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Journal Articles
- 2019
[j14]Brendon Lutnick, Brandon Ginley, Darshana Govind, Sean D. McGarry, Peter S. LaViolette, Rabi Yacoub, Sanjay Jain
, John E. Tomaszewski, Kuang-Yu Jen, Pinaki Sarder:
An integrated iterative annotation technique for easing neural network training in medical image analysis. Nat. Mach. Intell. 1(2): 112-119 (2019)- 2017
- [j13]Metin N. Gurcan, John Tomaszewski, James A. Overton, Scott Doyle, Alan Ruttenberg, Barry Smith:
Developing the Quantitative Histopathology Image Ontology (QHIO): A case study using the hot spot detection problem. J. Biomed. Informatics 66: 129-135 (2017) - 2015
- [j12]George Lee, Asha Singanamalli, Haibo Wang, Michael D. Feldman, Stephen R. Master, Natalie N. C. Shih, Elaine Spangler, Timothy R. Rebbeck, John Tomaszewski, Anant Madabhushi:
Supervised Multi-View Canonical Correlation Analysis (sMVCCA): Integrating Histologic and Proteomic Features for Predicting Recurrent Prostate Cancer. IEEE Trans. Medical Imaging 34(1): 284-297 (2015) - 2013
- [j11]Ajay Basavanhally, Shridar Ganesan, Michael D. Feldman, Natalie Shih, Carolyn Mies, John Tomaszewski, Anant Madabhushi:
Multi-Field-of-View Framework for Distinguishing Tumor Grade in ER+ Breast Cancer From Entire Histopathology Slides. IEEE Trans. Biomed. Eng. 60(8): 2089-2099 (2013) - 2012
- [j10]Scott Doyle, Michael D. Feldman, Natalie Shih, John Tomaszewski, Anant Madabhushi:
Cascaded discrimination of normal, abnormal, and confounder classes in histopathology: Gleason grading of prostate cancer. BMC Bioinform. 13: 282 (2012) - [j9]Scott Doyle, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
A Boosted Bayesian Multiresolution Classifier for Prostate Cancer Detection From Digitized Needle Biopsies. IEEE Trans. Biomed. Eng. 59(5): 1205-1218 (2012) - 2011
- [j8]Scott Doyle, James Monaco, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
An Active Learning Based Classification Strategy for the Minority Class Problem: Application to Histopathology Annotation. BMC Bioinform. 12: 424 (2011) - [j7]Abhishek Golugula, George Lee, Stephen R. Master, Michael D. Feldman, John Tomaszewski, David W. Speicher, Anant Madabhushi:
Supervised Regularized Canonical Correlation Analysis: integrating histologic and proteomic measurements for predicting biochemical recurrence following prostate surgery. BMC Bioinform. 12: 483 (2011) - [j6]Jonathan Chappelow, John Tomaszewski, Michael D. Feldman, Natalie Shih, Anant Madabhushi:
HistoStitcher©: An interactive program for accurate and rapid reconstruction of digitized whole histological sections from tissue fragments. Comput. Medical Imaging Graph. 35(7-8): 557-567 (2011) - [j5]Gaoyu Xiao, B. Nicolas Bloch, Jonathan Chappelow, Elizabeth Genega, Neil Rofsky, Robert E. Lenkinski, John Tomaszewski, Michael D. Feldman, Mark Rosen, Anant Madabhushi:
Determining histology-MRI slice correspondences for defining MRI-based disease signatures of prostate cancer. Comput. Medical Imaging Graph. 35(7-8): 568-578 (2011) - 2010
- [j4]James Monaco, John Tomaszewski, Michael D. Feldman, Ian S. Hagemann, Mehdi Moradi, Parvin Mousavi, Alexander Boag, Chris Davidson, Purang Abolmaesumi, Anant Madabhushi:
High-throughput detection of prostate cancer in histological sections using probabilistic pairwise Markov models. Medical Image Anal. 14(4): 617-629 (2010) - [j3]Ajay Basavanhally, Shridar Ganesan, Shannon Agner, James Monaco, Michael D. Feldman, John Tomaszewski, Gyan Bhanot, Anant Madabhushi:
Computerized Image-Based Detection and Grading of Lymphocytic Infiltration in HER2+ Breast Cancer Histopathology. IEEE Trans. Biomed. Eng. 57(3): 642-653 (2010) - [j2]Hussain Fatakdawala, Jun Xu, Ajay Basavanhally, Gyan Bhanot, Shridar Ganesan, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
