Csaba Pinter

@article{fichtinger2014q,

title = {SU‐E‐J‐42: Customized Deformable Image Registration Using Open‐Source Software SlicerRT},

author = {J Cifuentes Gaitan and Neil Kirby and Andras Lasso and Lee Chin and Csaba Pinter and J Pignol and Gabor Fichtinger and J Pouliot},

url = {https://aapm.onlinelibrary.wiley.com/doi/abs/10.1118/1.4888094},

year  = {2014},

date = {2014-01-01},

journal = {Medical Physics},

volume = {41},

issue = {6Part7},

pages = {164-164},

publisher = {American Association of Physicists in Medicine},

abstract = {Purpose 

SlicerRT is a flexible platform that allows the user to incorporate the necessary images registration and processing tools to improve clinical workflow. This work validates the accuracy and the versatility of the deformable image registration algorithm of the free open‐source software SlicerRT using a deformable physical pelvic phantom versus available commercial image fusion algorithms. 

Methods 

Optical camera images of nonradiopaque markers implanted in an anatomical pelvic phantom were used to measure the ground‐truth deformation and evaluate the theoretical deformations for several DIR algorithms. To perform the registration, full and empty bladder computed tomography (CT) images of the phantom were obtained and used as fixed and moving images, respectively. The DIR module, found in SlicerRT, used a B‐spline deformable image registration with multiple optimization parameters that …},

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}

@article{fichtinger2014,

title = {PLUS: open-source toolkit for ultrasound-guided intervention systems},

author = {Andras Lasso and Tamas Heffter and Adam Rankin and Csaba Pinter and Tamas Ungi and Gabor Fichtinger},

url = {https://ieeexplore.ieee.org/abstract/document/6813647/},

year  = {2014},

date = {2014-01-01},

journal = {IEEE transactions on biomedical engineering},

volume = {61},

issue = {10},

pages = {2527-2537},

publisher = {IEEE},

abstract = {A variety of advanced image analysis methods have been under the development for ultrasound-guided interventions. Unfortunately, the transition from an image analysis algorithm to clinical feasibility trials as part of an intervention system requires integration of many components, such as imaging and tracking devices, data processing algorithms, and visualization software. The objective of our paper is to provide a freely available open-source software platform—PLUS: Public software Library for Ultrasound—to facilitate rapid prototyping of ultrasound-guided intervention systems for translational clinical research. PLUS provides a variety of methods for interventional tool pose and ultrasound image acquisition from a wide range of tracking and imaging devices, spatial and temporal calibration, volume reconstruction, simulated image generation, and recording and live streaming of the acquired data. This paper …},

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}

@article{Bartha2013b,

title = {Open-source surface mesh-based ultrasound-guided spinal intervention simulator},

author = {Laura Bartha and Andras Lasso and Csaba Pinter and Tamas Ungi and Zsuzsanna Keri and Gabor Fichtinger},

url = {https://labs.cs.queensu.ca/perklab/wp-content/uploads/sites/3/2024/02/Bartha2013b.pdf},

doi = {10.1007/s11548-013-0901-z},

year  = {2013},

date = {2013-06-01},

urldate = {2013-06-01},

journal = {International Journal of Computer Assisted Radiology and Surgery},

volume = {8},

pages = {1043-51},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Pinter2013b,

title = {SlicerRT sets new standard for radiation therapy research tools},

author = {Csaba Pinter and Andras Lasso and An Wang and David Jaffray and Gabor Fichtinger},

url = {https://labs.cs.queensu.ca/perklab/wp-content/uploads/sites/3/2024/02/Pinter2013b.pdf},

year  = {2013},

date = {2013-03-01},

urldate = {2013-03-01},

journal = {ECR Today 2013},

pages = {19},

edition = {Technology Focus},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{Moult2013b,

title = {Temporal calibration of tracked ultrasound},

author = {Eric Moult and Tamas Ungi and Csaba Pinter and Mattea Welch and Andras Lasso and Gabor Fichtinger},

url = {https://labs.cs.queensu.ca/perklab/wp-content/uploads/sites/3/2024/02/Moult2013b.pdf

https://labs.cs.queensu.ca/perklab/wp-content/uploads/sites/3/2024/02/Moult2013b-poster_0.pdf},

year  = {2013},

date = {2013-02-01},

urldate = {2013-02-01},

address = {Toronto, ON, Canada},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{fichtinger2012q,

title = {Plus: An open-source toolkit for ultrasound-guided intervention systems development},

author = {Andras Lasso and Tamas Heffter and Csaba Pinter and Tamas Ungi and Thomas K Chen and Alexis Boucharin and Gabor Fichtinger},

url = {http://perk.cs.queensu.ca/sites/perkd7.cs.queensu.ca/files/Lasso2012a.pdf},

year  = {2012},

date = {2012-01-01},

journal = {ImNO2012-Imaging Network Ontario Symposium},

volume = {2},

pages = {2012},

abstract = {Purpose: Ultrasound-guided intervention systems require the integration of many hardware and software components, such as ultrasound scanner, position tracking device, data processing algorithms, and visualization software. The objective of this work is to provide a free and sharable software toolkit–PLUS (Public software Library for UltraSound)–to facilitate rapid prototyping of ultrasound-guided intervention systems for translational clinical research. 

