Computer-Assisted Deformity Correction Using the Ilizarov Method. - Amber L. Simpson; Burton Ma; Dan P. Borschneck; Randy E. Ellis (MICCAI, 2005)

Using Registration Uncertainty Visualization in a User Study of a Simple Surgical Task. - Amber L. Simpson; Burton Ma; Elvis C. S. Chen; Randy E. Ellis; A. James Stewart (MICCAI (2), 2006)

Proof of Concept of a Simple Computer-Assisted Technique for Correcting Bone Deformities. - Burton Ma; Amber L. Simpson; Randy E. Ellis (MICCAI (2), 2007)

The Computation and Visualization of Uncertainty in Surgical Navigation. - Amber L. Simpson (2010)

The use of virtual fiducials in image-guided kidney surgery. - Courtenay L. Glisson; Rowena E. Ong; Amber L. Simpson; Peter Clark; S. Duke Herrell; Robert L. Galloway (Image-Guided Procedures, 2011)

The sparse data extrapolation problem: strategies for soft-tissue correction for image-guided liver surgery. - Michael I. Miga; Prashanth Dumpuri; Amber L. Simpson; Jared A. Weis; William R. Jarnagin (Image-Guided Procedures, 2011)

Development of a novel laser range scanner. - Thomas S. Pheiffer; Brian Lennon; Amber L. Simpson; Michael I. Miga (Image-Guided Procedures, 2011)

Uncertainty propagation and analysis of image-guided surgery. - Amber L. Simpson; Burton Ma; Randy E. Ellis; A. James Stewart; Michael I. Miga (Image-Guided Procedures, 2011)

Tracking of Vessels in Intra-Operative Microscope Video Sequences for Cortical Displacement Estimation. - Siyi Ding; Michael I. Miga; Thomas S. Pheiffer; Amber L. Simpson; Reid Carleton Thompson; Benoit M. Dawant (IEEE Trans. Biomed. Eng., 2011)

Utilizing ultrasound as a surface digitization tool in image guided liver surgery. - Kristen E. Miller; Janet E. Ondrake; Thomas S. Pheiffer; Amber L. Simpson; Michael I. Miga (Image-Guided Procedures, 2012)

Initial study of breast tissue retraction toward image guided breast surgery. - Michael J. Shannon; Ingrid M. Meszoely; Janet E. Ondrake; Thomas S. Pheiffer; Amber L. Simpson; Kay Sun; Michael I. Miga (Image-Guided Procedures, 2012)

Intraoperative brain tumor resection cavity characterization with conoscopic holography. - Amber L. Simpson; Jessica Burgner; Ishita Chen; Thomas S. Pheiffer; Kay Sun; Reid Carleton Thompson; Robert J. Webster III; Michael I. Miga (Image-Guided Procedures, 2012)

Tracked 3D ultrasound targeting with an active cannula. - Philip J. Swaney; Jessica Burgner; Thomas S. Pheiffer; D. Caleb Rucker; Hunter B. Gilbert; Janet E. Ondrake; Amber L. Simpson; Everette Clif Burdette; Michael I. Miga; Robert J. Webster III (Image-Guided Procedures, 2012)

Sensitivity analysis and automation for intraoperative implementation of the atlas-based method for brain shift correction. - Ishita Chen; Amber L. Simpson; Kay Sun; Reid Carleton Thompson; Michael I. Miga (Image-Guided Procedures, 2013)

Phantom-based comparison of the accuracy of point clouds extracted from stereo cameras and laser range scanner. - Ankur N. Kumar; Thomas S. Pheiffer; Amber L. Simpson; Reid Carleton Thompson; Michael I. Miga; Benoit M. Dawant (Image-Guided Procedures, 2013)

Geometric reconstruction using tracked ultrasound strain imaging. - Thomas S. Pheiffer; Amber L. Simpson; Janet E. Ondrake; Michael I. Miga (Image-Guided Procedures, 2013)

Nonrigid liver registration for image-guided surgery using partial surface data: a novel iterative approach. - D. Caleb Rucker; Yifei Wu; Janet E. Ondrake; Thomas S. Pheiffer; Amber L. Simpson; Michael I. Miga (Image-Guided Procedures, 2013)