Expectation-Maximization-Driven Geodesic Active Contour With Overlap Resolution (EMaGACOR): Application to Lymphocyte Segmentation on Breast Cancer Histopathology. IEEE Trans. Biomed. Eng. 57(7): 1676-1689 (2010) - 2005
- [j1]Anant Madabhushi, Michael D. Feldman, Dimitris N. Metaxas, John E. Tomaszeweski, Deborah Chute:
Automated detection of prostatic adenocarcinoma from high-resolution ex vivo MRI. IEEE Trans. Medical Imaging 24(12): 1611-1625 (2005)
Conference and Workshop Papers
- 2021
- [c50]Tatsat R. Patel, Mohammad Waqas, Sarah Fricano, Adam A. Dmytriw, John Tomaszewski, Elad I. Levy, Kenneth V. Snyder, Jason M. Davies, Adnan H. Siddiqui, Vincent M. Tutino:
Clot organization on histology is associated with radiomics features that predict treatment outcomes from mechanical thrombectomy. Medical Imaging: Digital Pathology 2021 - [c49]Avinash Kammardi Shashiprakash, Brendon Lutnick, Brandon Ginley, Darshana Govind, Nicholas J. Lucarelli, Kuang-Yu Jen, Avi Z. Rosenberg, Anatoly Urisman, Vighnesh Walavalkar, Jonathan E. Zuckerman, Marco Delsante, Mei Lin Z. Bissonnette, John E. Tomaszewski, David Manthey, Pinaki Sarder:
A distributed system improves inter-observer and AI concordance in annotating interstitial fibrosis and tubular atrophy. Medical Imaging: Digital Pathology 2021 - 2020
- [c48]Leema Krishna Murali, Brendon Lutnick, Brandon Ginley, John E. Tomaszewski, Pinaki Sarder:
Generative modeling for renal microanatomy. Medical Imaging: Digital Pathology 2020: 113200F - [c47]Briana A. Santo, Brahm H. Segal, John E. Tomaszewski, Imtiaz Mohammad, Amber M. Worral, Sanjay Jain, Michelle B. Visser, Pinaki Sarder:
Neutrophil Extracellular Traps (NETs): an unexplored territory in renal pathobiology, a pilot computational study. Medical Imaging: Digital Pathology 2020: 1132012 - [c46]Samuel P. Border, Kuang-Yu Jen, Washington L. C. dos-Santos, John Tomaszewski, Pinaki Sarder:
Probabilistic modelling of diabetic nephropathy progression. Medical Imaging: Digital Pathology 2020: 1132014 - [c45]Kathryn E. Maraszek, Briana A. Santo, Rabi Yacoub, John E. Tomaszewski, Imtiaz Mohammad, Amber M. Worral, Pinaki Sarder:
The presence and location of podocytes in glomeruli as affected by diabetes mellitus. Medical Imaging: Digital Pathology 2020: 1132018 - 2019
- [c44]Aurijoy Majumdar, Kuang-Yu Jen, Sanjay Jain, John E. Tomaszewski, Pinaki Sarder:
Examining structural patterns and causality in diabetic nephropathy using inter-glomerular distance and Bayesian graphical models. Medical Imaging: Digital Pathology 2019: 1095608 - 2018
- [c43]Brandon G. Ginley, John E. Tomaszewski, Kuang-Yu Jen, Agnes B. Fogo, Sanjay Jain, Pinaki Sarder:
Computational analysis of the structural progression of human glomeruli in diabetic nephropathy. Medical Imaging: Digital Pathology 2018: 105810A - [c42]Brendon Lutnick, Rabi Yacoub, Kuang-Yu Jen, John E. Tomaszewski, Sanjay Jain, Pinaki Sarder:
Deep variational auto-encoders for unsupervised glomerular classification. Medical Imaging: Digital Pathology 2018: 105810C - [c41]Olivier Simon, Rabi Yacoub, Sanjay Jain, John E. Tomaszewski, Pinaki Sarder:
Examining structural changes in diabetic nephropathy using inter-nuclear distances in glomeruli: a comparison of variously automated methods. Medical Imaging: Digital Pathology 2018: 105810B - [c40]Darshana Govind, Brandon Ginley, Brendon Lutnick, John E. Tomaszewski, Pinaki Sarder:
Glomerular detection and segmentation from multimodal microscopy images using a Butterworth band-pass filter. Medical Imaging: Digital Pathology 2018: 1058114 - 2017
- [c39]Brandon Ginley, John E. Tomaszewski, Pinaki Sarder:
Automatic computational labeling of glomerular textural boundaries. Medical Imaging: Digital Pathology 2017: 101400G - [c38]Brendon Lutnick, John E. Tomaszewski, Pinaki Sarder:
Leveraging unsupervised training sets for multi-scale compartmentalization in renal pathology. Medical Imaging: Digital Pathology 2017: 101400I - [c37]Snehal Ulhas Salunke, Tova Ablove, Theresa Danforth, John Tomaszewski, Scott Doyle:
Data-driven sampling method for building 3D anatomical models from serial histology. Medical Imaging: Digital Pathology 2017: 1014005 - 2016
- [c36]Pinaki Sarder, Brandon Ginley, John E. Tomaszewski:
Automated renal histopathology: digital extraction and quantification of renal pathology. Medical Imaging: Digital Pathology 2016: 97910F - [c35]Scott Doyle, Margaret Brandwein-Gensler, John Tomaszewski:
Quantification of tumor morphology via 3D histology: application to oral cavity cancers. Medical Imaging: Digital Pathology 2016: 979112 - 2014
- [c34]Haibo Wang, Angel Cruz-Roa, Ajay Basavanhally, Hannah Gilmore, Natalie Shih, Mike Feldman, John Tomaszewski, Fabio A. González, Anant Madabhushi:
Cascaded ensemble of convolutional neural networks and handcrafted features for mitosis detection. Medical Imaging: Digital Pathology 2014: 90410B - [c33]Angel Cruz-Roa, Ajay Basavanhally, Fabio A. González, Hannah Gilmore, Michael D. Feldman, Shridar Ganesan, Natalie Shih, John Tomaszewski, Anant Madabhushi:
Automatic detection of invasive ductal carcinoma in whole slide images with convolutional neural networks. Medical Imaging: Digital Pathology 2014: 904103 - [c32]Eileen Hwuang, Mirabela Rusu, Sudha Karthigeyan, Shannon Agner, Rachel Sparks, Natalie Shih, John E. Tomaszeweski, Mark Rosen, Michael D. Feldman, Anant Madabhushi:
Spectral embedding-based registration (SERg) for multimodal fusion of prostate histology and MRI. Medical Imaging: Image Processing 2014: 90343P - 2013
- [c31]George Lee, Rachel Sparks, Sahirzeeshan Ali, Anant Madabhushi, Michael D. Feldman, Stephen R. Master, Natalie Shih, John Tomaszewski:
Co-occurring gland tensors in localized cluster graphs: Quantitative histomorphometry for predicting biochemical recurrence for intermediate grade prostate cancer. ISBI 2013: 113-116 - [c30]Asha Singanamalli, Rachel Sparks, Mirabela Rusu, Natalie Shih, Amy Ziober, John Tomaszewski, Mark Rosen, Michael D. Feldman, Anant Madabhushi:
Identifying in vivo DCE MRI parameters correlated with ex vivo quantitative microvessel architecture: A radiohistomorphometric approach. Medical Imaging: Digital Pathology 2013: 867604 - 2012
- [c29]Robert Toth, Jonathan Chappelow, Christoph Vetter, Oliver Kutter, Christoph Russ, Michael D. Feldman, John Tomaszewski, Natalie Shih, Anant Madabhushi:
Incorporating the whole-mount prostate histology reconstruction program Histostitcher into the extensible imaging platform (XIP) framework. Medical Imaging: Computer-Aided Diagnosis 2012: 83151K - 2011
- [c28]Elaine Yu, James P. Monaco, John Tomaszewski, Natalie Shih, Michael D. Feldman, Anant Madabhushi:
Detection of prostate cancer on histopathology using color fractals and Probabilistic Pairwise Markov models. EMBC 2011: 3427-3430 - [c27]Pratik Patel, Jonathan Chappelow, John Tomaszewski, Michael D. Feldman, Mark Rosen, Natalie Shih, Anant Madabhushi:
Spatially weighted mutual information (SWMI) for registration of digitally reconstructed ex vivo whole mount histology and in vivo prostate MRI. EMBC 2011: 6269-6272 - [c26]Abhishek Golugula, George Lee, Stephen R. Master, Michael D. Feldman, John E. Tomaszewski, Anant Madabhushi:
Supervised regularized canonical correlation analysis: Integrating histologic and proteomic data for predicting biochemical failures. EMBC 2011: 6434-6437 - [c25]Ajay Basavanhally, Shridar Ganesan, Natalie Shih, Carolyn Mies, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
A boosted classifier for integrating multiple fields of view: Breast cancer grading in histopathology. ISBI 2011: 125-128 - [c24]Scott Doyle, Michael D. Feldman, John Tomaszewski, Natalie Shih, Anant Madabhushi:
Cascaded multi-class pairwise classifier (CascaMPa) for normal, cancerous, and cancer confounder classes in prostate histology. ISBI 2011: 715-718 - [c23]Ajay Basavanhally, Elaine Yu, Jun Xu, Shridar Ganesan, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
Incorporating domain knowledge for tubule detection in breast histopathology using O'Callaghan neighborhoods. Medical Imaging: Computer-Aided Diagnosis 2011: 796310 - 2010
- [c22]Scott Doyle, James Monaco, Anant Madabhushi, Stefan Lindholm, Patric Ljung, Lance Ladic, John Tomaszewski, Michael D. Feldman:
Evaluation of effects of jpeg2000 compression on a computer-aided detection system for prostate cancer on digitized histopathology. ISBI 2010: 1313-1316 - [c21]John E. Tomaszewski:
HistoCAD: Machine Facilitated Quantitative Histoimaging with Computer Assisted Diagnosis. Prostate Cancer Imaging 2010: 63-65 - [c20]Jun Xu, Rachel Sparks, Andrew Janowczyk, John E. Tomaszewski, Michael D. Feldman, Anant Madabhushi:
High-Throughput Prostate Cancer Gland Detection, Segmentation, and Classification from Digitized Needle Core Biopsies. Prostate Cancer Imaging 2010: 77-88 - [c19]Jonathan Chappelow, Stefan Both, Satish Viswanath, Stephen Hahn, Michael D. Feldman, Mark Rosen, John Tomaszewski, Neha Vapiwala, Pratik Patel, Anant Madabhushi:
Computer-assisted targeted therapy (CATT) for prostate radiotherapy planning by fusion of CT and MRI. Medical Imaging: Image-Guided Procedures 2010: 76252C - 2009
- [c18]Hussain Fatakdawala, Ajay Basavanhally, Jun Xu, Gyan Bhanot, Shridar Ganesan, Michael D. Feldman, John Tomaszewski, Anant Madabhushi:
Expectation Maximization driven Geodesic Active Contour with Overlap Resolution (EMaGACOR): Application to Lymphocyte Segmentation on Breast Cancer Histopathology. BIBE 2009: 69-76 - [c17]Yangming Ou, Dinggang Shen, Michael D. Feldman, John Tomaszewski, Christos Davatzikos:
Non-rigid registration between histological and MR images of the prostate: A joint segmentation and registration framework. CVPR Workshops 2009: 125-132 - [c16]George Lee, Scott Doyle, James Monaco, Michael D. Feldman, Stephen R. Master, John Tomaszewski, Anant Madabhushi:
A Knowledge Representation Framework for Integration, Classification of Multi-Scale Imaging and Non-Imaging Data: Preliminary Results in Predicting Prostate Cancer Recurrence by Fusing Mass Spectrometry and Histology. ISBI 2009: 77-80 - [c15]Shannon Agner, Jun Xu, Hussain Fatakdawala, Shridar Ganesan, Anant Madabhushi, Sarah Englander, Mark Rosen, Kathleen Thomas, Mitchell D. Schnall, Michael D. Feldman, John Tomaszewski:
Segmentation and Classification of Triple Negative Breast Cancers Using DCE-MRI. ISBI 2009: 1227-1230 - [c14]Jay Naik, Scott Doyle, Ajay Basavanhally, Shridar Ganesan, Michael D. Feldman, John E. Tomaszewski, Anant Madabhushi:
A boosted distance metric: application to content based image retrieval and classification of digitized histopathology. Medical Imaging: Computer-Aided Diagnosis 2009: 72603F - [c13]James Monaco, John E. Tomaszewski, Michael D. Feldman, Mehdi Moradi, Parvin Mousavi, Alexander Boag, Chris Davidson, Purang Abolmaesumi, Anant Madabhushi:
Probabilistic pairwise Markov models: application to prostate cancer detection. Medical Imaging: Image Processing 2009: 725903 - 2008
- [c12]Shivang Naik, Scott Doyle, Shannon Agner, Anant Madabhushi, Michael D. Feldman, John Tomaszewski:
Automated gland and nuclei segmentation for grading of prostate and breast cancer histopathology. ISBI 2008: 284-287 - [c11]Scott Doyle, Shannon Agner, Anant Madabhushi, Michael D. Feldman, John Tomaszewski:
