a Quantitative Index for Evaluation of Targeted Revascularization in the Diabetic Foot. Arteriosclerosis Thrombosis And Vascular Biology 2015, 35 DOI: 10.1161/atvb.35.suppl_1.297.
Methodological Issues in fMRI Functional Connectivity and Network AnalysisFinn E, Scheinost D, Shen X, Papademetris X, Constable R. Methodological Issues in fMRI Functional Connectivity and Network Analysis. 2015, 697-704. DOI: 10.1016/b978-0-12-397025-1.00352-3.
Physical Model Based Recovery of Displacement and Deformations from 3D Medical ImagesYang P, Delorenzo C, Papademetris X, Duncan J. Physical Model Based Recovery of Displacement and Deformations from 3D Medical Images. 2015, 309-329. DOI: 10.1007/978-0-387-09749-7_17.
Semi-supervised Learning of Nonrigid Deformations for Image RegistrationOnofrey J, Staib L, Papademetris X. Semi-supervised Learning of Nonrigid Deformations for Image Registration. 2014, 8331: 13-23. DOI: 10.1007/978-3-319-05530-5_2.
Semi-supervised Learning of Nonrigid Deformations for Image RegistrationOnofrey J, Staib L, Papademetris X. Semi-supervised Learning of Nonrigid Deformations for Image Registration. 2014, 13-23. DOI: 10.1007/978-3-319-14104-6_2.
Coupled Intrinsic Connectivity: A Principled Method for Exploratory Analysis of Paired DataScheinost D, Shen X, Finn E, Sinha R, Constable R, Papademetris X. Coupled Intrinsic Connectivity: A Principled Method for Exploratory Analysis of Paired Data. 2013, 219-227. DOI: 10.1007/978-3-319-02475-2_20.
167 Diffusion Tensor Imaging as a Predictor of Experimental Spinal Cord Injury Severity and RecoveryKelley B, Harel N, Kim C, Wang X, Hasan O, Kauffman A, Globinsky R, Staib L, Papademetris X, Strittmatter S. 167 Diffusion Tensor Imaging as a Predictor of Experimental Spinal Cord Injury Severity and Recovery. Neurosurgery 2013, 60: 175-176. DOI: 10.1227/01.neu.0000432759.85289.43.
4-D echocardiography assessment of local myocardial strain using 3-D speckle tracking combined with shape trackingWong E, O'Donnell M, Thiele K, Comnas C, Huang X, Sampath S, Lin B, Pal P, Papademetris X, Dione D, Staib L, Sinusas A, Duncan J. 4-D echocardiography assessment of local myocardial strain using 3-D speckle tracking combined with shape tracking. 2013, 100-103. DOI: 10.1109/ultsym.2013.0026.
Prostate Edema Characterization Using Image Registration and PCAJiang Y, Zhai Y, Papademetris X, Roberts K, Nath R, Chen Z. Prostate Edema Characterization Using Image Registration and PCA. 2013, 39: 1754-1757. DOI: 10.1007/978-3-642-29305-4_461.
SU‐E‐T‐327: Tracking Palladium Seeds Implanted in Prostate Using Shape Analysis ApproachZhai Y, Jiang Y, Papademetris X, Roberts K, Nath R, Chen Z. SU‐E‐T‐327: Tracking Palladium Seeds Implanted in Prostate Using Shape Analysis Approach. Medical Physics 2012, 39: 3779-3779. DOI: 10.1118/1.4735414.
A COMBINED SHAPE TRACKING AND SPECKLE TRACKING APPROACH FOR 4D DEFORMATION ANALYSIS IN ECHOCARDIOGRAPHYCompas C, Wong E, Huang X, Sampath S, Lin B, Papademetris X, Thiele K, Dione D, Sinusas A, O'Donnell M, Duncan J. A COMBINED SHAPE TRACKING AND SPECKLE TRACKING APPROACH FOR 4D DEFORMATION ANALYSIS IN ECHOCARDIOGRAPHY. 2012, 1: 458-461. DOI: 10.1109/isbi.2012.6235583.