A framework for measuring TRE at the tip of an optically tracked pointing stylus. - Amber L. Simpson; Neal P. Dillon; Michael I. Miga; Burton Ma (Image-Guided Procedures, 2013)

Integrating Retraction Modeling Into an Atlas-Based Framework for Brain Shift Prediction. - Ishita Chen; Rowena E. Ong; Amber L. Simpson; Kay Sun; Reid Carleton Thompson; Michael I. Miga (IEEE Trans. Biomed. Eng., 2013)

Comparison Study of Intraoperative Surface Acquisition Methods for Surgical Navigation. - Amber L. Simpson; Jessica Burgner; Courtenay L. Glisson; S. Duke Herrell; Burton Ma; Thomas S. Pheiffer; Robert J. Webster III; Michael I. Miga (IEEE Trans. Biomed. Eng., 2013)

Registration of liver images to minimally invasive intraoperative surface and subsurface data. - Yifei Wu; D. Caleb Rucker; Rebekah H. Conley; Thomas S. Pheiffer; Amber L. Simpson; Sunil K. Geevarghese; Michael I. Miga (Image-Guided Procedures, 2014)

Texture feature analysis for prediction of postoperative liver failure prior to surgery. - Amber L. Simpson; Richard K. G. Do; E. Patricia Parada; Michael I. Miga; William R. Jarnagin (Image Processing, 2014)

Evaluation of Conoscopic Holography for Estimating Tumor Resection Cavities in Model-Based Image-Guided Neurosurgery. - Amber L. Simpson; Kay Sun; Thomas S. Pheiffer; D. Caleb Rucker; Allen K. Sills; Reid Carleton Thompson; Michael I. Miga (IEEE Trans. Biomed. Eng., 2014)

A Mechanics-Based Nonrigid Registration Method for Liver Surgery Using Sparse Intraoperative Data. - D. Caleb Rucker; Yifei Wu; Logan W. Clements; Janet E. Ondrake; Thomas S. Pheiffer; Amber L. Simpson; William R. Jarnagin; Michael I. Miga (IEEE Trans. Medical Imaging, 2014)

Validation of model-based deformation correction in image-guided liver surgery via tracked intraoperative ultrasound: preliminary method and results. - Logan W. Clements; Jarrod A. Collins; Yifei Wu; Amber L. Simpson; William R. Jarnagin; Michael I. Miga (Image-Guided Procedures, 2015)

Image guidance improves localization of sonographically occult colorectal liver metastases. - Universe Leung; Amber L. Simpson; Lauryn B. Adams; William R. Jarnagin; Michael I. Miga; T. Peter Kingham (Image-Guided Procedures, 2015)

Texture analysis for survival prediction of pancreatic ductal adenocarcinoma patients with neoadjuvant chemotherapy. - Jayasree Chakraborty; Liana Langdon-Embry; Joanna G. Escalon; Peter J. Allen; Maeve A. Lowery; Eileen M. O'Reilly; Richard K. G. Do; Amber L. Simpson (Image Processing, 2016)

Clinical evaluation of a model-updated image-guidance approach to brain shift compensation: experience in 16 cases. - Michael I. Miga; Kay Sun; Ishita Chen; Logan W. Clements; Thomas S. Pheiffer; Amber L. Simpson; Reid Carleton Thompson (Int. J. Comput. Assist. Radiol. Surg., 2016)

A novel method for texture-mapping conoscopic surfaces for minimally invasive image-guided kidney surgery. - Rowena E. Ong; Courtenay L. Glisson; Jessica Burgner-Kahrs; Amber L. Simpson; Andrei Danilchenko; Ray A. Lathrop; S. Duke Herrell; Robert J. Webster III; Michael I. Miga; Robert L. Galloway (Int. J. Comput. Assist. Radiol. Surg., 2016)