Methods: The open-source SynchroGrab library for tracked ultrasound capturing and 3D reconstruction was released in 2008. We redesigned this monolithic library into a modular toolkit, each component was thoroughly tested, fixed, and enhanced, and several new functionalities were added. The toolkit now offers automatic spatial and temporal calibration methods. Standard data formats are used for streaming (OpenIGTLink) and storage (MetaIO image format with …},

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tppubtype = {article}

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@article{fichtinger2012d,

title = {Perk Tutor: an open-source training platform for ultrasound-guided needle insertions},

author = {Tamas Ungi and Derek Sargent and Eric Moult and Andras Lasso and Csaba Pinter and Robert C McGraw and Gabor Fichtinger},

url = {https://ieeexplore.ieee.org/abstract/document/6304910/},

year  = {2012},

date = {2012-01-01},

journal = {IEEE Transactions on Biomedical Engineering},

volume = {59},

issue = {12},

pages = {3475-3481},

publisher = {IEEE},

abstract = {Image-guided needle placement, including ultrasound (US)-guided techniques, have become commonplace in modern medical diagnosis and therapy. To ensure that the next generations of physicians are competent using this technology, efficient and effective educational programs need to be developed. This paper presents the Perk Tutor: a configurable, open-source training platform for US-guided needle insertions. The Perk Tutor was successfully tested in three different configurations to demonstrate its adaptability to different procedures and learning objectives. 1) The Targeting Tutor, designed to develop US-guided needle targeting skills, 2) the Lumbar Tutor, designed for practicing US-guided lumbar spinal procedures, and (3) the Prostate Biopsy Tutor, configured for US-guided prostate biopsies. The Perk Tutor provides the trainee with quantitative feedback on progress toward the specific learning …},

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pubstate = {published},

tppubtype = {article}

}

@article{fichtinger2012,

title = {SlicerRT: radiation therapy research toolkit for 3D Slicer},

author = {Csaba Pinter and Andras Lasso and An Wang and David Jaffray and Gabor Fichtinger},

url = {https://aapm.onlinelibrary.wiley.com/doi/abs/10.1118/1.4754659},

year  = {2012},

date = {2012-01-01},

journal = {Medical physics},

volume = {39},

issue = {10},

pages = {6332-6338},

publisher = {American Association of Physicists in Medicine},

abstract = {Purpose 

Interest in adaptive radiation therapy research is constantly growing, but software tools available for researchers are mostly either expensive, closed proprietary applications, or free open‐source packages with limited scope, extensibility, reliability, or user support. To address these limitations, we propose SlicerRT, a customizable, free, and open‐source radiation therapy research toolkit. SlicerRT aspires to be an open‐source toolkit for RT research, providing fast computations, convenient workflows for researchers, and a general image‐guided therapy infrastructure to assist clinical translation of experimental therapeutic approaches. It is a medium into which RT researchers can integrate their methods and algorithms, and conduct comparative testing. 

Methods 

SlicerRT was implemented as an extension for the widely used 3D Slicer medical image visualization and analysis application platform. SlicerRT …},

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pubstate = {published},

tppubtype = {article}

}

@article{Chen2011,

title = {Automated Intraoperative Calibration for Prostate Cancer Brachytherapy},

author = {Thomas K. Chen and Tamas Heffter and Andras Lasso and Csaba Pinter and Purang Abolmaesumi and E. Clif Burdette and Gabor Fichtinger},

url = {https://labs.cs.queensu.ca/perklab/wp-content/uploads/sites/3/2024/02/Chen2011.pdf},

doi = {10.1118/1.3651690},

year  = {2011},

date = {2011-11-01},

urldate = {2011-11-01},

journal = {Medical Physics},

volume = {38},

pages = {6285-6299},

keywords = {},

pubstate = {published},

tppubtype = {article}

}

@article{fichtinger2011q,

title = {Automated intraoperative calibration for prostate cancer brachytherapy},

author = {Thomas Kuiran Chen and Tamas Heffter and Andras Lasso and Csaba Pinter and Purang Abolmaesumi and E Clif Burdette and Gabor Fichtinger},

url = {https://aapm.onlinelibrary.wiley.com/doi/abs/10.1118/1.3651690},

year  = {2011},

date = {2011-01-01},

journal = {Medical physics},

volume = {38},

issue = {11},

pages = {6285-6299},

publisher = {American Association of Physicists in Medicine},

abstract = {Purpose: 

Prostate cancer brachytherapy relies on an accurate spatial registration between the implant needles and the TRUS image, called “calibration”. The authors propose a new device and a fast, automatic method to calibrate the brachytherapy system in the operating room, with instant error feedback. 

