James D. Brooks

Publication Activity (10 Years)

Years Active: 2009-2024
Publications (10 Years): 29

Top Topics

Prostate Cancer

Weakly Supervised

Top Venues

Medical Image Anal.

Publications

Wei Shao, Sulaiman Vesal, Simon J. C. Soerensen, Indrani Bhattacharya, Negar Golestani, Rikiya Yamashita, Christian A. Kunder, Richard E. Fan, Pejman Ghanouni, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
RAPHIA: A deep learning pipeline for the registration of MRI and whole-mount histopathology images of the prostate. Comput. Biol. Medicine 173 (2024)
Grigorios M. Karageorgos, Sanghee Cho, Elizabeth McDonough, Chrystal Chadwick, Soumya Ghose, Jonathan Owens, Kyeong Joo Jung, Raghu Machiraju, Robert West, James D. Brooks, Parag Mallick, Fiona Ginty
Deep learning-based automated pipeline for blood vessel detection and distribution analysis in multiplexed prostate cancer images. Frontiers Bioinform. 3 (2023)
Okyaz Eminaga, Mahmoud Abbas, Christian Kunder, Yuri Tolkach, Ryan Han, James D. Brooks, Rosalie Nolley, Axel Semjonow, Martin Boegemann, Robert West, Jin Long, Richard E. Fan, Olaf Bettendorf
Critical Evaluation of Artificial Intelligence as Digital Twin of Pathologist for Prostate Cancer Pathology. CoRR (2023)
Indrani Bhattacharya, Sulaiman Vesal, Hassan Jahanandish, Moonhyung Choi, Steve Zhou, Zachary Kornberg, Elijah Sommer, Richard E. Fan, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
MIC-CUSP: Multimodal Image Correlations for Ultrasound-Based Prostate Cancer Detection. ASMUS@MICCAI (2023)
Okyaz Eminaga, Mahmoud Abbas, Jeanne Shen, Mark A. Laurie, James D. Brooks, Joseph C. Liao, Daniel L. Rubin
PlexusNet: A neural network architectural concept for medical image classification. Comput. Biol. Medicine 154 (2023)
Selen Bozkurt, Christopher J. Magnani, Martin G. Seneviratne, James D. Brooks, Tina Hernandez-Boussard
Expanding the Secondary Use of Prostate Cancer Real World Data: Automated Classifiers for Clinical and Pathological Stage. Frontiers Digit. Health 4 (2022)
Karin Stacke, Indrani Bhattacharya, Justin R. Tse, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
Correlated Feature Aggregation by Region Helps Distinguish Aggressive from Indolent Clear Cell Renal Cell Carcinoma Subtypes on CT. CoRR (2022)
Indrani Bhattacharya, Arun Seetharaman, Christian Kunder, Wei Shao, Leo C. Chen, Simon John Christoph Soerensen, Jeffrey B. Wang, Nikola C. Teslovich, Richard E. Fan, Pejman Ghanouni, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
Selective identification and localization of indolent and aggressive prostate cancers via CorrSigNIA: an MRI-pathology correlation and deep learning framework. Medical Image Anal. 75 (2022)
Rewa Sood, Wei Shao, Christian Kunder, Nikola C. Teslovich, Jeffrey B. Wang, Simon John Christoph Soerensen, Nikhil Madhuripan, Anugayathri Jawahar, James D. Brooks, Pejman Ghanouni, Richard E. Fan, Geoffrey A. Sonn, Mirabela Rusu
3D Registration of pre-surgical prostate MRI and histopathology images via super-resolution volume reconstruction. Medical Image Anal. 69 (2021)
Wei Shao, Linda Banh, Christian A. Kunder, Richard E. Fan, Simon John Christoph Soerensen, Jeffrey B. Wang, Nikola C. Teslovich, Nikhil Madhuripan, Anugayathri Jawahar, Pejman Ghanouni, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
ProsRegNet: A deep learning framework for registration of MRI and histopathology images of the prostate. Medical Image Anal. 68 (2021)
Indrani Bhattacharya, David S. Lim, Han Lin Aung, Xingchen Liu, Arun Seetharaman, Christian A. Kunder, Wei Shao, Simon John Christoph Soerensen, Richard E. Fan, Pejman Ghanouni, Katherine J. To'o, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
Bridging the gap between prostate radiology and pathology through machine learning. CoRR (2021)
Wei Shao, Indrani Bhattacharya, Simon John Christoph Soerensen, Christian A. Kunder, Jeffrey B. Wang, Richard E. Fan, Pejman Ghanouni, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
Weakly Supervised Registration of Prostate MRI and Histopathology Images. MICCAI (4) (2021)
Selen Bozkurt, Amee D. Azad, Melih Yilmaz, James D. Brooks, Douglas W. Blayney, Tina Hernandez-Boussard
Distinct Clusters of Patient reported outcome (PRO) trajectories among oncology patients receiving chemotherapy. AMIA (2020)
James D. Brooks, David Mendonça, Xin Zhang
Efficacy of Incentive Structures for Boundedly Rational Dispatchers in Large-Scale Queueing Networks. IEEE Trans. Hum. Mach. Syst. 50 (1) (2020)
Indrani Bhattacharya, Arun Seetharaman, Wei Shao, Rewa Sood, Christian A. Kunder, Richard E. Fan, Simon John Christoph Soerensen, Jeffrey B. Wang, Pejman Ghanouni, Nikola C. Teslovich, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
CorrSigNet: Learning CORRelated Prostate Cancer SIGnatures from Radiology and Pathology Images for Improved Computer Aided Diagnosis. MICCAI (2) (2020)