Real-time fMRI Biofeedback Targeting the Orbitofrontal Cortex for Contamination AnxietyHampson M, Stoica T, Saksa J, Scheinost D, Qiu M, Bhawnani J, Pittenger C, Papademetris X, Constable T. Real-time fMRI Biofeedback Targeting the Orbitofrontal Cortex for Contamination Anxiety. Journal Of Visualized Experiments 2012 DOI: 10.3791/3535-v.
Automated Segmentation of Real-Time 3D Echocardiography Using an Incompressibility ConstraintZhu Y, Papademetris X, Sinusas A, Duncan J. Automated Segmentation of Real-Time 3D Echocardiography Using an Incompressibility Constraint. 2012 DOI: 10.5772/28992.
MO‐G‐BRA‐01: Evaluation of Prostate Post‐Implant Dosimetry by Tracking Edema Resolution with Deformable Image RegistrationZhai Y, Jiang Y, Papademetris X, Roberts K, Nath R, Chen Z. MO‐G‐BRA‐01: Evaluation of Prostate Post‐Implant Dosimetry by Tracking Edema Resolution with Deformable Image Registration. Medical Physics 2011, 38: 3733-3733. DOI: 10.1118/1.3613046.
TH‐A‐220‐09: A Study of Prostate Edema Resolution Pattern by Principle Component AnalysisJiang Y, Zhai Y, Papademetris X, Roberts K, Pathare P, Nath R, Chen Z. TH‐A‐220‐09: A Study of Prostate Edema Resolution Pattern by Principle Component Analysis. Medical Physics 2011, 38: 3847-3847. DOI: 10.1118/1.3613487.
AUGMENTED INLINE-BASED NAVIGATION FOR STEREOTACTIC IMAGE GUIDED NEUROSURGERYJoshi A, Scheinost D, Globinsky R, Vives K, Spencer D, Staib L, Papademetris X. AUGMENTED INLINE-BASED NAVIGATION FOR STEREOTACTIC IMAGE GUIDED NEUROSURGERY. 2011 IEEE International Symposium On Biomedical Imaging: From Nano To Macro 2011, 1869-1872. PMID: 23377314, PMCID: PMC3557840, DOI: 10.1109/isbi.2011.5872772.
Unified Framework for Development, Deployment and Robust Testing of Neuroimaging AlgorithmsJoshi A, Scheinost D, Okuda H, Belhachemi D, Murphy I, Staib LH, Papademetris X. Unified Framework for Development, Deployment and Robust Testing of Neuroimaging Algorithms. Neuroinformatics 2011, 9: 69-84. PMID: 21249532, PMCID: PMC3066099, DOI: 10.1007/s12021-010-9092-8.
A non-rigid registration method for serial lower extremity hybrid SPECT/CT imagingSuh JW, Scheinost D, Dione DP, Dobrucki LW, Sinusas AJ, Papademetris X. A non-rigid registration method for serial lower extremity hybrid SPECT/CT imaging. Medical Image Analysis 2010, 15: 96-111. PMID: 20869902, PMCID: PMC2988883, DOI: 10.1016/j.media.2010.08.002.
LIGHT-SENSITIVE VISUALIZATION OF MULTIMODAL DATA FOR NEUROSURGICAL APPLICATIONSJoshi A, Papanastassiou A, Vives K, Spencer D, Staib L, Papademetris X. LIGHT-SENSITIVE VISUALIZATION OF MULTIMODAL DATA FOR NEUROSURGICAL APPLICATIONS. 2011 IEEE International Symposium On Biomedical Imaging: From Nano To Macro 2010, 2010: 884-887. PMID: 21552380, PMCID: PMC3086020, DOI: 10.1109/isbi.2010.5490128.
Vascular Tree Reconstruction by Minimizing A Physiological Functional CostJiang Y, Zhuang Z, Sinusas AJ, Papademetris X. Vascular Tree Reconstruction by Minimizing A Physiological Functional Cost. 2008 IEEE Computer Society Conference On Computer Vision And Pattern Recognition Workshops 2010, 178-185. PMID: 21755061, PMCID: PMC3132942, DOI: 10.1109/cvprw.2010.5543593.