Automated grading of breast cancer histopathology using spectral clusteringwith textural and architectural image features. ISBI 2008: 496-499 - [c10]Jonathan Chappelow, Satish Viswanath, James Monaco, Mark Rosen, John Tomaszewski, Michael D. Feldman, Anant Madabhushi:
Improving supervised classification accuracy using non-rigid multimodal image registration: detecting prostate cancer. Medical Imaging: Computer-Aided Diagnosis 2008: 69150V - 2007
- [c9]Jonathan Chappelow, Anant Madabhushi, Mark Rosen, John E. Tomaszeweski, Michael D. Feldman:
A Combined Feature Ensemble Based Mutual Information Scheme for Robust Inter-Modal, Inter-Protocol Image Registration. ISBI 2007: 644-647 - [c8]Scott Doyle, Mark I. Hwang, Kinsuk Shah, Anant Madabhushi, Michael D. Feldman, John E. Tomaszeweski:
Automated Grading of Prostate Cancer Using Architectural and Textural Image Features. ISBI 2007: 1284-1287 - [c7]Jonathan Chappelow, Anant Madabhushi, Mark Rosen, John E. Tomaszeweski, Michael D. Feldman:
Multimodal image registration of ex vivo 4 Tesla MRI with whole mount histology for prostate cancer detection. Medical Imaging: Image Processing 2007: 65121S - 2006
- [c6]Anant Madabhushi, Jianbo Shi, Michael D. Feldman, Mark Rosen, John Tomaszewski:
Comparing Ensembles of Learners: Detecting Prostate Cancer from High Resolution MRI. CVAMIA 2006: 25-36 - [c5]Scott Doyle, Carlos Rodriguez, Anant Madabhushi, John E. Tomaszewski, Michael D. Feldman:
Detecting Prostatic Adenocarcinoma From Digitized Histology Using a Multi-Scale Hierarchical Classification Approach. EMBC 2006: 4759-4762 - [c4]Scott Doyle, Anant Madabhushi, Michael D. Feldman, John E. Tomaszeweski:
A Boosting Cascade for Automated Detection of Prostate Cancer from Digitized Histology. MICCAI (2) 2006: 504-511 - [c3]Yiqiang Zhan, Michael D. Feldman, John E. Tomaszeweski, Christos Davatzikos, Dinggang Shen:
Registering Histological and MR Images of Prostate for Image-Based Cancer Detection. MICCAI (2) 2006: 620-628 - 2005
- [c2]Anant Madabhushi, Jianbo Shi, Mark Rosen, John E. Tomaszeweski, Michael D. Feldman:
Graph Embedding to Improve Supervised Classification and Novel Class Detection: Application to Prostate Cancer. MICCAI 2005: 729-737 - 2003
- [c1]Anant Madabhushi, Michael D. Feldman, Dimitris N. Metaxas, Deborah Chute, John E. Tomaszeweski:
A Novel Stochastic Combination of 3D Texture Features for Automated Segmentation of Prostatic Adenocarcinoma from High Resolution MRI. MICCAI (1) 2003: 581-591
Editorship
- 2021
- [e5]John E. Tomaszewski, Aaron D. Ward:
Medical Imaging 2021: Digital Pathology, Online, February 15-19, 2021. SPIE Proceedings 11603, SPIE 2021, ISBN 9781510640351 [contents] - 2020
- [e4]John E. Tomaszewski, Aaron D. Ward:
Medical Imaging 2020: Digital Pathology, Houston, TX, USA, February 15-20, 2020. SPIE Proceedings 11320, SPIE 2020, ISBN 9781510634077 [contents] - 2019
- [e3]John E. Tomaszewski, Aaron D. Ward:
Medical Imaging 2019: Digital Pathology, San Diego, California, United States, 16-21 February 2019. SPIE Proceedings 10956, SPIE 2019 [contents] - 2018
- [e2]John E. Tomaszewski, Metin N. Gurcan:
Medical Imaging 2018: Digital Pathology, Houston, Texas, United States, 10-15 February 2018. SPIE Proceedings 10581, SPIE 2018, ISBN 9781510616516 [contents] - 2017
- [e1]Metin N. Gurcan, John E. Tomaszewski:
Medical Imaging 2017: Digital Pathology, Orlando, Florida, United States, 11-16 February 2017. SPIE Proceedings 10140, SPIE 2017, ISBN 9781510607255 [contents]
Informal and Other Publications
- 2018
- [i1]Brendon Lutnick, Brandon Ginley, Darshana Govind, Sean D. McGarry, Peter S. LaViolette, Rabi Yacoub, Sanjay Jain, John E. Tomaszewski, Kuang-Yu Jen, Pinaki Sarder:
Iterative annotation to ease neural network training: Specialized machine learning in medical image analysis. CoRR abs/1812.07509 (2018)
Coauthor Index
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