Preoperative assessment of microvascular invasion in hepatocellular carcinoma. - Jayasree Chakraborty; Jian Zheng; Mithat Gönen; William R. Jarnagin; Ronald P. DeMatteo; Richard K. G. Do; Amber L. Simpson (Computer-Aided Diagnosis, 2017)

Quantification of CT images for the classification of high- and low-risk pancreatic cysts. - Lior Gazit; Jayasree Chakraborty; Marc A. Attiyeh; Liana Langdon-Embry; Peter J. Allen; Richard K. G. Do; Amber L. Simpson (Computer-Aided Diagnosis, 2017)

On the nature of data collection for soft-tissue image-to-physical organ registration: a noise characterization study. - Jarrod A. Collins; Jon S. Heiselman; Jared A. Weis; Logan W. Clements; Amber L. Simpson; William R. Jarnagin; Michael I. Miga (Image-Guided Procedures, 2017)

Emulation of the laparoscopic environment for image-guided liver surgery via an abdominal phantom system with anatomical ligamenture. - Jon S. Heiselman; Jarrod A. Collins; Logan W. Clements; Jared A. Weis; Amber L. Simpson; Sunil K. Geevarghese; William R. Jarnagin; Michael I. Miga (Image-Guided Procedures, 2017)

Toward integrated image guided liver surgery. - William R. Jarnagin; Amber L. Simpson; Michael I. Miga (Image-Guided Procedures, 2017)

Is pose-based pivot calibration superior to sphere fitting? - Burton Ma; Niloofar Banihaveb; Joy Choi; Elvis C. S. Chen; Amber L. Simpson (Image-Guided Procedures, 2017)

Liver segmentation in color images. - Burton Ma; T. Peter Kingham; Michael I. Miga; William R. Jarnagin; Amber L. Simpson (Image-Guided Procedures, 2017)

Improving Registration Robustness for Image-Guided Liver Surgery in a Novel Human-to-Phantom Data Framework. - Jarrod A. Collins; Jared A. Weis; Jon S. Heiselman; Logan W. Clements; Amber L. Simpson; William R. Jarnagin; Michael I. Miga (IEEE Trans. Medical Imaging, 2017)

Quantitative CT analysis for the preoperative prediction of pathologic grade in pancreatic neuroendocrine tumors. - Jayasree Chakraborty; Alessandra Pulvirenti; Rikiya Yamashita; Abhishek Midya; Mithat Gönen; David S. Klimstra; Diane L. Reidy; Peter J. Allen; Richard K. G. Do; Amber L. Simpson (Computer-Aided Diagnosis, 2018)

Deep convolutional neural network for the classification of hepatocellular carcinoma and intrahepatic cholangiocarcinoma. - Abhishek Midya; Jayasree Chakraborty; Linda M. Pak; Jian Zheng; William R. Jarnagin; Richard K. G. Do; Amber L. Simpson (Computer-Aided Diagnosis, 2018)

Technical note: Nonrigid registration for laparoscopic liver surgery using sparse intraoperative data. - Jon S. Heiselman; Jarrod A. Collins; Logan W. Clements; Jared A. Weis; Amber L. Simpson; Sunil K. Geevarghese; T. Peter Kingham; William R. Jarnagin; Michael I. Miga (Image-Guided Procedures, 2018)

Unsupervised Subtyping of Cholangiocarcinoma Using a Deep Clustering Convolutional Autoencoder. - Hassan Muhammad; Carlie S. Sigel; Gabriele Campanella; Thomas Börner; Linda M. Pak; Stefan Büttner; Jan N. M. IJzermans; Bas Groot Koerkamp; Michael Doukas; William R. Jarnagin; Amber L. Simpson; Thomas J. Fuchs (MICCAI (1), 2019)

A large annotated medical image dataset for the development and evaluation of segmentation algorithms. - Amber L. Simpson; Michela Antonelli; Spyridon Bakas; Michel Bilello; Keyvan Farahani; Bram van Ginneken; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens 001; Bjoern H. Menze; Olaf Ronneberger; Ronald M. Summers; et al. (CoRR, 2019)

