Connolly, Laura; Jamzad, Amoon; Nikniazi, Arash; Poushimin, Rana; Nunzi, Jean Michael; Rudan, John F.; Fichtinger, Gabor; Mousavi, Parvin
Feasibility of combined optical and acoustic imaging for surgical cavity scanning Proceedings Article
In: SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics, 2022, 2022.
@inproceedings{Connolly2022b,
title = {Feasibility of combined optical and acoustic imaging for surgical cavity scanning},
author = {Laura Connolly and Amoon Jamzad and Arash Nikniazi and Rana Poushimin and Jean Michael Nunzi and John F. Rudan and Gabor Fichtinger and Parvin Mousavi},
year = {2022},
date = {2022-02-20},
urldate = {2022-02-20},
booktitle = {SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics, 2022},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
March, Lucas; Rodgers, Jessica; Jamzad, Amoon; Santilli, Alice; Hisey, Rebecca; McKay, Doug; Rudan, John; Kaufmann, Martin; Ren, Kevin Yi Mi; Fichtinger, Gabor; Mousavi, Parvin
Phase Recognition and Cautery Localization in Basal Cell Carcinoma Surgical Videos Proceedings Article
In: SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics, 2022.
@inproceedings{nokey,
title = {Phase Recognition and Cautery Localization in Basal Cell Carcinoma Surgical Videos},
author = {Lucas March and Jessica Rodgers and Amoon Jamzad and Alice Santilli and Rebecca Hisey and Doug McKay and John Rudan and Martin Kaufmann and Kevin Yi Mi Ren and Gabor Fichtinger and Parvin Mousavi},
year = {2022},
date = {2022-02-20},
urldate = {2022-02-20},
booktitle = {SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Patel, Dhruv; Ziegler, Erik; Lewis, Rob; Mousavi, Parvin; Sedghi, Alireza
Deep image clustering for standardization of radiological workflows Proceedings Article
In: SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics, 2022.
@inproceedings{Patel2022,
title = {Deep image clustering for standardization of radiological workflows},
author = {Dhruv Patel and Erik Ziegler and Rob Lewis and Parvin Mousavi and Alireza Sedghi},
year = {2022},
date = {2022-02-20},
urldate = {2022-02-20},
booktitle = {SPIE Medical Imaging, International Society for Optics and Photonics International Society for Optics and Photonics},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Kaczmarek, Emily; Jamzad, Amoon; Imtiaz, Tashifa; Nanayakkara, Jina; Renwick, Neil; Mousavi, Parvin
Multi-Omic Graph Transformers for Cancer Classification and Interpretation Conference Forthcoming
Pacific Symposium on Biocomputing (PSB) 2022, Forthcoming.
@conference{Kaczmarek2022,
title = {Multi-Omic Graph Transformers for Cancer Classification and Interpretation},
author = {Emily Kaczmarek and Amoon Jamzad and Tashifa Imtiaz and Jina Nanayakkara and Neil Renwick and Parvin Mousavi},
year = {2022},
date = {2022-01-03},
booktitle = {Pacific Symposium on Biocomputing (PSB) 2022},
keywords = {},
pubstate = {forthcoming},
tppubtype = {conference}
}
Kaczmarek, Emily; Pyman, Blake; Nanayakkara, Jina; Tuschi, Thomas; Tyryshkin, Kathrin; Renwick, Neil; Mousavi, Parvin
Discriminating Neoplastic from Non-Neoplastic Tissues using a microRNA-based Deep Cancer Classifier Journal Article Forthcoming
In: The American Journal of Pathology, Forthcoming.
@article{Kaczmarek2021,
title = {Discriminating Neoplastic from Non-Neoplastic Tissues using a microRNA-based Deep Cancer Classifier},
author = {Emily Kaczmarek and Blake Pyman and Jina Nanayakkara and Thomas Tuschi and Kathrin Tyryshkin and Neil Renwick and Parvin Mousavi},
year = {2021},
date = {2021-12-20},
journal = {The American Journal of Pathology},
keywords = {},
pubstate = {forthcoming},
tppubtype = {article}
}
Aghaeeaval, Mahsa; Bendahan, Nathaniel; Shivji, Zaitoon; Mcinnis, Carter; Jamzad, Amoon; Lomax, Lysa Boisse; Shukla, Garima; Mousavi, Parvin; Winston, Gavin P
Prediction of Patient Survival Following Postanoxic Coma Using EEG Data and Clinical Features Proceedings Article Forthcoming
In: 43rd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC), IEEE 2021 Forthcoming.
@inproceedings{Aghaeeaval2021,
title = {Prediction of Patient Survival Following Postanoxic Coma Using EEG Data and Clinical Features},
author = {Mahsa Aghaeeaval and Nathaniel Bendahan and Zaitoon Shivji and Carter Mcinnis and Amoon Jamzad and Lysa Boisse Lomax and Garima Shukla and Parvin Mousavi and Gavin P Winston},
year = {2021},
date = {2021-10-31},
booktitle = {43rd Annual International Conference of the IEEE Engineering in Medicine \& Biology Society (EMBC)},
organization = {IEEE 2021},
keywords = {},
pubstate = {forthcoming},
tppubtype = {inproceedings}
}
Jamzad, Amoon; Santilli, Alice; Akbarifar, Faranak; Kaufmann, Martin; Logan, Kathryn; Wallis, Julie; Ren, Kevin Yi Mi; Merchant, Shaila; Engel, Jay; Varma, Sonal; Fichtinger, Gabor; Rudan, John F.; Mousavi, Parvin
Graph Transformers for characterization and interpretation of surgical margins Proceedings Article Forthcoming
In: Medical Image Computing and Computer Assisted Interventions (MICCAI), Forthcoming.
@inproceedings{Jamzad2021c,
title = {Graph Transformers for characterization and interpretation of surgical margins},
author = {Amoon Jamzad and Alice Santilli and Faranak Akbarifar and Martin Kaufmann and Kathryn Logan and Julie Wallis and Kevin Yi Mi Ren and Shaila Merchant and Jay Engel and Sonal Varma and Gabor Fichtinger and John F. Rudan and Parvin Mousavi},
year = {2021},
date = {2021-09-27},
booktitle = {Medical Image Computing and Computer Assisted Interventions (MICCAI)},
keywords = {},
pubstate = {forthcoming},
tppubtype = {inproceedings}
}
Akbarifar, Faranak; Dukelow, Sean P.; Mousavi, Parvin; Scott, Stephen H.
Computer-aided identification of stroke-associated motor impairments using a virtual reality augmented robotic system Workshop
Joint Workshop on Augmented Environments for Computer-Assisted Interventions (AE-CAI), Computer Assisted and Robotic Endoscopy (CARE), and OR 2.0 Context Aware Operating Theaters (OR2.0) in Medical Image Computing and Computer Assisted Interventions (MICCAI), 2021.
@workshop{Faranak2021,
title = {Computer-aided identification of stroke-associated motor impairments using a virtual reality augmented robotic system},
author = {Faranak Akbarifar and Sean P. Dukelow and Parvin Mousavi and Stephen H. Scott
},
year = {2021},
date = {2021-09-27},
booktitle = {Joint Workshop on Augmented Environments for Computer-Assisted Interventions (AE-CAI), Computer Assisted and Robotic Endoscopy (CARE), and OR 2.0 Context Aware Operating Theaters (OR2.0) in Medical Image Computing and Computer Assisted Interventions (MICCAI)},
keywords = {},
pubstate = {published},
tppubtype = {workshop}
}
Isen, Jonah; Perera-Ortega, Andrea; Vos, Sjoerd B; Rodionov, Roman; Kanber, Baris; Chowdhury, Fahmida A; Duncan, John S; Mousavi, Parvin; Winston, Gavin P
Non-Parametric Combination of Multimodal MRI for Lesion Detection in Focal Epilepsy Journal Article
In: NeuroImage: Clinical, pp. 102837, 2021.
