Dr. Songbai Ji Profile

Dr. Songbai Ji

Assistant Professor of Engineering at Thayer School of Engineering at Dartmouth

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Author

Publications (32)

Proceedings Article | 29 March 2024 Poster + Paper

Simulation study of minimally invasive surgical scenes and their effect on hand-held stereovision driven level-wise registration techniques

Ryan Duke, Xiaoyao Fan, William Warner, Linton Evans, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 12928, 129281T (2024) https://doi.org/10.1117/12.3006256

KEYWORDS: Image segmentation, Deformation, Data modeling, Spine, Data processing, Surgery, Rigid registration, Image registration, Image processing, Depth maps

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Proceedings Article | 3 April 2023 Presentation + Paper

Towards accounting for intraoperative spine motion: a simulation study of registration between stereovision surfaces

William Warner, Xiaoyao Fan, Ryan Duke, Kristen Chen, Haley Stoner, Chen Li, Shaoju Wu, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 12466, 124661H (2023) https://doi.org/10.1117/12.2654396

KEYWORDS: Spine, Printed circuit board testing, Image registration, Surgery, Anatomy, Point clouds, Data acquisition, Computed tomography, MATLAB, Imaging systems

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Proceedings Article | 3 April 2023 Poster + Paper

Automated localization of mini-screw fiducials in spine CT scans

Ryan Duke, Xiaoyao Fan, William Warner, Steven Baltic, Kristen Chen, Linton Evans, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 12466, 124662J (2023) https://doi.org/10.1117/12.2654221

KEYWORDS: Computed tomography, Image segmentation, Printed circuit board testing, Spine, Image registration, Image processing, Head, Deformation, Voxels, Metals

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Proceedings Article | 4 April 2022 Poster + Paper

Preoperative-to-interoperative shift in spine pose measured as change in lordosis Cobb angle and its effect on navigational accuracy

William Warner, Xiaoyao Fan, Ryan Duke, Tahsin Khan, Songbai Ji, Steven Baltic, Sohail Mirza, Keith Paulsen

Proceedings Volume 12034, 120342B (2022) https://doi.org/10.1117/12.2612600

KEYWORDS: Spine, Navigation systems, Image registration, Computed tomography, Image processing, Motion measurement, Image segmentation, Surgery, Imaging systems, Image acquisition

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Proceedings Article | 4 April 2022 Poster + Presentation + Paper

Video data acquisition accuracy for hand-held stereovision in image-guided surgery

Ryan Duke, Xiaoyao Fan, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 12034, 120340F (2022) https://doi.org/10.1117/12.2611588

KEYWORDS: Video, Data acquisition, Calibration, Cameras, Camera shutters, Image-guided intervention, Image acquisition, Data processing, Video processing, Image processing

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Proceedings Article | 15 February 2021 Presentation + Paper

Stereovision surface stitching for image updating in open spine surgery

Xiaoyao Fan, Ryan Duke, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 11598, 115980D (2021) https://doi.org/10.1117/12.2582111

KEYWORDS: Data acquisition, Image segmentation, Image acquisition, Volume rendering, Video, Optical flow, Image registration, Detection and tracking algorithms, Spine, Surgery

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Proceedings Article | 15 February 2021 Poster + Presentation + Paper

A vertebral level-wise data augmentation scheme for segmentation via deep learning

Shaoju Wu, Yunliang Cai, Xiaoyao Fan, Sohail Mirza, Keith Paulsen, Songbai Ji

Proceedings Volume 11596, 1159639 (2021) https://doi.org/10.1117/12.2580937

KEYWORDS: Image segmentation, Spine, Pathology

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Proceedings Article | 15 February 2021 Poster + Presentation + Paper

Semi-automated calibration of a hand-held stereovision system using a tracked calibration frame for image guided surgery

Ryan Duke, Xiaoyao Fan, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 11598, 115981W (2021) https://doi.org/10.1117/12.2581099

KEYWORDS: Calibration, Image-guided intervention, Surgery, 3D image reconstruction, Stereoscopic cameras, Optical tracking, Optical calibration, Image acquisition, Data acquisition, Cameras

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Proceedings Article | 16 March 2020 Paper

Stereovision-updated image guidance in multi-level open spine surgery: short vs. long exposure

Xiaoyao Fan, Maxwell Durtschi, Chen Li, Linton Evans, Songbai Ji, Yunliang Cai, Sohail Mirza, Keith Paulsen