Constrained Non-rigid Registration Using Lagrange Multipliers for Application in Prostate RadiotherapyLu C, Chelikani S, Papademetris X, Staib L, Duncan J. Constrained Non-rigid Registration Using Lagrange Multipliers for Application in Prostate Radiotherapy. 2010, 133-138. DOI: 10.1109/cvprw.2010.5543137.
Corrigendum to “Constrained non-rigid registration for use in image-guided adaptive radiotherapy” [Medical Image Analysis 13 (2009) 809–817]Greene W, Chelikani S, Purushothaman K, Knisely J, Chen Z, Papademetris X, Staib L, Duncan J. Corrigendum to “Constrained non-rigid registration for use in image-guided adaptive radiotherapy” [Medical Image Analysis 13 (2009) 809–817]. Medical Image Analysis 2010, 14: 85. DOI: 10.1016/j.media.2009.09.003.
A VTK-based, CUDA-optimized Non-Parametric Vessel Detection MethodAlpoge L, Joshi A, Scheinost D, Onofrey J, Qian X, Papademetris X. A VTK-based, CUDA-optimized Non-Parametric Vessel Detection Method. The VTK Journal 2010 DOI: 10.54294/z1w0uu.
Unified framework for development, deployment and testing of image analysis algorithmsJoshi A, Scheinost D, Okuda H, Murphy I, Staib L, Papademetris X. Unified framework for development, deployment and testing of image analysis algorithms. The MIDAS Journal 2009 DOI: 10.54294/pq6gf6.
Intrinsic Connectivity Contrast: A Voxel Level Summary of Tissue ConnectivityConstable, Hara Y, Tokoglu F, Papademetris X. Intrinsic Connectivity Contrast: A Voxel Level Summary of Tissue Connectivity. NeuroImage 2009, 47: s186. DOI: 10.1016/s1053-8119(09)72066-x.
Shape comparison using perturbing shape registrationJiang Y, Edmiston E, Wang F, Blumberg HP, Staib LH, Papademetris X. Shape comparison using perturbing shape registration. 2015 IEEE Conference On Computer Vision And Pattern Recognition (CVPR) 2009, 2009: 683-690. PMID: 20386618, PMCID: PMC2852275, DOI: 10.1109/cvpr.2009.5206598.
From medical image computing to computer‐aided intervention: development of a research interface for image‐guided navigationPapademetris X, DeLorenzo C, Flossmann S, Neff M, Vives KP, Spencer DD, Staib LH, Duncan JS. From medical image computing to computer‐aided intervention: development of a research interface for image‐guided navigation. International Journal Of Medical Robotics And Computer Assisted Surgery 2009, 5: 147-157. PMID: 19301361, PMCID: PMC2796181, DOI: 10.1002/rcs.241.
Constrained Non-rigid Registration (CNRR): An Image Guided Method to Update Prostate External Beam Radiotherapy (EBRT) PlansGreene W, Chelikani S, Purushothaman K, Chen Z, Knisely J, Staib L, Papademetris X, Duncan J. Constrained Non-rigid Registration (CNRR): An Image Guided Method to Update Prostate External Beam Radiotherapy (EBRT) Plans. International Journal Of Radiation Oncology • Biology • Physics 2008, 72: s580. DOI: 10.1016/j.ijrobp.2008.06.172.
A non-parametric vessel detection method for complex vascular structuresQian X, Brennan MP, Dione DP, Dobrucki WL, Jackowski MP, Breuer CK, Sinusas AJ, Papademetris X. A non-parametric vessel detection method for complex vascular structures. Medical Image Analysis 2008, 13: 49-61. PMID: 18678521, PMCID: PMC2614119, DOI: 10.1016/j.media.2008.05.005.
Integrated Segmentation and Motion Analysis of Cardiac MR Images Using a Subject-Specific Dynamical ModelZhu Y, Papademetris X, Sinusas A, Duncan J. Integrated Segmentation and Motion Analysis of Cardiac MR Images Using a Subject-Specific Dynamical Model. 2008, 1-8. DOI: 10.1109/cvprw.2008.4563007.