@article{isen2021non,
title = {Non-Parametric Combination of Multimodal MRI for Lesion Detection in Focal Epilepsy},
author = {Jonah Isen and Andrea Perera-Ortega and Sjoerd B Vos and Roman Rodionov and Baris Kanber and Fahmida A Chowdhury and John S Duncan and Parvin Mousavi and Gavin P Winston},
year = {2021},
date = {2021-09-25},
journal = {NeuroImage: Clinical},
pages = {102837},
publisher = {Elsevier},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Isen, Jonah; Perera-Ortega, Andrea; Vos, Sjoerd B; Rodionov, Roman; Kanber, Baris; Chowdhury, Fahmida Amin; Duncan, John S; Mousavi, Parvin; Winston, Gavin P
Multimodal MRI for Lesion Detection in MRI-Negative Focal Epilepsy Conference Forthcoming
34th International Epilepsy Congress, Forthcoming.
@conference{Isen2021,
title = {Multimodal MRI for Lesion Detection in MRI-Negative Focal Epilepsy},
author = {Jonah Isen and Andrea Perera-Ortega and Sjoerd B Vos and Roman Rodionov and Baris Kanber and Fahmida Amin Chowdhury and John S Duncan and Parvin Mousavi and Gavin P Winston},
year = {2021},
date = {2021-08-28},
booktitle = {34th International Epilepsy Congress},
keywords = {},
pubstate = {forthcoming},
tppubtype = {conference}
}
Fichtinger, Gabor; Mousavi, Parvin; Ungi, Tamas; Fenster, Aaron; Abolmaesumi, Purang; Kronreif, Gernot; Ruiz-Alzola, Juan; Ndoye, Alain; Diao, Babacar; Kikinis, Ron
Design of an Ultrasound-Navigated Prostate Cancer Biopsy System for Nationwide Implementation in Senegal Journal Article
In: Journal of Imaging, vol. 7, no. 8, pp. 154, 2021.
@article{fichtinger2021design,
title = {Design of an Ultrasound-Navigated Prostate Cancer Biopsy System for Nationwide Implementation in Senegal},
author = {Gabor Fichtinger and Parvin Mousavi and Tamas Ungi and Aaron Fenster and Purang Abolmaesumi and Gernot Kronreif and Juan Ruiz-Alzola and Alain Ndoye and Babacar Diao and Ron Kikinis},
year = {2021},
date = {2021-08-20},
journal = {Journal of Imaging},
volume = {7},
number = {8},
pages = {154},
publisher = {Multidisciplinary Digital Publishing Institute},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Connolly, Laura; Deguet, Anton; Sunderland, Kyle; Lasso, Andras; Ungi, Tamas; Rudan, John F.; Taylor, Russell H.; Mousavi, Parvin; Fichtinger, Gabor
An open-source platform for cooperative, semi-autonomous robotic surgery Conference Forthcoming
IEEE International Conference on Autonomous Systems (ICAS), Forthcoming.
@conference{Connolly2021b,
title = {An open-source platform for cooperative, semi-autonomous robotic surgery},
author = {Laura Connolly and Anton Deguet and Kyle Sunderland and Andras Lasso and Tamas Ungi and John F. Rudan and Russell H. Taylor and Parvin Mousavi and Gabor Fichtinger},
year = {2021},
date = {2021-08-11},
booktitle = {IEEE International Conference on Autonomous Systems (ICAS)},
keywords = {},
pubstate = {forthcoming},
tppubtype = {conference}
}
Chen, Brian; Javadi, Golara; Jamzad, Amoon; Hamilton, Alexander; Sibley, Stephanie; Maslove, David; Laird, Philip; and Parvin Mousavi,
Detecting Atrial Fibrillation in ICU Telemetry data with Weak Labels Conference Forthcoming
Machine Learning for Health Care (MLHC '21), Forthcoming.
@conference{Chen2021,
title = {Detecting Atrial Fibrillation in ICU Telemetry data with Weak Labels},
author = {Brian Chen and Golara Javadi and Amoon Jamzad and Alexander Hamilton and Stephanie Sibley and David Maslove and Philip Laird and and Parvin Mousavi},
year = {2021},
date = {2021-08-06},
booktitle = {Machine Learning for Health Care (MLHC '21)},
keywords = {},
pubstate = {forthcoming},
tppubtype = {conference}
}
Thirumal, Sindhura; Jamzad, Amoon; Cotechini, Tiziana; Hindmarch, Charles; Hardy, Celine; Graham, Charles; Berman, David; Siemens, David R; Mousavi, Parvin
Utility of High-Throughput Imaging Mass Cytometry for Cancer Research: A feasibility study Conference
IEEE-EMBC International Conference on Biomedical and Health Informatics (BHI), 2021.
@conference{Thirumal2021b,
title = {Utility of High-Throughput Imaging Mass Cytometry for Cancer Research: A feasibility study},
author = {Sindhura Thirumal and Amoon Jamzad and Tiziana Cotechini and Charles Hindmarch and Celine Hardy and Charles Graham and David Berman and David R Siemens and Parvin Mousavi},
year = {2021},
date = {2021-07-27},
booktitle = {IEEE-EMBC International Conference on Biomedical and Health Informatics (BHI)},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Javadi, Golara; Bayat, Sharareh; Samadi, Samareh; Sedghi, Alireza; Sojoudi, Samira; Hurtado, Antonio; Chang, Silvia; Black, Peter; Mousavi, Parvin; Abolmaesumi, Purang
Towards Targeted Ultrasound-guided Prostate Biopsy by Incorporating Model and Label Uncertainty in Cancer Detection Journal Article Forthcoming
In: International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), Forthcoming.
@article{Javadi2021,
title = {Towards Targeted Ultrasound-guided Prostate Biopsy by Incorporating Model and Label Uncertainty in Cancer Detection},
author = {Golara Javadi and Sharareh Bayat and Samareh Samadi and Alireza Sedghi and Samira Sojoudi and Antonio Hurtado and Silvia Chang and Peter Black and Parvin Mousavi and Purang Abolmaesumi},
year = {2021},
date = {2021-06-22},
journal = {International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI)},
keywords = {},
pubstate = {forthcoming},
tppubtype = {article}
}
Santilli, Alice; Jamzad, Amoon; Sedghi, Alireza; Kaufmann, Martin; Logan, Kathryn; Wallis, Julie; Ren, Kevin YM; Janssen, Natasja; Merchant, Shaila; Engel, Jay; McKay, Doug; Varma, Sonal; Wang, Ami; Fichtinger, Gabor; Rudan, John F.; Mousavi, Parvin
Domain adaptation and self-supervised learning for surgical margin detection Journal Article
In: International Journal of Computer Assisted Radiology and Surgery (IPCAI), vol. 16, no. 5, pp. 861–869, 2021.
@article{santilli2021domain,
title = {Domain adaptation and self-supervised learning for surgical margin detection},
author = {Alice Santilli and Amoon Jamzad and Alireza Sedghi and Martin Kaufmann and Kathryn Logan and Julie Wallis and Kevin YM Ren and Natasja Janssen and Shaila Merchant and Jay Engel and Doug McKay and Sonal Varma and Ami Wang and Gabor Fichtinger and John F. Rudan and Parvin Mousavi},
year = {2021},
date = {2021-05-06},
journal = {International Journal of Computer Assisted Radiology and Surgery (IPCAI)},
volume = {16},
number = {5},
pages = {861--869},
publisher = {Springer},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Grebenisan, Andrew; Sedghi, Alireza; Izard, Jason; Siemens, Robert; Menard, Alexandre; Mousavi, Parvin
Spatial Decomposition For Robust Domain Adaptation In Prostate Cancer Detection Proceedings Article
In: 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI), pp. 1218–1222, IEEE 2021.