Proceedings Volume 11315, 1131529 (2020) https://doi.org/10.1117/12.2549646

KEYWORDS: Image registration, Image processing, Spine, Surgery, Computed tomography, Data acquisition, Navigation systems

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Proceedings Article | 8 March 2019 Paper

Calibration of a hand-held stereovision system for image-guided spinal surgery

Xiaoyao Fan, Maxwell Durtschi, Chen Li, Songbai Ji, Sohail Mirza, Keith Paulsen

Proceedings Volume 10951, 109511X (2019) https://doi.org/10.1117/12.2512861

KEYWORDS: Calibration, Spine, Surgery, Cameras, Image-guided intervention, Image registration, Corner detection, Computed tomography, Navigation systems, Stereoscopic cameras

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Proceedings Article | 3 March 2017 Paper

Automatic intraoperative fiducial-less patient registration using cortical surface

Xiaoyao Fan, David Roberts, Jonathan Olson, Songbai Ji, Keith Paulsen

Proceedings Volume 10135, 101352I (2017) https://doi.org/10.1117/12.2254471

KEYWORDS: Image registration, Magnetic resonance imaging, Image segmentation, Brain, 3D image processing, Medicine, Surgery, Neuroimaging, 3D image reconstruction, Binary data, Volume rendering, Brain mapping, Navigation systems

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Proceedings Article | 18 March 2016 Paper

Automatic geometric rectification for patient registration in image-guided spinal surgery

Yunliang Cai, Jonathan Olson, Xiaoyao Fan, Linton Evans, Keith Paulsen, David Roberts, Sohail Mirza, S. Scott Lollis, Songbai Ji

Proceedings Volume 9786, 97860E (2016) https://doi.org/10.1117/12.2216193

KEYWORDS: Image registration, Surgery, Spine, Image-guided intervention, Human subjects, Computed tomography, Image restoration, Image segmentation, Principal component analysis, Shape analysis, Tissues, Image processing, 3D modeling

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Proceedings Article | 18 March 2016 Paper

Image updating for brain deformation compensation in tumor resection

Xiaoyao Fan, Songbai Ji, Jonathan Olson, David Roberts, Alex Hartov, Keith Paulsen

Proceedings Volume 9786, 97862A (2016) https://doi.org/10.1117/12.2217223

KEYWORDS: Brain, Finite element methods, Neuroimaging, Optical flow, Magnetic resonance imaging, Image registration, Surgery, Tissues, Tumors, Motion models, Image segmentation, Volume rendering, Data modeling

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Proceedings Article | 18 March 2015 Paper

Localizing and tracking electrodes using stereovision in epilepsy cases

Xiaoyao Fan, Songbai Ji, David Roberts, Keith Paulsen

Proceedings Volume 9415, 94150G (2015) https://doi.org/10.1117/12.2082016

KEYWORDS: Electrodes, Surgery, Skull, Visualization, Brain, Epilepsy, Magnetic resonance imaging, Computed tomography, Optical flow, Neodymium

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Proceedings Article | 12 March 2014 Paper

Intraoperative measurement of indenter-induced brain deformation: a feasibility study

Songbai Ji, Xiaoyao Fan, David Roberts, Keith Paulsen

Proceedings Volume 9036, 903616 (2014) https://doi.org/10.1117/12.2043706

KEYWORDS: 3D image processing, Brain, 3D image reconstruction, In vivo imaging, Natural surfaces, Tissues, Tungsten, Image analysis, Image registration, Blood pressure

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Proceedings Article | 12 March 2014 Paper

Integration of intraoperative stereovision imaging for brain shift visualization during image-guided cranial procedures

Timothy Schaewe, Xiaoyao Fan, Songbai Ji, David Roberts, Keith Paulsen, David Simon

Proceedings Volume 9036, 90360X (2014) https://doi.org/10.1117/12.2043757

KEYWORDS: Visualization, 3D modeling, Data modeling, Image-guided intervention, Microscopes, 3D image processing, Neuroimaging, Brain, Magnetic resonance imaging, Visual process modeling

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Proceedings Article | 12 March 2013 Paper

Integration of intraoperative and model-updated images into an industry-standard neuronavigation system: initial results

Timothy Schaewe, Xiaoyao Fan, Songbai Ji, Alex Hartov, Leslie Hiemenz Holton, David Roberts, Keith Paulsen, David Simon

Proceedings Volume 8671, 867119 (2013) https://doi.org/10.1117/12.2007987

KEYWORDS: 3D modeling, Data modeling, Brain, Magnetic resonance imaging, Image processing, Process modeling, Neuroimaging, Surgery, Ultrasonography, Tumors