INTEGRATED SEGMENTATION AND DEFORMATION ANALYSIS OF 4-D CARDIAC MR IMAGESZhu Y, Yan P, Papademetris X, Sinusas A, Duncan J. INTEGRATED SEGMENTATION AND DEFORMATION ANALYSIS OF 4-D CARDIAC MR IMAGES. 2008, 1437-1440. DOI: 10.1109/isbi.2008.4541277.
A Constrained Non-rigid Registration Algorithm for Use in Prostate Image-Guided RadiotherapyGreene W, Chelikani S, Purushothaman K, Chen Z, Knisely J, Staib L, Papademetris X, Duncan J. A Constrained Non-rigid Registration Algorithm for Use in Prostate Image-Guided Radiotherapy. 2008, 11: 780-788. PMID: 18979817, PMCID: PMC2790815, DOI: 10.1007/978-3-540-85988-8_93.
Effective Visualization of Complex Vascular Structures Using a Non-Parametric Vessel Detection MethodJoshi A, Qian X, Dione DP, Bulsara KR, Breuer CK, Sinusas AJ, Papademetris X. Effective Visualization of Complex Vascular Structures Using a Non-Parametric Vessel Detection Method. IEEE Transactions On Visualization And Computer Graphics 2008, 14: 1603-1610. PMID: 18989016, PMCID: PMC2636705, DOI: 10.1109/tvcg.2008.123.
Constrained Non-Rigid (NR) Registration for Use in Aligning Critical Organs in External Beam Radiotherapy (EBRT) for Prostate CancerGreene W, Chelikani S, Papademetris X, Knisely J, Duncan J. Constrained Non-Rigid (NR) Registration for Use in Aligning Critical Organs in External Beam Radiotherapy (EBRT) for Prostate Cancer. International Journal Of Radiation Oncology • Biology • Physics 2007, 69: s699. DOI: 10.1016/j.ijrobp.2007.07.2073.
Local Shape Registration Using Boundary-Constrained Match of SkeletonsZhu Y, Papademetris X, Sinusas A, Duncan J. Local Shape Registration Using Boundary-Constrained Match of Skeletons. 2007, 1-8. DOI: 10.1109/cvpr.2007.383427.
A REALISTIC BRAIN PHANTOM FOR 3D DEFORMATION RECOVERYDeLorenzo C, Papademetris X, Vives K, Spencer D, Duncan J. A REALISTIC BRAIN PHANTOM FOR 3D DEFORMATION RECOVERY. 2007, 9-12. DOI: 10.1109/isbi.2007.356775.
Abnormalities in white matter structure in autism spectrum disorders detected by diffusion tensor imagingJou R, Paterson S, Papademetris X, Staib L, Schultz R. Abnormalities in white matter structure in autism spectrum disorders detected by diffusion tensor imaging. Neuroscience Research 2007, 58: s62. DOI: 10.1016/j.neures.2007.06.367.
Detection of Complex Vascular Structures using Polar Neighborhood Intensity ProfileQian X, Brennan M, Dione D, Dobrucki W, Jackowski M, Breuer C, Sinusas A, Papademetris X. Detection of Complex Vascular Structures using Polar Neighborhood Intensity Profile. 2015 IEEE International Conference On Computer Vision (ICCV) 2007, 1-8. DOI: 10.1109/iccv.2007.4409172.
Nonrigid Intraoperative Cortical Surface Tracking Using Game TheoryDeLorenzo C, Papademetris X, Staib L, Vives K, Spencer D, Duncan J. Nonrigid Intraoperative Cortical Surface Tracking Using Game Theory. 2015 IEEE International Conference On Computer Vision (ICCV) 2007, 1-8. DOI: 10.1109/iccv.2007.4409135.
Medical Image Analysis with VTK: A TutorialPapademetris X. Medical Image Analysis with VTK: A Tutorial. Insight Journal 2006 DOI: 10.54294/gf96ro.
The BioImage Suite Datatree Tool: Enabling Flexible Realtime Surgical VisualizationsDiStasio M, Vives K, Papademetris X. The BioImage Suite Datatree Tool: Enabling Flexible Realtime Surgical Visualizations. Insight Journal 2006 DOI: 10.54294/f0fw56.