@inproceedings{grebenisan2021spatial,
title = {Spatial Decomposition For Robust Domain Adaptation In Prostate Cancer Detection},
author = {Andrew Grebenisan and Alireza Sedghi and Jason Izard and Robert Siemens and Alexandre Menard and Parvin Mousavi},
year = {2021},
date = {2021-04-13},
booktitle = {2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI)},
pages = {1218--1222},
organization = {IEEE},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Santilli, Alice; Jamzad, Amoon; Sedghi, Alireza; Kaufmann, Martin; Merchant, Shaila; Engel, Jay; Logan, Kathryn; Wallis, Julie; Janssen, Natasja; Varmak, Sonal; Fichtinger, Gabor; Rudan, John F.; Mousavi, Parvin
Self-Supervised Learning For Detection Of Breast Cancer In Surgical Margins With Limited Data Proceedings Article
In: 2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI), pp. 980–984, IEEE 2021.
@inproceedings{santilli2021self,
title = {Self-Supervised Learning For Detection Of Breast Cancer In Surgical Margins With Limited Data},
author = {Alice Santilli and Amoon Jamzad and Alireza Sedghi and Martin Kaufmann and Shaila Merchant and Jay Engel and Kathryn Logan and Julie Wallis and Natasja Janssen and Sonal Varmak and Gabor Fichtinger and John F. Rudan and Parvin Mousavi },
year = {2021},
date = {2021-04-13},
booktitle = {2021 IEEE 18th International Symposium on Biomedical Imaging (ISBI)},
pages = {980--984},
organization = {IEEE},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Sedghi, Alireza; O’Donnell, Lauren J; Kapur, Tina; Learned-Miller, Erik; Mousavi, Parvin; III, William M Wells
Image registration: Maximum likelihood, minimum entropy and deep learning Journal Article
In: Medical Image Analysis (MEDIA), vol. 69, pp. 101939, 2021.
@article{sedghi2021image,
title = {Image registration: Maximum likelihood, minimum entropy and deep learning},
author = {Alireza Sedghi and Lauren J O’Donnell and Tina Kapur and Erik Learned-Miller and Parvin Mousavi and William M Wells III},
year = {2021},
date = {2021-04-01},
journal = {Medical Image Analysis (MEDIA)},
volume = {69},
pages = {101939},
publisher = {Elsevier},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Connolly, Laura; Sunderland, Kyle; Lasso, Andras; Deguet, Anton; Ungi, Tamas; Rudan, John F.; Taylor, Russell H.; Mousavi, Parvin; Fichtinger, Gabor
A platform for robot-assisted intraoperative imaging in breast conserving surgery Conference
The 19th Annual Symposium of the Imaging Network of Ontario (ImNO), no. BEST PITCH AWARD, 2021.
@conference{Connolly2021,
title = {A platform for robot-assisted intraoperative imaging in breast conserving surgery},
author = {Laura Connolly and Kyle Sunderland and Andras Lasso and Anton Deguet and Tamas Ungi and John F. Rudan and Russell H. Taylor and Parvin Mousavi and Gabor Fichtinger},
year = {2021},
date = {2021-03-23},
booktitle = {The 19th Annual Symposium of the Imaging Network of Ontario (ImNO)},
number = {BEST PITCH AWARD},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
2021
Wu, Catherine O; Diao, Babacar; Ungi, Tamas; Sedghi, Alireza; Kikinis, Ron; Mousavi, Parvin; Fichtinger, Gabor
Development of an open-source system for prostate biopsy training in Senegal Proceedings Article
In: Medical Imaging 2021: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 115982M, International Society for Optics and Photonics SPIE, 2021.
@inproceedings{wu2021development,
title = {Development of an open-source system for prostate biopsy training in Senegal},
author = {Catherine O Wu and Babacar Diao and Tamas Ungi and Alireza Sedghi and Ron Kikinis and Parvin Mousavi and Gabor Fichtinger},
year = {2021},
date = {2021-02-15},
booktitle = {Medical Imaging 2021: Image-Guided Procedures, Robotic Interventions, and Modeling},
volume = {11598},
pages = {115982M},
publisher = {SPIE},
organization = {International Society for Optics and Photonics},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Jamzad, Amoon; Jamaspishvili, Tamara; Iseman, Rachael; Kaufmann, Martin; Berman, David; Mousavi, Parvin
An efficient digitized annotation platform for pathology-oriented dataset generation in AI research Conference
AACR Conference on Artificial Intelligence, Diagnosis and Imaging, 2021.
@conference{Jamzad2021b,
title = {An efficient digitized annotation platform for pathology-oriented dataset generation in AI research},
author = {Amoon Jamzad and Tamara Jamaspishvili and Rachael Iseman and Martin Kaufmann and David Berman and Parvin Mousavi},
year = {2021},
date = {2021-01-13},
booktitle = {AACR Conference on Artificial Intelligence, Diagnosis and Imaging},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
2020
Javadi, Golara; Samadi, Samareh; Bayat, Sharareh; Pesteie, Mehran; Jafari, Mohammad Hossein; Sojoudi, Samira; Kesch, Claudia; Hurtado, Antonio; Chang, Silvia; Black, Peter; Mousavi, Parvin; Abolmaesumi, Purang
Complex Cancer Detector: Complex Neural Networks on Non-stationary Time Series for Guiding Systematic Prostate Biopsy Proceedings Article
In: Medical Image Computing and Computer Assisted Interventions (MICCAI), 2020.
@inproceedings{javadi2020complex,
title = {Complex Cancer Detector: Complex Neural Networks on Non-stationary Time Series for Guiding Systematic Prostate Biopsy},
author = {Golara Javadi and Samareh Samadi and Sharareh Bayat and Mehran Pesteie and Mohammad Hossein Jafari and Samira Sojoudi and Claudia Kesch and Antonio Hurtado and Silvia Chang and Peter Black and Parvin Mousavi and Purang Abolmaesumi},
year = {2020},
date = {2020-10-04},
booktitle = {Medical Image Computing and Computer Assisted Interventions (MICCAI)},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Thirumal, Sindhura; Jamzad, Amoon; Cotechini, Tiziana; Hindmarch, Charles; Mousavi, Parvin
Developing an Analysis Pipeline for Hyperion Imaging System Data Conference
CSearch Conference, 2020.
@conference{Thirumal2020b,
title = {Developing an Analysis Pipeline for Hyperion Imaging System Data},
author = {Sindhura Thirumal and Amoon Jamzad and Tiziana Cotechini and Charles Hindmarch and Parvin Mousavi},
year = {2020},
date = {2020-10-02},
booktitle = {CSearch Conference},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Jamzad, Amoon; Santilli, Alice; Sedghi, Alireza; N.Y.Janssen, Natasja; Kaufmann, Martin; Ren, Kevin Y. M.; Vanderbeck, Kaitlin; Wang, Ami; McKay, Doug; Rudan, John F.; Fichtinger, Gabor; Mousavi, Parvin
Improved Resection Margins in Surgical Oncology Using Intraoperative Mass Spectrometry Proceedings Article
In: International Conference on Medical Image Computing and Computer-Assisted Intervention, pp. 44–53, MICCAI 2020.