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Proceedings Article | 12 March 2013 Paper

Measuring soft tissue material properties using stereovision and indentation: a proof-of-concept study

Songbai Ji, Xiaoyao Fan, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 8671, 86710V (2013) https://doi.org/10.1117/12.2008041

KEYWORDS: Tissues, Natural surfaces, Brain, In vivo imaging, Optical tracking, Cameras, Optical flow, Motion models, Microscopes, 3D modeling

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Proceedings Article | 8 March 2013 Paper

Retractor-induced brain shift compensation in image-guided neurosurgery

Xiaoyao Fan, Songbai Ji, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 8671, 86710K (2013) https://doi.org/10.1117/12.2007685

KEYWORDS: Brain, Data modeling, Neuroimaging, Tissues, Natural surfaces, Surgery, 3D modeling, Magnetic resonance imaging, Clouds, Neodymium

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Proceedings Article | 25 February 2012 Open Access

Integration of 3D intraoperative ultrasound for enhanced neuronavigation

Keith Paulsen, Songbai Ji, Alex Hartov, Xiaoyao Fan, David Roberts

Proceedings Volume 8320, 83200S (2012) https://doi.org/10.1117/12.915588

KEYWORDS: 3D image processing, 3D acquisition, Image registration, 3D modeling, Ultrasonography, Transducers, Data modeling, Brain, Model-based design, Calibration

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Proceedings Article | 17 February 2012 Paper

Quantifying cortical surface harmonic deformation with stereovision during open cranial neurosurgery

Songbai Ji, Xiaoyao Fan, David Roberts, Keith Paulsen

Proceedings Volume 8316, 831634 (2012) https://doi.org/10.1117/12.911438

KEYWORDS: Natural surfaces, Image acquisition, Optical flow, Optical tracking, Blood pressure, Tissues, Microscopes, Cameras, Fourier transforms, Data modeling

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Proceedings Article | 17 February 2012 Paper

Registering stereovision surface with preoperative magnetic resonance images for brain shift compensation

Xiaoyao Fan, Songbai Ji, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 8316, 83161C (2012) https://doi.org/10.1117/12.911081

KEYWORDS: Brain, Neuroimaging, Magnetic resonance imaging, Data modeling, Volume rendering, Image registration, 3D image processing, Neodymium, Photography, 3D modeling

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Proceedings Article | 2 March 2011 Paper

Simulation of brain tumor resection in image-guided neurosurgery

Xiaoyao Fan, Songbai Ji, Kathryn Fontaine, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 7964, 79640U (2011) https://doi.org/10.1117/12.878104

KEYWORDS: Brain, Data modeling, Tissues, Natural surfaces, Neuroimaging, Tumors, Ultrasonography, 3D modeling, Surgery, Magnetic resonance imaging

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Preoperative magnetic resonance images are typically used for neuronavigation in image-guided neurosurgery. However, intraoperative brain deformation (e.g., as a result of gravitation, loss of cerebrospinal fluid, retraction, resection, etc.) significantly degrades the accuracy in image guidance, and must be compensated for in order to maintain sufficient accuracy for navigation. Biomechanical finite element models are effective techniques that assimilate intraoperative data and compute whole-brain deformation from which to generate model-updated MR images (uMR) to improve accuracy in intraoperative guidance. To date, most studies have focused on early surgical stages (i.e., after craniotomy and durotomy), whereas simulation of more complex events at later surgical stages has remained to be a challenge using biomechanical models. We have developed a method to simulate partial or complete tumor resection that incorporates intraoperative volumetric ultrasound (US) and stereovision (SV), and the resulting whole-brain deformation was used to generate uMR. The 3D ultrasound and stereovision systems are complimentary to each other because they capture features deeper in the brain beneath the craniotomy and at the exposed cortical surface, respectively. In this paper, we illustrate the application of the proposed method to simulate brain tumor resection at three temporally distinct surgical stages throughout a clinical surgery case using sparse displacement data obtained from both the US and SV systems. We demonstrate that our technique is feasible to produce uMR that agrees well with intraoperative US and SV images after dural opening, after partial tumor resection, and after complete tumor resection. Currently, the computational cost to simulate tumor resection can be up to 30 min because of the need for re-meshing and the trial-and-error approach to refine the amount of tissue resection. However, this approach introduces minimal interruption to the surgical workflow, which suggests the potential for its clinical application with further improvement in computational efficiency.