Towards Unsupervised Cancer Subtyping: Predicting Prognosis Using A Histologic Visual Dictionary. - Hassan Muhammad; Carlie S. Sigel; Gabriele Campanella; Thomas Börner; Linda M. Pak; Stefan Büttner; Jan N. M. IJzermans; Bas Groot Koerkamp; Michael Doukas; William R. Jarnagin; Amber L. Simpson; Thomas J. Fuchs (CoRR, 2019)

A combined radiomics and cyst fluid inflammatory markers model to predict preoperative risk in pancreatic cystic lesions. - Travis L. Williams; Kate A. Harrington; Sharon A. Lawrence; Jayasree Chakraborty; Mohammad A. Al Efishat; Marc A. Attiyeh; Gokce Askan; Yuting Chou; Alessandra Pulvirenti; Caitlin A. McIntyre; Mithat Gonen; Olca Basturk; et al. (Image-Guided Procedures, 2020)

Modality Completion via Gaussian Process Prior Variational Autoencoders for Multi-modal Glioma Segmentation. - Mohammad Hamghalam; Alejandro F. Frangi; Baiying Lei; Amber L. Simpson (MICCAI (7), 2021)

EPIC-Survival: End-to-end Part Inferred Clustering for Survival Analysis, with Prognostic Stratification Boosting. - Hassan Muhammad; Chensu Xie; Carlie S. Sigel; Michael Doukas; Lindsay Alpert; Amber Lea Simpson; Thomas J. Fuchs (MIDL, 2021)

The Medical Segmentation Decathlon. - Michela Antonelli; Annika Reinke; Spyridon Bakas; Keyvan Farahani; Annette Kopp-Schneider; Bennett A. Landman; Geert Litjens 001; Bjoern H. Menze; Olaf Ronneberger; Ronald M. Summers; Bram van Ginneken; Michel Bilello; et al. (CoRR, 2021)

Multi-modal Brain Tumour Segmentation Using Transformer with Optimal Patch Size. - Ramtin Mojtahedi; Mohammad Hamghalam; Amber L. Simpson (BrainLes@MICCAI, 2022)

Towards Optimal Patch Size in Vision Transformers for Tumor Segmentation. - Ramtin Mojtahedi; Mohammad Hamghalam; Richard K. G. Do; Amber L. Simpson (MMMI@MICCAI, 2022)

Developing a Cancer Digital Twin: Supervised Metastases Detection From Consecutive Structured Radiology Reports. - Karen E. Batch; Jianwei Yue; Alex Darcovich; Kaelan Lupton; Corinne C. Liu; David P. Woodlock; Mohammad Ali K. El Amine; Pamela I. Causa-Andrieu; Lior Gazit; Gary H. Nguyen; Farhana H. Zulkernine; Richard K. G. Do; et al. (Frontiers Artif. Intell., 2022)

Parameter-Efficient Methods for Metastases Detection fromClinical Notes. - Maede Ashofteh Barabadi; Xiaodan Zhu 001; Wai-Yip Chan; Amber L. Simpson; Richard K. G. Do (Canadian AI, 2023)

Attention-based CT scan interpolation for lesion segmentation of colorectal liver metastases. - Mohammad Hamghalam; Richard K. G. Do; Amber L. Simpson (Biomedical Applications in Molecular, Structural, and Functional Imaging, 2023)

Leveraging Contrastive Learning with SimSiam for the Classification of Primary and Secondary Liver Cancers. - Ramtin Mojtahedi; Mohammad Hamghalam; William R. Jarnagin; Richard K. G. Do; Amber L. Simpson (MTSAIL/LEAF/AI4Treat/MMMI/REMIA@MICCAI, 2023)

Examining the Effects of Slice Thickness on the Reproducibility of CT Radiomics for Patients with Colorectal Liver Metastases. - Jacob J. Peoples; Mohammad Hamghalam; Imani James; Maida Wasim; Natalie Gangai; HyunSeon Christine Kang; Xiujiang John Rong; Yun Shin Chun; Richard K. G. Do; Amber L. Simpson (UNSURE@MICCAI, 2023)