@inproceedings{jamzad2020improved,
title = {Improved Resection Margins in Surgical Oncology Using Intraoperative Mass Spectrometry},
author = {Amoon Jamzad and Alice Santilli and Alireza Sedghi and Natasja N.Y.Janssen and Martin Kaufmann and Kevin Y.M. Ren and Kaitlin Vanderbeck and Ami Wang and Doug McKay and John F. Rudan and Gabor Fichtinger and Parvin Mousavi},
year = {2020},
date = {2020-09-29},
booktitle = {International Conference on Medical Image Computing and Computer-Assisted Intervention},
journal = {Medical Image Computing and Computer Assisted Interventions},
pages = {44--53},
organization = {MICCAI},
abstract = {PURPOSE: Incomplete tumor resections leads to the presence of cancer cells on the resection margins demanding subsequent revision surgery and poor outcomes for patients. Intraoperative evaluations of the tissue pathology, including the surgical margins, can help decrease the burden of repeat surgeries on the patients and healthcare systems. In this study, we propose adapting multi instance learning (MIL) for prospective and intraoperative basal cell carcinoma (BCC) detection in surgical margins using mass spectrometry. METHODS: Resected specimens were collected and inspected by a pathologist and burnt with iKnife. Retrospective training data was collected with a standard cautery tip and included 63 BCC and 127 normal burns. Prospective data was collected for testing with both the standard and a fine tip cautery. This included 130 (66 BCC and 64 normal) and 100 (21 BCC and 79 normal) burns, respectively. An attention-based MIL model was adapted and applied to this dataset. RESULTS: Our models were able to predict BCC at surgical margins with AUC as high as 91%. The models were robust to changes in cautery tip but their performance decreased slightly. The models were also tested intraoperatively and achieved an accuracy of 94%. CONCLUSION: This is the first study that applies the concept of MIL for tissue characterization in perioperative and intraoperative REIMS data.},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Nahlawi, Layan; Imani, Farhad; Gaed, Mena; Gomez, Jose A; Moussa, Madeleine; Gibson, Eli; Fenster, Aaron; Ward, Aaron; Abolmaesumi, Purang; Mousavi, Parvin; Shatkay, Hagit
Stochastic Sequential Modeling: Toward Improved Prostate Cancer Diagnosis Through Temporal-Ultrasound Journal Article
In: Annals of Biomedical Engineering, vol. 49, no. 2, pp. 573–584, 2020.
@article{nahlawi2021stochastic,
title = {Stochastic Sequential Modeling: Toward Improved Prostate Cancer Diagnosis Through Temporal-Ultrasound},
author = {Layan Nahlawi and Farhad Imani and Mena Gaed and Jose A Gomez and Madeleine Moussa and Eli Gibson and Aaron Fenster and Aaron Ward and Purang Abolmaesumi and Parvin Mousavi and Hagit Shatkay},
year = {2020},
date = {2020-08-10},
journal = {Annals of Biomedical Engineering},
volume = {49},
number = {2},
pages = {573--584},
publisher = {Springer},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gerolami, Justin; Jamzad, Amoon; Li, Si Jia; Bayat, Sharareh; Abolmaesumi, Purang; Mousavi, Parvin
Improvement of Soft Tissue Characterization with Temporal Enhanced Ultrasound through Periodic Manipulation of Point Spread Function: A Feasibility Study Proceedings Article
In: 42nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), pp. 78–81, IEEE 2020.
@inproceedings{Gerolami2020,
title = {Improvement of Soft Tissue Characterization with Temporal Enhanced Ultrasound through Periodic Manipulation of Point Spread Function: A Feasibility Study},
author = {Justin Gerolami and Amoon Jamzad and Si Jia Li and Sharareh Bayat and Purang Abolmaesumi and Parvin Mousavi},
year = {2020},
date = {2020-07-20},
booktitle = {42nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC)},
pages = {78--81},
organization = {IEEE},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Gerolami, Justin; Wu, Victoria; Fauerbach, Paola Nasute; Jabs, Doris; Engel, Jay; Rudan, John F; Merchant, Shaila; Walker, Ross; Anas, Emran Mohammad Abu; Abolmaesumi, Purang; Fichtinger, Gabor; Ungi, Tamas; Mousavi, Parvin
An End-to-End Solution for Automatic Contouring of Tumor Region in Intraoperative Images of Breast Lumpectomy Proceedings Article
In: 2020 42nd Annual International Conference of the IEEE Engineering in Medicine & Biology Society (EMBC), pp. 2003–2006, IEEE 2020.
@inproceedings{gerolami2020end,
title = {An End-to-End Solution for Automatic Contouring of Tumor Region in Intraoperative Images of Breast Lumpectomy},
author = {Justin Gerolami and Victoria Wu and Paola Nasute Fauerbach and Doris Jabs and Jay Engel and John F Rudan and Shaila Merchant and Ross Walker and Emran Mohammad Abu Anas and Purang Abolmaesumi and Gabor Fichtinger and Tamas Ungi and Parvin Mousavi},
year = {2020},
date = {2020-07-20},
booktitle = {2020 42nd Annual International Conference of the IEEE Engineering in Medicine \& Biology Society (EMBC)},
journal = {42nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society},
pages = {2003--2006},
organization = {IEEE},
keywords = {},
pubstate = {published},
tppubtype = {inproceedings}
}
Chan, Brandon; Chen, Brian; Sedghi, Alireza; Laird, Philip; Maslove, David; Mousavi, Parvin
Generalizable deep temporal models for predicting episodes of sudden hypotension in critically ill patients: a personalized approach Journal Article
In: Scientific Reports, vol. 10, no. 1, pp. 1–10, 2020.
@article{chan2020generalizable,
title = {Generalizable deep temporal models for predicting episodes of sudden hypotension in critically ill patients: a personalized approach},
author = {Brandon Chan and Brian Chen and Alireza Sedghi and Philip Laird and David Maslove and Parvin Mousavi},
year = {2020},
date = {2020-07-10},
journal = {Scientific Reports},
volume = {10},
number = {1},
pages = {1--10},
publisher = {Nature Publishing Group},
keywords = {},
pubstate = {published},
tppubtype = {article}
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Janssen, Natasja N Y; Kaufmann, Martin; Santilli, Alice; Jamzad, Amoon; Vanderbeck, Kaitlin; Ren, Kevin Yi Mi; Ungi, Tamas; Mousavi, Parvin; Rudan, John F; McKay, Doug; Wang, Ami; Fichtinger, Gabor
Navigated tissue characterization during skin cancer surgery Journal Article
In: International Journal of Computer Assisted Radiology and Surgery, 2020, ISSN: 1861-6429.
@article{Janssen2020c,
title = {Navigated tissue characterization during skin cancer surgery},
author = {Natasja N Y Janssen and Martin Kaufmann and Alice Santilli and Amoon Jamzad and Kaitlin Vanderbeck and Kevin Yi Mi Ren and Tamas Ungi and Parvin Mousavi and John F Rudan and Doug McKay and Ami Wang and Gabor Fichtinger},
url = {https://doi.org/10.1007/s11548-020-02200-4},
doi = {10.1007/s11548-020-02200-4},
issn = {1861-6429},
year = {2020},
date = {2020-05-31},
journal = {International Journal of Computer Assisted Radiology and Surgery},
abstract = {Basal cell carcinoma (BCC) is the most commonly diagnosed skin cancer and is treated by surgical resection. Incomplete tumor removal requires surgical revision, leading to significant healthcare costs and impaired cosmesis. We investigated the clinical feasibility of a surgical navigation system for BCC surgery, based on molecular tissue characterization using rapid evaporative ionization mass spectrometry (REIMS).},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sedghi, Alireza; Mehrtash, Alireza; Jamzad, Amoon; Amalou, Amel; III, William M Wells; Kapur, Tina; Kwak, Jin Tae; Turkbey, Baris; Choyke, Peter; Pinto, Peter; Wood, Bradford; Xu, Sheng; Abolmaesumi, Purang; Mousavi, Parvin
Improving Detection of Prostate Cancer Foci via Information Fusion of MRI and Temporal Enhanced Ultrasound Journal Article
In: International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), vol. 15, no. 7, pp. 1215–1223, 2020.
@article{Sedghi2020,
title = {Improving Detection of Prostate Cancer Foci via Information Fusion of MRI and Temporal Enhanced Ultrasound},
author = {Alireza Sedghi and Alireza Mehrtash and Amoon Jamzad and Amel Amalou and William M Wells III and Tina Kapur and Jin Tae Kwak and Baris Turkbey and Peter Choyke and Peter Pinto and Bradford Wood and Sheng Xu and Purang Abolmaesumi and Parvin Mousavi},
year = {2020},
date = {2020-05-05},
journal = {International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI)},
volume = {15},
number = {7},
pages = {1215--1223},
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Javadi, Golara; Samadi, Samareh; Bayat, Sharareh; Pesteie, Mehran; Jafari, Mohammad H; Sojoudi, Samira; Kesch, Claudia; Hurtado, Antonio; Chang, Silvia; Mousavi, Parvin; Black, Peter; Abolmaesumi, Purang
Multiple instance learning combined with label invariant synthetic data for guiding systematic prostate biopsy: a feasibility study Journal Article
In: International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), vol. 15, no. 6, pp. 1023–1031, 2020.