Indrani Bhattacharya, Arun Seetharaman, Wei Shao, Rewa Sood, Christian A. Kunder, Richard E. Fan, Simon John Christoph Soerensen, Jeffrey B. Wang, Pejman Ghanouni, Nikola C. Teslovich, James D. Brooks, Geoffrey A. Sonn, Mirabela Rusu
CorrSigNet: Learning CORRelated Prostate Cancer SIGnatures from Radiology and Pathology Images for Improved Computer Aided Diagnosis. CoRR (2020)
Jean Coquet, Selen Bozkurt, Kathleen M. Kan, Michelle Ferrari, Douglas W. Blayney, James D. Brooks, Tina Hernandez-Boussard
Comparison of orthogonal NLP methods for clinical phenotyping and assessment of bone scan utilization among prostate cancer patients. J. Biomed. Informatics 94 (2019)
Okyaz Eminaga, Mahmoud Abbas, Yuri Tolkach, Rosalie Nolley, Christian Kunder, Axel Semjonow, Martin Boegemann, Andreas M. Loening, James D. Brooks, Daniel L. Rubin
Biologic and Prognostic Feature Scores from Whole-Slide Histology Images Using Deep Learning. CoRR (2019)
Mirabela Rusu, Christian Kunder, Richard E. Fan, Pejman Ghanouni, Robert West, Geoffrey A. Sonn, James D. Brooks
Framework for the co-registration of MRI and histology images in prostate cancer patients with radical prostatectomy. Medical Imaging: Image Processing (2019)
Okyaz Eminaga, Mahmoud Abbas, Christian Kunder, Andreas M. Loening, Jeanne Shen, James D. Brooks, Curtis P. Langlotz, Daniel L. Rubin
Plexus Convolutional Neural Network (PlexusNet): A novel neural network architecture for histologic image analysis. CoRR (2019)
Raphael Lenain, Martin G. Seneviratne, Selen Bozkurt, Douglas W. Blayney, James D. Brooks, Tina Hernandez-Boussard
Machine Learning Approaches for Extracting Stage from Pathology Reports in Prostate Cancer. MedInfo (2019)
Okyaz Eminaga, Yuri Tolkach, Christian Kunder, Mahmoud Abbas, Ryan Han, Rosalie Nolley, Axel Semjonow, Martin Boegemann, Sebastian Huss, Andreas M. Loening, Robert West, Geoffrey A. Sonn, Richard E. Fan, Olaf Bettendorf, James D. Brooks, Daniel L. Rubin
Deep Learning for Prostate Pathology. CoRR (2019)
Martin G. Seneviratne, Juan M. Banda, James D. Brooks, Nigam Shah, Tina Hernandez-Boussard
Identifying cases of metastatic prostate cancer using machine learning on electronic health records. AMIA (2018)
Selen Bozkurt, Jung Park In, Kathleen Mary Kan, Michelle Ferrari, Daniel L. Rubin, James D. Brooks, Tina Hernandez-Boussard
An Automated Feature Engineering for Digital Rectal Examination Documentation using Natural Language Processing. AMIA (2018)
Roberto S. Silva Filho, Alexander K. Carroll, James D. Brooks
A distributed simulator platform for rapid industrial user experience prototyping. WSC (2017)
Tina Hernandez-Boussard, Panayotis Kourdis, Wen-wai Yim, Rajendra Dulal, Douglas W. Blayney, James D. Brooks
Mining Electronic Health Records to Extract Patient-Centered Outcomes Following Prostate cancer Treatment. AMIA (2017)
Anup Menon, H. Kirk Mathews, James D. Brooks, Dan Dai, Brian N. Meyer
Scheduling distributed locomotives for optimal train handling. ACC (2017)
James D. Brooks, Koushik Kar, David Mendonça
Allocation of flows in closed bipartite queueing networks. Eur. J. Oper. Res. 255 (2) (2016)
James D. Brooks, David Mendonça, Xin Zhang, Martha Grabowski
Estimating Computational Models of Dynamic Decision Making from Transactional Data. GDN (2016)
Christopher J. Gatti, James D. Brooks, Sarah G. Nurre
A Historical Analysis of the Field of OR/MS using Topic Models. CoRR (2015)
Emrah Biyik, James D. Brooks, Hullas Sehgal, Jigar Shah, Sahika Genc
Cloud-based model predictive building thermostatic controls of commercial buildings: Algorithm and implementation. ACC (2015)
Emrah Biyik, Sahika Genc, James D. Brooks
Model predictive building thermostatic controls of small-to-medium commercial buildings for optimal peak load reduction incorporating dynamic human comfort models: Algorithm and implementation. CCA (2014)
David Mendonça, James D. Brooks, Martha Grabowski
Linking Team Composition to Team Performance: An Application to Postdisaster Debris Removal Operations. IEEE Trans. Hum. Mach. Syst. 44 (3) (2014)
James D. Brooks, David Mendonça
Equity-effectiveness tradeoff in the allocation of flows in closed queueing networks. SysCon (2014)
David Mendonça, Barbara Cutler, William A. Wallace, James D. Brooks
Collaborative Training Tools for Emergency Restoration of Critical Infrastructure Systems. WorldCIST (1) (2014)
James D. Brooks, David Mendonça
Simulating market effects on boundedly rational agents in control of the dynamic dispatching of actors in network-based operations. WSC (2013)
Anupama Reddy, Angela Rose Brannon, Michael Seiler, Joseph Irgon, Börje Ljungberg, Hongjuan Zhao, James D. Brooks, Shridar Ganesan, W. Kimryn Rathmell, Gyan Bhanot
A Predictor for Survival in Intermediate Grade Clear Cell Renal Cell Carcinoma. BIOCOMP (2009)