Parameter-Efficient Methods for Metastases Detection from Clinical Notes. - Maede Ashofteh Barabadi; Xiaodan Zhu 001; Wai-Yip Chan; Amber L. Simpson; Richard K. G. Do (CoRR, 2023)

Computerized Diagnosis of Liver Tumors From CT Scans Using a Deep Neural Network Approach. - Abhishek Midya; Jayasree Chakraborty; Rami Srouji; Raja R. Narayan; Thomas Börner; Jian Zheng; Linda M. Pak; John M. Creasy; Luz A. Escobar; Kate A. Harrington; Mithat Gönen; Michael I. D'Angelica; et al. (IEEE J. Biomed. Health Informatics, 2023)

Adapting Large Language Models for Automatic Annotation of Radiology Reports for Metastases Detection. - Maede Ashofteh Barabadi; Wai-Yip Chan; Xiaodan Zhu 001; Amber L. Simpson; Richard K. G. Do (CCECE, 2024)

Organ Proximity Analysis: A Novel Approach to Spleen Localization for Accurate Injury Grading in Abdominal CT Scans. - Mohammad Hamghalam; Robert Moreland; David Gomez; Hui-Ming Lin; Ali Babaei Jandaghi; Monica Tafur Arciniegas; Paraskevi A. Vlachou; Matthew Wu; Michael Brassil; Priscila Crivellaro; Shobhit Mathur; Shahob Hosseinpour; et al. (ISBI, 2024)

Confidence Intervals Uncovered: Are We Ready for Real-World Medical Imaging AI? - Evangelia Christodoulou; Annika Reinke; Rola Houhou; Piotr Kalinowski; Selen Erkan; Carole H. Sudre; Ninon Burgos; Sofiène Boutaj; Sophie Loizillon; Maëlys Solal; Nicola Rieke; Veronika Cheplygina; et al. (MICCAI (10), 2024)

QUBIQ: Uncertainty Quantification for Biomedical Image Segmentation Challenge. - Hongwei Bran Li; Fernando Navarro; Ivan Ezhov; Amirhossein Bayat; Dhritiman Das; Florian Kofler; Suprosanna Shit; Diana Waldmannstetter; Johannes C. Paetzold; Xiaobin Hu; Benedikt Wiestler; Lucas Zimmer; et al. (CoRR, 2024)

Medical image synthesis via conditional GANs: Application to segmenting brain tumours. - Mohammad Hamghalam; Amber L. Simpson (Comput. Biol. Medicine, 2024)

Simulated deep CT characterization of liver metastases with high-resolution filtered back projection reconstruction. - Christopher Wiedeman; Peter Lorraine; Ge Wang 001; Richard K. G. Do; Amber L. Simpson; Jacob J. Peoples; Bruno De Man (Vis. Comput. Ind. Biomed. Art, 2024)

Targeted generative data augmentation for automatic metastases detection from free-text radiology reports. - Maede Ashofteh Barabadi; Xiaodan Zhu 001; Wai-Yip Chan; Amber L. Simpson; Richard K. G. Do (Frontiers Artif. Intell., 2025)

Finding Reproducible and Prognostic Radiomic Features in Variable Slice Thickness Contrast Enhanced CT of Colorectal Liver Metastases. - Jacob J. Peoples; Mohammad Hamghalam; Imani James; Maida Wasim; Natalie Gangai; HyunSeon Christine Kang; Xiujiang John Rong; Yun Shin Chun; Richard K. G. Do; Amber L. Simpson (CoRR, 2025)

False Promises in Medical Imaging AI? Assessing Validity of Outperformance Claims. - Evangelia Christodoulou; Annika Reinke; Pascaline Andrè; Patrick Godau; Piotr Kalinowski; Rola Houhou; Selen Erkan; Carole H. Sudre; Ninon Burgos; Sofiène Boutaj; Sophie Loizillon; Maëlys Solal; et al. (CoRR, 2025)

Comparing the Effects of Persistence Barcodes Aggregation and Feature Concatenation on Medical Imaging. - Dashti A. Ali; Richard K. G. Do; William R. Jarnagin; Aras T. Asaad; Amber L. Simpson (CoRR, 2025)