@article{javadi2020multiple,
title = {Multiple instance learning combined with label invariant synthetic data for guiding systematic prostate biopsy: a feasibility study},
author = {Golara Javadi and Samareh Samadi and Sharareh Bayat and Mehran Pesteie and Mohammad H Jafari and Samira Sojoudi and Claudia Kesch and Antonio Hurtado and Silvia Chang and Parvin Mousavi and Peter Black and Purang Abolmaesumi},
year = {2020},
date = {2020-04-30},
journal = {International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI)},
volume = {15},
number = {6},
pages = {1023--1031},
publisher = {Springer},
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pubstate = {published},
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Santilli, Alice; Jamzad, Amoon; Janssen, Natasja N. Y; Kaufmann, Martin; Connolly, Laura; Vanderbeck, Kaitlin; Wang, Ami; McKay, Doug; Rudan, John F; Fichtinger, Gabor; Mousavi, Parvin
Perioperative Margin Detection In Basal Cell Carcinoma Using A Deep Learning Framework: A Feasibility Study Journal Article
In: International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI), vol. 15, no. 5, pp. 887–896, 2020.
@article{Santilli2020,
title = {Perioperative Margin Detection In Basal Cell Carcinoma Using A Deep Learning Framework: A Feasibility Study},
author = {Alice Santilli and Amoon Jamzad and Natasja N.Y Janssen and Martin Kaufmann and Laura Connolly and Kaitlin Vanderbeck and Ami Wang and Doug McKay and John F Rudan and Gabor Fichtinger and Parvin Mousavi},
year = {2020},
date = {2020-04-22},
journal = {International Journal of Computer Assisted Radiology and Surgery, special issue of International Conference on Information Processing in Computer-Assisted Interventions (IPCAI)},
volume = {15},
number = {5},
pages = {887--896},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Gerolami, Justin; Jamzad, Amoon; Li, Si Jia; Mousavi, Parvin
The Effects of Elasticity and Scattering on Tissue Characterization Using Ultrasound Time Series Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Gerolami2020c,
title = {The Effects of Elasticity and Scattering on Tissue Characterization Using Ultrasound Time Series},
author = {Justin Gerolami and Amoon Jamzad and Si Jia Li and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
pubstate = {published},
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Sedghi, Alireza; Mehrtash, Alireza; Jamzad, Amoon; Amalou, Amel; Kwak, Jin Tae; Turkbey, Baris; Choyke, Peter; Pinto, Peter; Wood, Bradford; Xu, Sheng; Abolmaesumi, Purang; Mousavi, Parvin
Visualization of Clinically Significant Prostate Cancer Using Multi-stream U-Nets Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Sedghi2020b,
title = {Visualization of Clinically Significant Prostate Cancer Using Multi-stream U-Nets},
author = {Alireza Sedghi and Alireza Mehrtash and Amoon Jamzad and Amel Amalou and Jin Tae Kwak and Baris Turkbey and Peter Choyke and Peter Pinto and Bradford Wood and Sheng Xu and Purang Abolmaesumi and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
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Connolly, Laura; Jamzad, Amoon; Kaufmann, Martin; Rubino, Rachel; Sedghi, Alireza; Ungi, Tamas; Asselin, Mark; Yam, Scott; Rudan, John; Nicol, Christopher; Fichtinger, Gabor; Mousavi, Parvin
Classification of primary cancer and surrounding tissue in breast cancer xenograft models Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Connolly2020,
title = {Classification of primary cancer and surrounding tissue in breast cancer xenograft models},
author = {Laura Connolly and Amoon Jamzad and Martin Kaufmann and Rachel Rubino and Alireza Sedghi and Tamas Ungi and Mark Asselin and Scott Yam and John Rudan and Christopher Nicol and Gabor Fichtinger and Parvin Mousavi
},
year = {2020},
date = {2020-03-26},
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Jamzad, Amoon; Rubino, Rachel; Orr, Christine; Villalobos, Dalila; Varma, Sonal; Fichtinger, Gabor; Rudan, John; Nicol, Christopher; Yam, Scott; Mousavi, Parvin
Cancer Cell Detection with Raman Spectroscopy: A Multidisciplinary Workflow Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{IMNO_AJ1,
title = {Cancer Cell Detection with Raman Spectroscopy: A Multidisciplinary Workflow},
author = {Amoon Jamzad and Rachel Rubino and Christine Orr and Dalila Villalobos and Sonal Varma and Gabor Fichtinger and John Rudan and Christopher Nicol and Scott Yam and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
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Wang, Jenny; Morse, Nicole; Jamaspishvili, Tamara; Kaufmann, Martin; Ren, Kevin; Sedghi, Alireza; Jamzad, Amoon; Mousavi, Parvin; Berman, David
Desorptive Electrospray Ionization Mass Spectrometry Imaging (DESI-MSI) in the Application of Cancer Identification in Prostate Journal Article
In: The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@article{Wang2020,
title = {Desorptive Electrospray Ionization Mass Spectrometry Imaging (DESI-MSI) in the Application of Cancer Identification in Prostate},
author = {Jenny Wang and Nicole Morse and Tamara Jamaspishvili and Martin Kaufmann and Kevin Ren and Alireza Sedghi and Amoon Jamzad and Parvin Mousavi and David Berman},
year = {2020},
date = {2020-03-26},
journal = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
pubstate = {published},
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}
Janssen, Natasja N. Y.; Kaufmann, Martin; Santilli, Alice; Jamzad, Amoon; Vanderbeck, Kaitlin; Ren, Kevin; Ungi, Tamas; Mousavi, Parvin; Rudan, John F.; McKay, Doug; Wang, Ami; Fichtinger, Gabor
Navigated skin cancer surgery with real-time tissue characterization Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Janssen2020b,
title = {Navigated skin cancer surgery with real-time tissue characterization},
author = {Natasja N.Y. Janssen and Martin Kaufmann and Alice Santilli and Amoon Jamzad and Kaitlin Vanderbeck and Kevin Ren and Tamas Ungi and Parvin Mousavi and John F. Rudan and Doug McKay and Ami Wang and Gabor Fichtinger
},
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Yates, Lauren; Connolly, Laura; Jamzad, Amoon; Asselin, Mark; Rubino, Rachel; Yam, Scott; Ungi, Tamas; Lasso, Andras; Nicol, Christopher; Mousavi, Parvin; Fichtinger, Gabor
Using a biophotonic probe for robotic tissue scanning Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Yates2020,
title = {Using a biophotonic probe for robotic tissue scanning},
author = {Lauren Yates and Laura Connolly and Amoon Jamzad and Mark Asselin and Rachel Rubino and Scott Yam and Tamas Ungi and Andras Lasso and Christopher Nicol and Parvin Mousavi and Gabor Fichtinger},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
pubstate = {published},
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Thirumal, Sindhura; Jamzad, Amoon; Cotechini, Tiziana; Hindmarch, Charles; Mousavi, Parvin
Developing an Analysis Pipeline for Hyperion Imaging System Data Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Thirumal2020,
title = {Developing an Analysis Pipeline for Hyperion Imaging System Data},
author = {Sindhura Thirumal and Amoon Jamzad and Tiziana Cotechini and Charles Hindmarch and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Grebenisan, Andrew; Sedghi, Alireza; Menard, Alexandre; Izard, Jason; Siemens, Robert; Mousavi, Parvin
Transfer Learning for Prostate Cancer Diagnosis Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), 2020.