CORRELATION OF MAGNETIC RESONANCE SPECTROSCOPIC IMAGING AND INTRACRANIAL EEG LOCALIZATION OF SEIZURESNovotny E, Scharff E, Zaveri H, Papademetris X, Blumenfeld H, Duckrow R, Hetherington H, Spencer S, Spencer D, Duncan J. CORRELATION OF MAGNETIC RESONANCE SPECTROSCOPIC IMAGING AND INTRACRANIAL EEG LOCALIZATION OF SEIZURES. Neuropediatrics 2006, 37 DOI: 10.1055/s-2006-945791.
Combined Feature/Intensity-Based Brain Shift Compensation Using Stereo GuidanceDeLorenzo C, Papademetris X, Vives K, Spencer D, Duncan J. Combined Feature/Intensity-Based Brain Shift Compensation Using Stereo Guidance. 2006, 335-338. DOI: 10.1109/isbi.2006.1624921.
Development of a Research Interface for Image Guided Intervention: Initial Application to Epilepsy NeurosurgeryPapademetris X, Vives K, DiStasio M, Staib L, Neff M, Flossman S, Frielinghaus N, Zaveri H, Novotny E, Blumenfeld H, Constable R, Hetherington H, Duckrow R, Spencer S, Spencer D, Duncan J. Development of a Research Interface for Image Guided Intervention: Initial Application to Epilepsy Neurosurgery. 2006, 490-493. DOI: 10.1109/isbi.2006.1624960.
Correlation of Magnetic Resonance Spectroscopic Imaging and Intracranial Eeg Localization of SeizuresScharff E, Papademetris X, Hetherington H, Pan J, Zaveri H, Blumenfeld H, Duckrow R, Spencer S, Spencer D, Duncan J, Novotny E. Correlation of Magnetic Resonance Spectroscopic Imaging and Intracranial Eeg Localization of Seizures. 2006, 510-513. DOI: 10.1109/isbi.2006.1624965.
Spatial resolution, signal-to-noise ratio, and smoothing in multi-subject functional MRI studiesScouten A, Papademetris X, Constable R. Spatial resolution, signal-to-noise ratio, and smoothing in multi-subject functional MRI studies. NeuroImage 2005, 30: 787-793. PMID: 16343951, DOI: 10.1016/j.neuroimage.2005.10.022.
BioImage Suite: An integrated medical image analysis suitePapademetris X, Jackowski M, Rajeevan N, Constable R, Staib L. BioImage Suite: An integrated medical image analysis suite. Insight Journal 2005 DOI: 10.54294/vb5z20.
Recovering Displacements and Deformations from 3D Medical Images Using Biomechanical ModelsPapademetris X, Škrinjar O, Duncan J. Recovering Displacements and Deformations from 3D Medical Images Using Biomechanical Models. 2004, 12: 551-590. DOI: 10.1016/s1570-8659(03)12006-6.
Construction of a 3D Volumetric Probabilistic Model of the Mouse Kidney from MRIOkuda H, Shkarin P, Behar K, Duncan J, Papademetris X. Construction of a 3D Volumetric Probabilistic Model of the Mouse Kidney from MRI. 2004, 3217: 1052-1054. DOI: 10.1007/978-3-540-30136-3_134.
Analysis of Left Ventricular Motion Using a General Robust Point Matching AlgorithmLin N, Papademetris X, Sinusas A, Duncan J. Analysis of Left Ventricular Motion Using a General Robust Point Matching Algorithm. 2003, 2878: 556-563. DOI: 10.1007/978-3-540-39899-8_69.
Computing 3D Non-rigid Brain Registration Using Extended Robust Point Matching for Composite Multisubject fMRI AnalysisPapademetris X, Jackowski A, Schultz R, Staib L, Duncan J. Computing 3D Non-rigid Brain Registration Using Extended Robust Point Matching for Composite Multisubject fMRI Analysis. 2003, 2879: 788-795. DOI: 10.1007/978-3-540-39903-2_96.