Proceedings Article | 2 March 2011 Paper

Optimizing nonrigid registration performance between volumetric true 3D ultrasound images in image-guided neurosurgery

Songbai Ji, Xiaoyao Fan, David Roberts, Alex Hartov, Keith Paulsen

Proceedings Volume 7964, 79640V (2011) https://doi.org/10.1117/12.878353

KEYWORDS: Image registration, Data modeling, Brain, Ultrasonography, Magnetic resonance imaging, Tissues, Neuroimaging, Surgery, 3D image processing, 3D modeling

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Proceedings Article | 3 March 2010 Paper

An integrated model-based neurosurgical guidance system

Songbai Ji, Xiaoyao Fan, Kathryn Fontaine, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 7625, 762536 (2010) https://doi.org/10.1117/12.843499

KEYWORDS: Brain, Image registration, Data modeling, Surgery, Computational modeling, Calibration, Imaging systems, Model-based design, Systems modeling, Neuroimaging

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Proceedings Article | 24 February 2010 Paper

Graphical user interfaces for simulation of brain deformation in image-guided neurosurgery

Xiaoyao Fan, Songbai Ji, Pablo Valdes, David Roberts, Alex Hartov, Keith Paulsen

Proceedings Volume 7625, 762535 (2010) https://doi.org/10.1117/12.844036

KEYWORDS: Brain, Neuroimaging, Data modeling, Image segmentation, Image registration, Ultrasonography, Magnetic resonance imaging, Human-machine interfaces, Visualization, 3D image processing

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Proceedings Article | 13 March 2009 Paper

Model-based brain shift compensation in image-guided neurosurgery

Songbai Ji, Fenghong Liu, Xiaoyao Fan, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 7261, 72612E (2009) https://doi.org/10.1117/12.813704

KEYWORDS: Tumors, Brain, Image registration, Data modeling, Neuroimaging, Model-based design, 3D image processing, 3D modeling, Image segmentation, Visualization

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Proceedings Article | 13 March 2009 Paper

Brain tumor resection guided by fluorescence imaging and MRI image guidance

Pablo Valdes, Brent Harris, Frederic Leblond, Kathryn Fontaine, Songbai Ji, Brian Pogue, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 7261, 726103 (2009) https://doi.org/10.1117/12.813868

KEYWORDS: Magnetic resonance imaging, Luminescence, Tissues, Tumors, Microscopes, Brain, Gadolinium, Surgery, Image analysis, Image enhancement

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Proceedings Article | 24 February 2009 Paper

Brain tumor resection guided by fluorescence imaging

Frederic Leblond, Kathryn Fontaine, Pablo Valdes, Songbai Ji, Brian Pogue, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 7164, 71640M (2009) https://doi.org/10.1117/12.808928

KEYWORDS: Tumors, Luminescence, Surgery, Microscopes, Tissues, Brain, Magnetic resonance imaging, Navigation systems, Neuroimaging, Clinical trials

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Proceedings Article | 17 March 2008 Paper

Coregistered volumetric true 3D ultrasonography in image-guided neurosurgery

Songbai Ji, Alex Hartov, Kathryn Fontaine, Andrea Borsic, David Roberts, Keith Paulsen

Proceedings Volume 6918, 69180F (2008) https://doi.org/10.1117/12.770382

KEYWORDS: 3D image processing, Image registration, 3D acquisition, Visualization, Ultrasonography, Transducers, Image visualization, Image acquisition, Tumors, Composites

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Proceedings Article | 17 March 2008 Paper

Mutual-information-corrected tumor displacement using intraoperative ultrasound for brain shift compensation in image-guided neurosurgery

Songbai Ji, Alex Hartov, David Roberts, Keith Paulsen

Proceedings Volume 6918, 69182H (2008) https://doi.org/10.1117/12.770363

KEYWORDS: Tumors, Image registration, Data modeling, Brain, Image segmentation, Neuroimaging, Surgery, Ultrasonography, Head, Magnetic resonance imaging

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Proceedings Article | 22 March 2007 Paper

Brain-skull boundary conditions in a neurosurgery deformation model

Songbai Ji, Fenghong Liu, David Roberts, Alex Hartov, Keith Paulsen

Proceedings Volume 6509, 65092J (2007) https://doi.org/10.1117/12.709641

KEYWORDS: Brain, Skull, Chemical elements, Motion models, Tumors, Neuroimaging, Interfaces, Mathematical modeling, Computer simulations, Injuries

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Showing 5 of 32 publications

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