Methods: 

A device was CAD‐designed and precision‐engineered, which mechanically couples a calibration phantom with an exact replica of the standard brachytherapy template. From real‐time TRUS images acquired from the calibration device and processed by the calibration system, the coordinate transformation between the brachytherapy template and the TRUS images was computed automatically. The system instantly generated a report of the target reconstruction accuracy based on the current calibration outcome. 

Results: 

Four types of validation tests were conducted. First, 50 independent, real‐time …},

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pubstate = {published},

tppubtype = {article}

}

@article{fichtinger0000g,

title = {DCMQI: An open source library for standardized communication of quantitative image analysis results using DICOM},

author = {Jörg Riesmeier and Andras Lasso and Csaba Pinter and Gabor Fichtinger},

url = {https://core.ac.uk/download/pdf/154882139.pdf},

abstract = {Quantitative analysis of clinical image data is an active area of research that holds promise for precision medicine, early assessment of treatment response, and objective characterization of the disease. Interoperability, data sharing, and the ability to mine the resulting data are of increasing importance, given the explosive growth in the number of quantitative analysis methods being proposed. The Digital Imaging and Communications in Medicine (DICOM) standard is widely adopted for image and metadata in radiology. dcmqi (DICOM for Quantitative Imaging) is a free, open source library that implements conversion of the data stored in commonly used research formats into the standard DICOM representation. dcmqi source code is distributed under BSD-style license. It is freely available as a precompiled binary package for every major operating system, as a Docker image, and as an extension to 3D Slicer. Installation and usage instructions are provided in the GitHub repository at https://github. com/qiicr/dcmqi.},

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tppubtype = {article}

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@article{fichtinger0000h,

title = {Novel Mechanism Segments Anatomical Structures for 3D Printing April 27, 2017},

author = {Csaba Pinter},

url = {https://www.kitware.com/novel-mechanism-segments-anatomical-structures-for-3d-printing/},

abstract = {A fundamental task in most aspects of medical image computing is segmentation, ie, delineation of anatomical structures of interest for further processing and quantification. Segmentation can be manual, it can be semi-automatic (through the initialization of an algorithm with limited input), or it can be fully automatic (through an autonomous algorithm). A multitude of software tools and algorithms exist for each type of segmentation, and segmentation has served as the subject of extensive research in the field of medical image computing. 

Most commonly, three-dimensional (3D) binary volumes (labelmaps) store segmentation results. Each volume simply indicates whether a volumetric element (voxel) is inside or outside of the structure of interest. Three-dimensional binary volumes are optimal for most processing algorithms. To visualize structures, however, surface models are optimal. Instead of a structured grid of voxels, each surface model consists of a point cloud. Triangles connect the point cloud, which a 3D visualization can illustrate.},

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pubstate = {published},

tppubtype = {article}

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@article{fichtinger0000y,

title = {Using Fuzzy Logics to Determine Optimal Oversampling Factor for Rasterizing RT Structures in DVH Computation},

author = {Csaba Pinter and Tim Olding and L John Schreiner and Gabor Fichtinger},

url = {http://perk.cs.queensu.ca/sites/perkd7.cs.queensu.ca/files/Pinter2016-manuscript.pdf},

abstract = {Purpose 

Rasterizing three-dimensional surfaces into binary image volumes is a frequently performed 10 operation in radiation therapy (RT) workflows. For example, in both the clinic and research, dose-volume histograms (DVH) are used to evaluate the quality of an RT treatment plan. To calculate a DVH, the 3D surfaces (ie RT structures, usually targets and organs at risk) need to be rasterized into binary volumes. The details of this step may significantly influence the output DVH, so special attention is needed when setting up the rasterization parameters. 

Methods 

An effective way of improving the quality of the 15 rasterized volume (ie increasing similarity between that and the original structure) is to apply oversampling on the reference volume to simply increase the resolution of the output structure binary volume. However, increasing the oversampling factor significantly raises the computational and storage cost. This paper proposes a fuzzy-based automatic calculation of the oversampling factor so that higher values are only used in cases where necessary and beneficial. A fuzzy inference system was introduced 20 that applies fuzzy rules to determine an optimal oversampling factor based on two measures: relative structure size and structure complexity. 

Results 

The proposed algorithm was used to automatically},

keywords = {},

pubstate = {published},

tppubtype = {article}

}