@conference{Grebenisan2020,
title = {Transfer Learning for Prostate Cancer Diagnosis},
author = {Andrew Grebenisan and Alireza Sedghi and Alexandre Menard and Jason Izard and Robert Siemens and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
keywords = {},
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}
Santilli, Alice; Jamzad, Amoon; Janssen, Natasja N. Y.; Kaufmann, Martin; Connolly, Laura; Vanderbeck, Kaitlin; Wang, Ami; McKay, Doug; Rudan, John F.; Fichtinger, Gabor; Mousavi, Parvin
Symmetric Autoencoder for Tissue Classification of Mass Spectrometry IKnife Data Conference
The 18th Annual Symposium of the Imaging Network of Ontario (ImNO), vol. Abstract, no. BEST ORAL PRESENTATION AWARD, 2020.
@conference{IMNO_AS,
title = {Symmetric Autoencoder for Tissue Classification of Mass Spectrometry IKnife Data},
author = {Alice Santilli and Amoon Jamzad and Natasja N.Y. Janssen and Martin Kaufmann and Laura Connolly and Kaitlin Vanderbeck and Ami Wang and Doug McKay and John F. Rudan and Gabor Fichtinger and Parvin Mousavi},
year = {2020},
date = {2020-03-26},
booktitle = {The 18th Annual Symposium of the Imaging Network of Ontario (ImNO)},
volume = {Abstract},
number = {BEST ORAL PRESENTATION AWARD},
keywords = {},
pubstate = {published},
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Yates, Lauren; Connolly, Laura; Jamzad, Amoon; Asselin, Mark; Rubino, Rachel; Yam, Scott; Ungi, Tamas; Lasso, Andras; Nicol, Christopher; Mousavi, Parvin; Fichtinger, Gabor
Robotic tissue scanning with biophotonic probe Proceedings Article
In: Fei, Baowei; Linte, Cristian A (Ed.): Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 330 – 335, International Society for Optics and Photonics SPIE, 2020.
@inproceedings{yates2020robotic,
title = {Robotic tissue scanning with biophotonic probe},
author = {Lauren Yates and Laura Connolly and Amoon Jamzad and Mark Asselin and Rachel Rubino and Scott Yam and Tamas Ungi and Andras Lasso and Christopher Nicol and Parvin Mousavi and Gabor Fichtinger},
editor = {Baowei Fei and Cristian A Linte},
url = {https://doi.org/10.1117/12.2549635},
doi = {10.1117/12.2549635},
year = {2020},
date = {2020-03-16},
booktitle = {Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling},
volume = {11315},
pages = {330 -- 335},
publisher = {SPIE},
organization = {International Society for Optics and Photonics},
keywords = {},
pubstate = {published},
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}
Sedghi, Alireza; Salomons, Gregory; Jutras, Jean-David; Gooding, Jim; Schreiner, John; III, William Wells M; Mousavi, Parvin
Image registration with deep probabilistic classifiers: application in radiation therapy Proceedings Article
In: Fei, Baowei; Linte, Cristian A (Ed.): Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 61 – 66, International Society for Optics and Photonics SPIE, 2020.
@inproceedings{sedghi2020image,
title = {Image registration with deep probabilistic classifiers: application in radiation therapy},
author = {Alireza Sedghi and Gregory Salomons and Jean-David Jutras and Jim Gooding and John Schreiner and William Wells M III and Parvin Mousavi},
editor = {Baowei Fei and Cristian A Linte},
url = {https://doi.org/10.1117/12.2549775},
doi = {10.1117/12.2549775},
year = {2020},
date = {2020-03-16},
booktitle = {Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling},
volume = {11315},
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Connolly, Laura; Jamzad, Amoon; Kaufmann, Martin; Rubino, Rachel; Sedghi, Alireza; Ungi, Tamas; Asselin, Mark; Yam, Scott; Rudan, John; Nicol, Christopher; Fichtinger, Gabor; Mousavi, Parvin
Classification of tumor signatures from electrosurgical vapors using mass spectrometry and machine learning: a feasibility study Proceedings Article
In: Fei, Baowei; Linte, Cristian A (Ed.): Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 175 – 183, International Society for Optics and Photonics SPIE, 2020.
@inproceedings{connolly2020classification,
title = {Classification of tumor signatures from electrosurgical vapors using mass spectrometry and machine learning: a feasibility study},
author = {Laura Connolly and Amoon Jamzad and Martin Kaufmann and Rachel Rubino and Alireza Sedghi and Tamas Ungi and Mark Asselin and Scott Yam and John Rudan and Christopher Nicol and Gabor Fichtinger and Parvin Mousavi},
editor = {Baowei Fei and Cristian A Linte},
url = {https://doi.org/10.1117/12.2549343},
doi = {10.1117/12.2549343},
year = {2020},
date = {2020-03-16},
booktitle = {Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling},
volume = {11315},
pages = {175 -- 183},
publisher = {SPIE},
organization = {International Society for Optics and Photonics},
keywords = {},
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Grebenisan, Andrew; Sedghi, Alireza; Menard, Alexandre; Izard, Jason; Siemens, Robert; Mousavi, Parvin
Towards democratizing AI in MR-based prostate cancer diagnosis: 3.0 to 1.5 Tesla Proceedings Article
In: Fei, Baowei; Linte, Cristian A (Ed.): Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 184–189, International Society for Optics and Photonics SPIE, 2020.
@inproceedings{grebenisan2020towards,
title = {Towards democratizing AI in MR-based prostate cancer diagnosis: 3.0 to 1.5 Tesla},
author = {Andrew Grebenisan and Alireza Sedghi and Alexandre Menard and Jason Izard and Robert Siemens and Parvin Mousavi},
editor = {Baowei Fei and Cristian A Linte},
url = {https://doi.org/10.1117/12.2549413},
doi = {10.1117/12.2549413},
year = {2020},
date = {2020-01-01},
booktitle = {Medical Imaging 2020: Image-Guided Procedures, Robotic Interventions, and Modeling},
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keywords = {},
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2019
Jamzad, Amoon; Rudan, John; Fichtinger, Gabor; Yam, Scott; Mousavi, Parvin
Computer Assisted Cancer Cell Detection with Raman Spectroscopy: A fully multidisciplinary workflow Conference
125th Anniversary Faculty of Engineering and Applied Science, Queen's University, 2019., 2019.
@conference{Jamzad2019,
title = {Computer Assisted Cancer Cell Detection with Raman Spectroscopy: A fully multidisciplinary workflow},
author = {Amoon Jamzad and John Rudan and Gabor Fichtinger and Scott Yam and Parvin Mousavi},
year = {2019},
date = {2019-09-18},
booktitle = {125th Anniversary Faculty of Engineering and Applied Science, Queen's University, 2019.},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Asselin, Mark; Jamzad, Amoon; Lasso, Andras; Ungi, Tamas; Rudan, John F.; Fichtinger, Gabor
Identification of the electrocautery state to enable spatially navigated intra-operative mass spectrometry tissue analysis Conference
The 12th Hamlyn Symposium on Medical Robotics on Medical Robotics, Imperial College, London, UK., 2019, ISSN: 2516-5029.
@conference{Asselin2019,
title = {Identification of the electrocautery state to enable spatially navigated intra-operative mass spectrometry tissue analysis},
author = {Mark Asselin and Amoon Jamzad and Andras Lasso and Tamas Ungi and John F. Rudan and Gabor Fichtinger},
issn = {2516-5029},
year = {2019},
date = {2019-06-23},
booktitle = {The 12th Hamlyn Symposium on Medical Robotics on Medical Robotics},
pages = {57-58},
address = {Imperial College, London, UK.},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Chan, Brandon; Auyeung, Jason; Rudan, John; Mousavi, Parvin; Kunz, Manuela
Automatic tissue classification in textured models: A novel approach to intraoperative integration of structured light scanning Conference
Informtion Processing for Computer-Aided Interventions (IPCAI). 2019, 2019.