A New Biomechanical Model Based Approach on Brain Shift CompensationKobashi K, Papademetris X, Duncan J. A New Biomechanical Model Based Approach on Brain Shift Compensation. 2003, 2878: 59-66. DOI: 10.1007/978-3-540-39899-8_8.
Estimation of 3-D Left Ventricular Deformation from Medical Images Using Biomechanical ModelsPapademetris* X, Sinusas AJ, Dione DP, Constable RT, Duncan JS. Estimation of 3-D Left Ventricular Deformation from Medical Images Using Biomechanical Models. IEEE Transactions On Medical Imaging 2002, 21: 786. PMID: 12374316, DOI: 10.1109/tmi.2002.801163.
Quantification of 3-D regional myocardial deformation: shape-based analysis of magnetic resonance imagesSinusas A, Papademetris X, Constable R, Dione D, Slade M, Shi P, Duncan J. Quantification of 3-D regional myocardial deformation: shape-based analysis of magnetic resonance images. AJP Heart And Circulatory Physiology 2001, 281: h698-h714. PMID: 11454574, DOI: 10.1152/ajpheart.2001.281.2.h698.
The Active Elastic ModelPapademetris X, Constable R, Onat E, Duncan J, Sinusas A, Dione D. The Active Elastic Model. 2001, 2082: 36-49. DOI: 10.1007/3-540-45729-1_4.
Estimation of 3D left ventricular deformation from echocardiographyPapademetris X, Sinusas A, Dione D, Duncan J. Estimation of 3D left ventricular deformation from echocardiography. Medical Image Analysis 2001, 5: 17-28. PMID: 11231174, DOI: 10.1016/s1361-8415(00)00022-0.
Computational Platforms for Integrated Cardiac Image AnalysisPapademetris X, Sinusas A, Duncan J. Computational Platforms for Integrated Cardiac Image Analysis. 2001, 23: 289-313. DOI: 10.1007/978-94-015-1265-7_11.
17.3 Transmyocardial excimer laser revascularization results in improvement of resting myocardial flowBedair H, Dione D, Arrighi J, Papademetris X, Condos S, Constable R, Duncan J, Soufer R, Sinusas A. 17.3 Transmyocardial excimer laser revascularization results in improvement of resting myocardial flow. Journal Of Nuclear Cardiology 2001, 8: s112. DOI: 10.1016/s1071-3581(01)80849-7.
Cardiac Image Analysis: Motion and DeformationSonka M, Fitzpatrick J, Papademetris X, Duncan J. Cardiac Image Analysis: Motion and Deformation. 2000, 675-710. DOI: 10.1117/3.831079.ch12.
Estimating 3D Strain from 4D Cine-MRI and Echocardiography: In-Vivo ValidationPapademetris X, Sinusas A, Dione D, Constable R, Duncan J. Estimating 3D Strain from 4D Cine-MRI and Echocardiography: In-Vivo Validation. 2000, 1935: 678-686. DOI: 10.1007/978-3-540-40899-4_70.
Recovery of Soft Tissue Object Deformation from 3D Image Sequences Using Biomechanical ModelsPapademetris X, Shi P, Dione D, Sinusas A, Constable R, Duncan J. Recovery of Soft Tissue Object Deformation from 3D Image Sequences Using Biomechanical Models. 1999, 1613: 352-357. DOI: 10.1007/3-540-48714-x_28.
3D Cardiac Deformation from Ultrasound ImagesPapademetris X, Sinusas A, Dione D, Duncan J. 3D Cardiac Deformation from Ultrasound Images. 1999, 1679: 420-429. DOI: 10.1007/10704282_46.
Visually interactive semi-automated 3D segmentation of cine cardiac magnetic resonance imagesPapademetris X, Rambo J, Dione D, Sinusas A, Duncan J. Visually interactive semi-automated 3D segmentation of cine cardiac magnetic resonance images. Journal Of The American College Of Cardiology 1998, 31: 7. DOI: 10.1016/s0735-1097(98)80687-6.
Estimation of motion boundary location and optical flow using dynamic programmingPapademetris X, Belhumeur P. Estimation of motion boundary location and optical flow using dynamic programming. 1996, 1: 509-512 vol.1. DOI: 10.1109/icip.1996.559545.

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