@conference{Chan2019,
title = {Automatic tissue classification in textured models: A novel approach to intraoperative integration of structured light scanning},
author = {Brandon Chan and Jason Auyeung and John Rudan and Parvin Mousavi and Manuela Kunz},
year = {2019},
date = {2019-06-18},
booktitle = {Informtion Processing for Computer-Aided Interventions (IPCAI). 2019},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Herz, Christian; MacNeil, Kyle; Behringer, Peter A; Tokuda, Junichi; Mehrtash, Alireza; Mousavi, Parvin; Kikinis, Ron; Fennessy, Fiona M; Tempany, Clare M; Tuncali, Kemal; Fedorov, Andriy
Open Source Platform for Transperineal In-bore MRI-guided Targeted Prostate Biopsy Journal Article
In: IEEE Transactions on Biomedical Engineering, vol. 67, no. 2, pp. 565–576, 2019, ISSN: 1558-2531.
@article{535,
title = {Open Source Platform for Transperineal In-bore MRI-guided Targeted Prostate Biopsy},
author = {Christian Herz and Kyle MacNeil and Peter A Behringer and Junichi Tokuda and Alireza Mehrtash and Parvin Mousavi and Ron Kikinis and Fiona M Fennessy and Clare M Tempany and Kemal Tuncali and Andriy Fedorov},
doi = {10.1109/TBME.2019.2918731},
issn = {1558-2531},
year = {2019},
date = {2019-05-23},
journal = {IEEE Transactions on Biomedical Engineering},
volume = {67},
number = {2},
pages = {565--576},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Sedghi, Alireza; Pesteie, Mehran; Javadi, Golara; Azizi, Shekoofeh; Yan, Pingkun; Kwak, Jin Tae; Xu, Sheng; Turkbey, Baris; Choyke, Peter; Pinto, Peter; Wood, Bradford; Rohling, Robert; Abolmaesumi, Purang; Mousavi, Parvin
Deep neural maps for unsupervised visualization of high-grade cancer in prostate biopsies. Journal Article
In: Int J Comput Assist Radiol Surg, 2019, ISSN: 1861-6429.
@article{525,
title = {Deep neural maps for unsupervised visualization of high-grade cancer in prostate biopsies.},
author = {Alireza Sedghi and Mehran Pesteie and Golara Javadi and Shekoofeh Azizi and Pingkun Yan and Jin Tae Kwak and Sheng Xu and Baris Turkbey and Peter Choyke and Peter Pinto and Bradford Wood and Robert Rohling and Purang Abolmaesumi and Parvin Mousavi},
doi = {10.1007/s11548-019-01950-0},
issn = {1861-6429},
year = {2019},
date = {2019-03-01},
journal = {Int J Comput Assist Radiol Surg},
abstract = {\<p\>Prostate cancer (PCa) is the most frequent noncutaneous cancer in men. Early detection of PCa is essential for clinical decision making, and reducing metastasis and mortality rates. The current approach for PCa diagnosis is histopathologic analysis of core biopsies taken under transrectal ultrasound guidance (TRUS-guided). Both TRUS-guided systematic biopsy and MR-TRUS-guided fusion biopsy have limitations in accurately identifying PCa, intraoperatively. There is a need to augment this process by visualizing highly probable areas of PCa. Temporal enhanced ultrasound (TeUS) has emerged as a promising modality for PCa detection. Prior work focused on supervised classification of PCa verified by gold standard pathology. Pathology labels are noisy, and data from an entire core have a single label even when significantly heterogeneous. Additionally, supervised methods are limited by data from cores with known pathology, and a significant portion of prostate data is discarded without being used. We provide an end-to-end unsupervised solution to map PCa distribution from TeUS data using an innovative representation learning method, deep neural maps. TeUS data are transformed to a topologically arranged hyper-lattice, where similar samples are closer together in the lattice. Therefore, similar regions of malignant and benign tissue in the prostate are clustered together. Our proposed method increases the number of training samples by several orders of magnitude. Data from biopsy cores with known labels are used to associate the clusters with PCa. Cancer probability maps generated using the unsupervised clustering of TeUS data help intuitively visualize the distribution of abnormal tissue for augmenting TRUS-guided biopsies.\</p\>},
keywords = {},
pubstate = {published},
tppubtype = {article}
}
Pyman, Blake; Sedghi, Alireza; Azizi, Shekoofeh; Tyryshkin, Kathrin; Renwick, Neil; Mousavi, Parvin
Exploring microRNA Regulation of Cancer with Context-Aware Deep Cancer Classifier Conference
2019.
@conference{526,
title = {Exploring microRNA Regulation of Cancer with Context-Aware Deep Cancer Classifier},
author = {Blake Pyman and Alireza Sedghi and Shekoofeh Azizi and Kathrin Tyryshkin and Neil Renwick and Parvin Mousavi},
doi = {10.1142/9789813279827_0015},
year = {2019},
date = {2019-01-01},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Gasmallah, Mohammed; Zulkernine, Farhana; Rivest, Francois; Mousavi, Parvin; Sedghi, Alireza
Fully End-To-End Super-Resolved Bone Age Estimation Conference
Advances in Artificial Intelligence, Springer International Publishing Springer International Publishing, Cham, 2019, ISBN: 978-3-030-18305-9.
@conference{544,
title = {Fully End-To-End Super-Resolved Bone Age Estimation},
author = {Mohammed Gasmallah and Farhana Zulkernine and Francois Rivest and Parvin Mousavi and Alireza Sedghi},
editor = {Marie-Jean Meurs and Frank Rudzicz},
isbn = {978-3-030-18305-9},
year = {2019},
date = {2019-01-01},
booktitle = {Advances in Artificial Intelligence},
publisher = {Springer International Publishing},
address = {Cham},
organization = {Springer International Publishing},
abstract = {With the release of large-scale bone age assessment datasets and competitions looking at solving the problem of bone age estimation, there has been a large boom of machine learning in medical imaging which has attempted to solve this problem. Although many of these approaches use convolutional neural networks, they often include some specialized form of preprocessing which is often lengthy. We propose using a subpixel convolution layer in addition to an attention mechanism similar to those developed by Luong et al. in order to overcome some of the implicit problems with assuming particular placement and orientation of radiographs due to forced preprocessing.},
keywords = {},
pubstate = {published},
tppubtype = {conference}
}
Conolly, Laura; Ungi, Tamas; Lasso, Andras; Vaughn, Thomas; Asselin, Mark; Mousavi, Parvin; Yam, Scott; Fichtinger, Gabor
Mechanically controlled spectroscopic imaging for tissue classification Booklet
2019.
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title = {Mechanically controlled spectroscopic imaging for tissue classification},
author = {Laura Conolly and Tamas Ungi and Andras Lasso and Thomas Vaughn and Mark Asselin and Parvin Mousavi and Scott Yam and Gabor Fichtinger},
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Li, Si Jia; Barnes, Jack A; Abolmaesumi, Purang; Mousavi, Parvin; Loock, Hans-Peter
Micro-vibrations underlying temporal enhanced ultrasound: The effect of scatterer size and elasticity Journal Article
In: Journal of Applied Physics, vol. 125, pp. 164502, 2019.
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title = {Micro-vibrations underlying temporal enhanced ultrasound: The effect of scatterer size and elasticity},
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Sedghi, Alireza; Luo, Jie; Mehrtash, Alireza; Pieper, Steve; Tempany, Clare; Kapur, Tina; Mousavi, Parvin; Wells, William
Semi-supervised image registration using deep learning Conference
2019.
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title = {Semi-supervised image registration using deep learning},
author = {Alireza Sedghi and Jie Luo and Alireza Mehrtash and Steve Pieper and Clare Tempany and Tina Kapur and Parvin Mousavi and William Wells},
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Baum, Z; Chruch, Ben; Lasso, Andras; Ungi, Tamas; Schlenger, Christopher; Borschneck, Daniel; Mousavi, Parvin; Fichtinger, Gabor
2019.
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title = {Step-wise identification of ultrasound-visible anatomical landmarks for 3D visualization of scoliotic spine},
author = {Z Baum and Ben Chruch and Andras Lasso and Tamas Ungi and Christopher Schlenger and Daniel Borschneck and Parvin Mousavi and Gabor Fichtinger},
url = {https://doi.org/10.1117/12.2512648},
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Li, Si Jia; Barnes, Jack; Abolmaesumi, Purang; Loock, Hans-Peter; Mousavi, Parvin
2019.
@booklet{539,
title = {Temporal enhanced ultrasound and shear wave elastography for tissue classification in cancer interventions: an experimental evaluation},
author = {Si Jia Li and Jack Barnes and Purang Abolmaesumi and Hans-Peter Loock and Parvin Mousavi},
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Sedghi, Alireza; Hamidi, Soheil; Mehrtash, Alireza; Ziegler, Erik; Tempany, Clare; Pieper, Steve; Kapur, Tina; Mousavi, Parvin
2019.
@conference{546,
title = {Tesseract-medical imaging: open-source browser-based platform for artificial intelligence deployment in medical imaging},
author = {Alireza Sedghi and Soheil Hamidi and Alireza Mehrtash and Erik Ziegler and Clare Tempany and Steve Pieper and Tina Kapur and Parvin Mousavi},
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Chan, Brandon; Auyeung, Jason; Rudan, John F; Mousavi, Parvin; Kunz, Manuela
Tissue classification using machine learning to aid in intraoperative registration: a pilot study Booklet
2019.
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title = {Tissue classification using machine learning to aid in intraoperative registration: a pilot study},
author = {Brandon Chan and Jason Auyeung and John F Rudan and Parvin Mousavi and Manuela Kunz},
url = {https://doi.org/10.1117/12.2513033},
doi = {10.1117/12.2513033},
year = {2019},
date = {2019-01-01},
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Li, Si Jia; Mousavi, Parvin; White, Phillip Jason
Ultrasound backscattered tensor imaging of the brain: an ex vivo feasibility study Booklet
2019.
@booklet{538,
title = {Ultrasound backscattered tensor imaging of the brain: an ex vivo feasibility study},
author = {Si Jia Li and Parvin Mousavi and Phillip Jason White},
url = {https://doi.org/10.1117/12.2512806},
doi = {10.1117/12.2512806},
year = {2019},
date = {2019-01-01},
month = {01},
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Chan, B; Sedghi, A; Laird, P; Maslove, D; Mousavi, P
Prediction of Patient-specific Acute Hypotensive Episodes in ICU Using Deep Models Proceedings
2019.
@proceedings{552,
title = {Prediction of Patient-specific Acute Hypotensive Episodes in ICU Using Deep Models},
author = {B Chan and A Sedghi and P Laird and D Maslove and P Mousavi},
year = {2019},
date = {2019-01-01},
journal = {The IEEE International Engineering in Medicine and Biology Conference 2019},
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Chan, B; Sedghi, A; Laird, P; Maslove, D; Mousavi, P
Predictive Modeling using Intensive Care Unit Data: Considerations for Data Pre-processing and Analysis Proceedings
2019.
@proceedings{553,
title = {Predictive Modeling using Intensive Care Unit Data: Considerations for Data Pre-processing and Analysis},
author = {B Chan and A Sedghi and P Laird and D Maslove and P Mousavi},
year = {2019},
date = {2019-01-01},
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2018
Sedghi, Alireza; Hamidi, Soheil; Mehrtash, Alireza; Ziegler, Erik; Tempany, Clare; Pieper, Steve; Kapur, Tina; Mousavi, Parvin
PI-RADS Trainer: An open-source prostate mpMRI web viewer and reporting platform for educational training Conference
Third Global Summit on Precision Diagnosis and Treatment of Prostate Cancer, 2018, 2018.
@conference{Sedghi2018,
title = {PI-RADS Trainer: An open-source prostate mpMRI web viewer and reporting platform for educational training},
author = {Alireza Sedghi and Soheil Hamidi and Alireza Mehrtash and Erik Ziegler and Clare Tempany and Steve Pieper and Tina Kapur and Parvin Mousavi},
year = {2018},
date = {2018-08-03},
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Pyman, Blake; Tyryshkin, Kathrin; Renwick, Neil; Mousavi, Parvin
Deep autoencoder with hierarchical tissue: Annotation for miRNA-based cancer classification efficacy. Conference
Intelligent Systems for Molecular Biology (ISMB); 2018, 2018.
@conference{Pyman2018,
title = {Deep autoencoder with hierarchical tissue: Annotation for miRNA-based cancer classification efficacy.},
author = {Blake Pyman and Kathrin Tyryshkin and Neil Renwick and Parvin Mousavi},
year = {2018},
date = {2018-07-18},
booktitle = {Intelligent Systems for Molecular Biology (ISMB); 2018},
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Sedghi, Alireza; Luo, Jie; Mehrtash, Alireza; Pieper, Steve; Tempany, Clare; Kapur, Tina; Mousavi, Parvin; Wells, William
Deep Information Theoretic Registration Booklet
2018.
@booklet{545,
title = {Deep Information Theoretic Registration},
author = {Alireza Sedghi and Jie Luo and Alireza Mehrtash and Steve Pieper and Clare Tempany and Tina Kapur and Parvin Mousavi and William Wells},
year = {2018},
date = {2018-01-01},
month = {01},
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Zobeiry, Navid; Bayat, Sharareh; Anas, Emran; Mousavi, Parvin; Abolmaesumi, Purang; Poursartip, A
Temporal Enhanced Ultrasound as a Novel NDT Technique for Characterization of Defects in Composites Conference
2018.
@conference{541,
title = {Temporal Enhanced Ultrasound as a Novel NDT Technique for Characterization of Defects in Composites},
author = {Navid Zobeiry and Sharareh Bayat and Emran Anas and Parvin Mousavi and Purang Abolmaesumi and A Poursartip},
doi = {10.12783/asc33/26149},
year = {2018},
date = {2018-01-01},
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Azizi, Shekoofeh; Woudenberg, Nathan Van; Sojoudi, Samira; Li, Ming; Xu, Sheng; Anas, Emran; Yan, Pingkun; Tahmasebi, Amir; Kwak, Jin Tae; Turkbey, Baris; Choyke, Peter; Pinto, Peter; Wood, Bradford; Mousavi, Parvin; Abolmaesumi, Purang
Toward a real-time system for temporal enhanced ultrasound-guided prostate biopsy Journal Article
In: International Journal of Computer Assisted Radiology and Surgery, vol. 13, 2018.
@article{527,
title = {Toward a real-time system for temporal enhanced ultrasound-guided prostate biopsy},
author = {Shekoofeh Azizi and Nathan Van~Woudenberg and Samira Sojoudi and Ming Li and Sheng Xu and Emran Anas and Pingkun Yan and Amir Tahmasebi and Jin Tae Kwak and Baris Turkbey and Peter Choyke and Peter Pinto and Bradford Wood and Parvin Mousavi and Purang Abolmaesumi},
doi = {10.1007/s11548-018-1749-z},
year = {2018},
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Azizi, Shekoofeh; Bayat, Sharareh; Rajaram, Ajay; Anas, Emran M A; Mohamed, Tamer; Walus, Konrad; Abolmaesumi, Purang; Mousavi, Parvin
3D tissue mimicking biophantoms for ultrasound imaging: bioprinting and image analysis Proceedings Article
In: Fei, Baowei; III, Robert Webster J (Ed.): Medical Imaging 2018: Image-Guided Procedures, Robotic Interventions, and Modeling, pp. 430 – 436, International Society for Optics and Photonics SPIE, 2018.
@inproceedings{10.1117/12.2293930,
title = {3D tissue mimicking biophantoms for ultrasound imaging: bioprinting and image analysis},
author = {Shekoofeh Azizi and Sharareh Bayat and Ajay Rajaram and Emran M A Anas and Tamer Mohamed and Konrad Walus and Purang Abolmaesumi and Parvin Mousavi},
editor = {Baowei Fei and Robert Webster J III},
url = {https://doi.org/10.1117/12.2293930},
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