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2020 – today
- 2024
[c145]Juyoung Yun, Shahira Abousamra, Chen Li, Rajarsi Gupta, Tahsin M. Kurç, Dimitris Samaras, Alison L. Van Dyke, Joel H. Saltz, Chao Chen:
Uncertainty Estimation for Tumor Prediction with Unlabeled Data. CVPR Workshops 2024: 6946-6954- [c144]Srikar Yellapragada, Alexandros Graikos, Prateek Prasanna, Tahsin M. Kurç, Joel H. Saltz, Dimitris Samaras:
PathLDM: Text conditioned Latent Diffusion Model for Histopathology. WACV 2024: 5170-5179 - 2023
- [j66]André L. S. Meirelles, Tahsin M. Kurç, Jun Kong
, Renato Ferreira, Joel H. Saltz, George Teodoro:
Effective and efficient active learning for deep learning-based tissue image analysis. Bioinform. 39(4) (2023) - [j65]Jakub R. Kaczmarzyk, Rajarsi Gupta, Tahsin M. Kurç, Shahira Abousamra, Joel H. Saltz, Peter K. Koo:
ChampKit: A framework for rapid evaluation of deep neural networks for patch-based histopathology classification. Comput. Methods Programs Biomed. 239: 107631 (2023) - [c143]Shahira Abousamra, Rajarsi Gupta, Tahsin M. Kurç, Dimitris Samaras, Joel H. Saltz, Chao Chen:
Topology-Guided Multi-Class Cell Context Generation for Digital Pathology. CVPR 2023: 3323-3333 - [c142]Shahira Abousamra, Danielle Fassler, Jiachen Yao, Rajarsi R. Gupta, Tahsin M. Kurç, Luisa F. Escobar-Hoyos, Dimitris Samaras, Kenneth Shroyer, Joel H. Saltz, Chao Chen:
Unsupervised Stain Decomposition via Inversion Regulation for Multiplex Immunohistochemistry Images. MIDL 2023: 74-94 - [i31]Annika Reinke, Minu Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew B. Blaschko, Florian Büttner, M. Jorge Cardoso, Veronika Cheplygina, Jianxu Chen, Evangelia Christodoulou, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Ben Glocker, Patrick Godau, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Jens Kleesiek, Florian Kofler, Thijs Kooi, Annette Kopp-Schneider, Michal Kozubek, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Susanne M. Rafelski, Nasir M. Rajpoot, Mauricio Reyes, Michael A. Riegler, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Manuel Wiesenfarth, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein:
Understanding metric-related pitfalls in image analysis validation. CoRR abs/2302.01790 (2023) - [i30]Shahira Abousamra, Rajarsi Gupta, Tahsin M. Kurç, Dimitris Samaras, Joel H. Saltz, Chao Chen:
Topology-Guided Multi-Class Cell Context Generation for Digital Pathology. CoRR abs/2304.02255 (2023) - [i29]Srikar Yellapragada, Alexandros Graikos, Prateek Prasanna, Tahsin M. Kurç, Joel H. Saltz, Dimitris Samaras:
PathLDM: Text conditioned Latent Diffusion Model for Histopathology. CoRR abs/2309.00748 (2023) - [i28]Jakub R. Kaczmarzyk, Alan O'Callaghan, Fiona Inglis, Tahsin M. Kurç, Rajarsi Gupta, Erich Bremer, Peter Bankhead, Joel H. Saltz:
Open and reusable deep learning for pathology with WSInfer and QuPath. CoRR abs/2309.04631 (2023) - 2022
- [j64]André L. S. Meirelles, Tahsin M. Kurç, Joel H. Saltz, George Teodoro:
Effective active learning in digital pathology: A case study in tumor infiltrating lymphocytes. Comput. Methods Programs Biomed. 220: 106828 (2022) - [j63]Willian Barreiros Jr., Alba C. M. A. Melo, Jun Kong, Renato Ferreira, Tahsin M. Kurç, Joel H. Saltz, George Teodoro:
Efficient microscopy image analysis on CPU-GPU systems with cost-aware irregular data partitioning. J. Parallel Distributed Comput. 164: 40-54 (2022) - [c141]Saumya Gupta, Xiaoling Hu, James Kaan, Michael Jin, Mutshipay Mpoy, Katherine Chung, Gagandeep Singh, Mary M. Saltz, Tahsin M. Kurç, Joel H. Saltz, Apostolos Tassiopoulos, Prateek Prasanna, Chao Chen:
Learning Topological Interactions for Multi-Class Medical Image Segmentation. ECCV (29) 2022: 701-718 - [i27]Ujjwal Baid, Sarthak Pati, Tahsin M. Kurç, Rajarsi Gupta, Erich Bremer, Shahira Abousamra, Siddhesh P. Thakur, Joel H. Saltz, Spyridon Bakas:
Federated Learning for the Classification of Tumor Infiltrating Lymphocytes. CoRR abs/2203.16622 (2022) - [i26]Mahmudul Hasan, Jakub R. Kaczmarzyk, David Paredes, Lyanne Oblein, Jaymie Oentoro, Shahira Abousamra, Michael Horowitz, Dimitris Samaras, Chao Chen, Tahsin M. Kurç, Kenneth R. Shroyer, Joel H. Saltz:
A Novel Framework for Characterization of Tumor-Immune Spatial Relationships in Tumor Microenvironment. CoRR abs/2204.12283 (2022) - [i25]Lena Maier-Hein, Annika Reinke, Evangelia Christodoulou, Ben Glocker, Patrick Godau, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Minu Dietlinde Tizabi, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Peter Bankhead, Arriel Benis, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Bram van Ginneken, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Annette Kopp-Schneider, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, David Moher, Karel G. M. Moons, Henning Müller, Felix Nickel, Brennan Nichyporuk, Jens Petersen, Nasir M. Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clarisa Sánchez Gutiérrez, Shravya Shetty, Maarten van Smeden, Carole H. Sudre, Ronald M. Summers, Abdel A. Taha, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Paul F. Jäger:
Metrics reloaded: Pitfalls and recommendations for image analysis validation. CoRR abs/2206.01653 (2022) - [i24]Jakub R. Kaczmarzyk, Tahsin M. Kurç, Shahira Abousamra, Rajarsi Gupta, Joel H. Saltz, Peter K. Koo:
Evaluating histopathology transfer learning with ChampKit. CoRR abs/2206.06862 (2022) - [i23]Rajarsi Gupta, Jakub Kaczmarzyk, Soma Kobayashi, Tahsin M. Kurç, Joel H. Saltz:
AI and Pathology: Steering Treatment and Predicting Outcomes. CoRR abs/2206.07573 (2022) - [i22]Saumya Gupta, Xiaoling Hu, James Kaan, Michael Jin, Mutshipay Mpoy, Katherine Chung, Gagandeep Singh, Mary M. Saltz, Tahsin M. Kurç, Joel H. Saltz, Apostolos Tassiopoulos, Prateek Prasanna, Chao Chen:
Learning Topological Interactions for Multi-Class Medical Image Segmentation. CoRR abs/2207.09654 (2022) - 2021
- [j62]Jeremias M. Gomes, Jun Kong, Tahsin M. Kurç, Alba C. M. A. Melo, Renato Ferreira, Joel H. Saltz, George Teodoro:
Building robust pathology image analyses with uncertainty quantification. Comput. Methods Programs Biomed. 208: 106291 (2021) - [c140]Sritha Rajupet, Rachel Wong, Donna Moller, Lisa Maldonado, Tricia Weiss, Tahsin M. Kurç, Janos G. Hajagos, Hasit Shah, Mary M. Saltz, Joel H. Saltz, Veena Lingam:
Informatics to Power Post-COVID Care: A Framework for Patient Care and Secondary Data Use. AMIA 2021 - [c139]Siao Sun, Fusheng Wang, Sina Rashidian, Tahsin M. Kurç, Kayley Abell-Hart, Janos G. Hajagos, Wei Zhu, Mary M. Saltz, Joel H. Saltz:
Generating Longitudinal Synthetic EHR Data with Recurrent Autoencoders and Generative Adversarial Networks. AMIA 2021 - [c138]Siao Sun, Fusheng Wang, Sina Rashidian, Tahsin M. Kurç, Kayley Abell-Hart, Janos G. Hajagos, Wei Zhu, Mary M. Saltz, Joel H. Saltz:
Generating Longitudinal Synthetic EHR Data with Recurrent Autoencoders and Generative Adversarial Networks. Poly/DMAH@VLDB 2021: 153-165 - [c137]Shahira Abousamra, David Belinsky, John S. Van Arnam, Felicia Allard, Eric Yee, Rajarsi Gupta, Tahsin M. Kurç, Dimitris Samaras, Joel H. Saltz, Chao Chen:
Multi-Class Cell Detection Using Spatial Context Representation. ICCV 2021: 3985-3994 - [c136]Tong Shu, Yanfei Guo, Justin M. Wozniak, Xiaoning Ding, Ian T. Foster, Tahsin M. Kurç:
In-situ workflow auto-tuning through combining component models. PPoPP 2021: 467-468 - [c135]Tong Shu, Yanfei Guo, Justin M. Wozniak, Xiaoning Ding, Ian T. Foster, Tahsin M. Kurç:
Bootstrapping in-situ workflow auto-tuning via combining performance models of component applications. SC 2021: 28 - [c134]Ana Gainaru, Dmitry Ganyushin, Bing Xie, Tahsin M. Kurç, Joel H. Saltz, Sarp Oral, Norbert Podhorszki, Franz Poeschel, Axel Huebl, Scott Klasky:
Understanding and Leveraging the I/O Patterns of Emerging Machine Learning Analytics. SMC 2021: 119-138 - [i21]Annika Reinke, Matthias Eisenmann, Minu Dietlinde Tizabi, Carole H. Sudre, Tim Rädsch, Michela Antonelli, Tal Arbel, Spyridon Bakas, M. Jorge Cardoso, Veronika Cheplygina, Keyvan Farahani, Ben Glocker, Doreen Heckmann-Nötzel, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Jens Kleesiek, Tahsin M. Kurç, Michal Kozubek, Bennett A. Landman, Geert Litjens, Klaus H. Maier-Hein, Bjoern H. Menze, Henning Müller, Jens Petersen, Mauricio Reyes, Nicola Rieke, Bram Stieltjes, Ronald M. Summers, Sotirios A. Tsaftaris, Bram van Ginneken, Annette Kopp-Schneider, Paul Jäger, Lena Maier-Hein:
Common Limitations of Image Processing Metrics: A Picture Story. CoRR abs/2104.05642 (2021) - [i20]Shahira Abousamra, David Belinsky, John S. Van Arnam, Felicia Allard, Eric Yee, Rajarsi Gupta, Tahsin M. Kurç, Dimitris Samaras, Joel H. Saltz, Chao Chen:
Multi-Class Cell Detection Using Spatial Context Representation. CoRR abs/2110.04886 (2021) - 2020
- [j61]Willian Barreiros Jr., Jeremias Moreira, Tahsin M. Kurç, Jun Kong, Alba C. M. A. Melo, Joel H. Saltz, George Teodoro:
Optimizing parameter sensitivity analysis of large-scale microscopy image analysis workflows with multilevel computation reuse. Concurr. Comput. Pract. Exp. 32(2) (2020) - [j60]Jeremy Logan, Mark Ainsworth, Chuck Atkins, Jieyang Chen, Jong Choi, Junmin Gu, James Kress, Greg Eisenhauer, Berk Geveci, William F. Godoy, Mark Kim, Tahsin M. Kurç, Qing Liu, Kshitij Mehta, George Ostrouchov, Norbert Podhorszki, David Pugmire, Eric Suchyta, Nicholas Thompson, Ozan Tugluk, Lipeng Wan, Ruonan Wang, Ben Whitney, Matthew Wolf, Kesheng Wu, Scott Klasky:
Extending the Publish/Subscribe Abstraction for High-Performance I/O and Data Management at Extreme Scale. IEEE Data Eng. Bull. 43(1): 35-46 (2020) - [j59]William F. Godoy, Norbert Podhorszki, Ruonan Wang, Chuck Atkins, Greg Eisenhauer, Junmin Gu, Philip E. Davis, Jong Choi, Kai Germaschewski, Kevin A. Huck, Axel Huebl, Mark Kim, James Kress, Tahsin M. Kurç, Qing Liu, Jeremy Logan, Kshitij Mehta, George Ostrouchov, Manish Parashar, Franz Poeschel, David Pugmire, Eric Suchyta, Keichi Takahashi, Nick Thompson, Seiji Tsutsumi, Lipeng Wan, Matthew Wolf, Kesheng Wu, Scott Klasky:
ADIOS 2: The Adaptable Input Output System. A framework for high-performance data management. SoftwareX 12: 100561 (2020) - [j58]Andreas S. Panayides, Amir A. Amini, Nenad D. Filipovic, Ashish Sharma, Sotirios A. Tsaftaris, Alistair A. Young, David J. Foran, Nhan Do, Spyretta Golemati, Tahsin M. Kurç, Kun Huang, Konstantina S. Nikita, Ben P. Veasey, Michalis E. Zervakis, Joel H. Saltz, Constantinos S. Pattichis:
AI in Medical Imaging Informatics: Current Challenges and Future Directions. IEEE J. Biomed. Health Informatics 24(7): 1837-1857 (2020) - [c133]David Paredes, Prateek Prasanna, Christina Preece, Rajarsi Gupta, Farzad Fereidouni, Dimitris Samaras, Tahsin M. Kurç, Richard M. Levenson, Patricia Thompson-Carino, Joel H. Saltz, Chao Chen:
Automated Assessment of the Curliness of Collagen Fiber in Breast Cancer. ECCV Workshops (1) 2020: 267-279 - [c132]Shahira Abousamra, Danielle Fassler, Le Hou, Yuwei Zhang, Rajarsi Gupta, Tahsin M. Kurç, Luisa F. Escobar-Hoyos, Dimitris Samaras, Beatrice Knudson, Kenneth Shroyer, Joel H. Saltz, Chao Chen:
Weakly-Supervised Deep Stain Decomposition for Multiplex IHC Images. ISBI 2020: 481-485 - [i19]Le Hou, Rajarsi Gupta, John S. Van Arnam, Yuwei Zhang, Kaustubh Sivalenka, Dimitris Samaras, Tahsin M. Kurç, Joel H. Saltz:
Dataset of Segmented Nuclei in Hematoxylin and Eosin Stained Histopathology Images of 10 Cancer Types. CoRR abs/2002.07913 (2020) - [i18]Tong Shu, Yanfei Guo, Justin M. Wozniak, Xiaoning Ding, Ian T. Foster, Tahsin M. Kurç:
In-situ Workflow Auto-tuning via Combining Performance Models of Component Applications. CoRR abs/2008.06991 (2020)
2010 – 2019
- 2019
- [j57]Jeremias M. Gomes, Willian Barreiros Jr., Tahsin M. Kurç, Alba C. M. A. Melo, Jun Kong, Joel H. Saltz, George Teodoro:
Sensitivity analysis in digital pathology: Handling large number of parameters with compute expensive workflows. Comput. Biol. Medicine 108: 371-381 (2019) - [j56]Justin M. Wozniak, Matthieu Dorier, Robert B. Ross, Tong Shu, Tahsin M. Kurç, Li Tang, Norbert Podhorszki, Matthew Wolf:
MPI jobs within MPI jobs: A practical way of enabling task-level fault-tolerance in HPC workflows. Future Gener. Comput. Syst. 101: 576-589 (2019) - [j55]Luis F. R. Taveira, Tahsin M. Kurç, Alba C. M. A. Melo, Jun Kong, Erich Bremer, Joel H. Saltz, George Teodoro:
Multi-objective Parameter Auto-tuning for Tissue Image Segmentation Workflows. J. Digit. Imaging 32(3): 521-533 (2019) - [j54]Le Hou, Vu Nguyen, Ariel B. Kanevsky, Dimitris Samaras, Tahsin M. Kurç, Tianhao Zhao, Rajarsi R. Gupta, Yi Gao, Wenjin Chen, David J. Foran, Joel H. Saltz:
Sparse autoencoder for unsupervised nucleus detection and representation in histopathology images. Pattern Recognit. 86: 188-200 (2019) - [c131]Rafael Marconi Ramos, Célia Ghedini Ralha, Tahsin M. Kurç, Joel H. Saltz, George Teodoro:
Increasing Accuracy of Medical CNN Applying Optimization Algorithms: An Image Classification Case. BRACIS 2019: 233-238 - [c130]Tahsin M. Kurç, Ashish Sharma, Rajarsi Gupta, Le Hou, Han Le, Shahira Abousamra, Erich Bremer, Ryan Birmingham, Tammy Diprima, Nan Li, Feiqiao Wang, Joseph Balsamo, Whitney Bremer, Dimitris Samaras, Joel H. Saltz:
From Whole Slide Tissues to Knowledge: Mapping Sub-cellular Morphology of Cancer. BrainLes@MICCAI (2) 2019: 371-379 - [c129]Le Hou, Ayush Agarwal, Dimitris Samaras, Tahsin M. Kurç, Rajarsi R. Gupta, Joel H. Saltz:
Robust Histopathology Image Analysis: To Label or to Synthesize? CVPR 2019: 8533-8542 - [c128]Jeremy Logan, Kshitij Mehta, Gerd Heber, Scott Klasky, Tahsin M. Kurç, Norbert Podhorszki, Patrick M. Widener, Matthew Wolf:
A Vision for Managing Extreme-Scale Data Hoards. ICDCS 2019: 1806-1817 - [c127]Han Le, Dimitris Samaras, Tahsin M. Kurç, Rajarsi Gupta, Kenneth Shroyer, Joel H. Saltz:
Pancreatic Cancer Detection in Whole Slide Images Using Noisy Label Annotations. MICCAI (1) 2019: 541-549 - [i17]Maozheng Zhao, Le Hou, Han Le, Dimitris Samaras, Nebojsa Jojic, Danielle Fassler, Tahsin M. Kurç, Rajarsi R. Gupta, Kolya Malkin, Shahira Abousamra, Kenneth Shroyer, Joel H. Saltz:
Label Super Resolution with Inter-Instance Loss. CoRR abs/1904.04429 (2019) - [i16]Han Le, Rajarsi R. Gupta, Le Hou, Shahira Abousamra, Danielle Fassler, Tahsin M. Kurç, Dimitris Samaras, Rebecca Batiste, Tianhao Zhao, Alison L. Van Dyke, Ashish Sharma, Erich Bremer, Jonas S. Almeida, Joel H. Saltz:
Utilizing Automated Breast Cancer Detection to Identify Spatial Distributions of Tumor Infiltrating Lymphocytes in Invasive Breast Cancer. CoRR abs/1905.10841 (2019) - [i15]Shahira Abousamra, Le Hou, Rajarsi R. Gupta, Chao Chen, Dimitris Samaras, Tahsin M. Kurç, Rebecca Batiste, Tianhao Zhao, Kenneth Shroyer, Joel H. Saltz:
Learning from Thresholds: Fully Automated Classification of Tumor Infiltrating Lymphocytes for Multiple Cancer Types. CoRR abs/1907.03960 (2019) - [i14]Eduardo Scartezini, Willian Barreiros Jr., Tahsin M. Kurç, Jun Kong, Alba C. M. A. Melo, Joel H. Saltz, George Teodoro:
Run-time Parameter Sensitivity Analysis Optimizations. CoRR abs/1910.14548 (2019) - 2018
- [j53]Jeremias M. Gomes, Alba Cristina Magalhaes Alves de Melo, Jun Kong, Tahsin M. Kurç, Joel H. Saltz, George Teodoro:
Cooperative and out-of-core execution of the irregular wavefront propagation pattern on hybrid machines with Intel® Xeon Phi™. Concurr. Comput. Pract. Exp. 30(14) (2018) - [c126]Tahsin M. Kurç, Joel H. Saltz, Fred W. Prior, Ashish Sharma:
Systems Demonstration: Towards a Services Oriented Platform for Combined Radiology-Pathology Image Analysis and Interpretation. AMIA 2018 - [c125]Scott Klasky, Matthew Wolf, Mark Ainsworth, Chuck Atkins, Jong Choi, Greg Eisenhauer, Berk Geveci, William F. Godoy, Mark Kim, James Kress, Tahsin M. Kurç, Qing Liu, Jeremy Logan, Arthur B. Maccabe, Kshitij Mehta, George Ostrouchov, Manish Parashar, Norbert Podhorszki, David Pugmire, Eric Suchyta, Lipeng Wan, Ruonan Wang:
A View from ORNL: Scientific Data Research Opportunities in the Big Data Age. ICDCS 2018: 1357-1368 - [i13]Luis F. R. Taveira, Tahsin M. Kurç, Alba C. M. A. Melo, Jun Kong, Erich Bremer, Joel H. Saltz, George Teodoro:
Tuning for Tissue Image Segmentation Workflows for Accuracy and Performance. CoRR abs/1810.02911 (2018) - [i12]Quoc Dang Vu, Simon Graham, Minh Nguyen Nhat To, Muhammad Shaban, Talha Qaiser, Navid Alemi Koohbanani, Syed Ali Khurram, Tahsin M. Kurç, Keyvan Farahani, Tianhao Zhao, Rajarsi R. Gupta, Jin Tae Kwak, Nasir M. Rajpoot, Joel H. Saltz:
Methods for Segmentation and Classification of Digital Microscopy Tissue Images. CoRR abs/1810.13230 (2018) - 2017
- [j52]George Teodoro, Tahsin M. Kurç, Luis F. R. Taveira, Alba C. M. A. Melo, Yi Gao:
Algorithm sensitivity analysis and parameter tuning for tissue image segmentation pipelines. Bioinform. 33(7): 1064-1072 (2017) - [j51]George Teodoro, Tahsin M. Kurç, Guilherme Andrade, Jun Kong, Renato Ferreira, Joel H. Saltz:
Application performance analysis and efficient execution on systems with multi-core CPUs, GPUs and MICs: a case study with microscopy image analysis. Int. J. High Perform. Comput. Appl. 31(1): 32-51 (2017) - [c124]Le Hou, Dimitris Samaras, Tahsin M. Kurç, Yi Gao, Joel H. Saltz:
ConvNets with Smooth Adaptive Activation Functions for Regression. AISTATS 2017: 430-439 - [c123]Joel H. Saltz, Ashish Sharma, Alexis B. Carter, Liron Pantanowitz, Tahsin M. Kurç:
20 Years of Digital Pathology - An Overview of the Road Travelled and What is on the Horizon. AMIA 2017 - [c122]Willian Barreiros, George Teodoro, Tahsin M. Kurç, Jun Kong, Alba C. M. A. Melo, Joel H. Saltz:
Parallel and Efficient Sensitivity Analysis of Microscopy Image Segmentation Workflows in Hybrid Systems. CLUSTER 2017: 25-35 - [c121]Jong Youl Choi, Jeremy Logan, Matthew Wolf, George Ostrouchov, Tahsin M. Kurç, Qing Liu, Norbert Podhorszki, Scott Klasky, Melissa Romanus, Qian Sun, Manish Parashar, Randy Michael Churchill, Choong-Seock Chang:
TGE: Machine Learning Based Task Graph Embedding for Large-Scale Topology Mapping. CLUSTER 2017: 587-591 - [c120]Ian T. Foster, Mark Ainsworth, Bryce Allen, Julie Bessac, Franck Cappello, Jong Youl Choi, Emil M. Constantinescu, Philip E. Davis, Sheng Di, Zichao Wendy Di, Hanqi Guo, Scott Klasky, Kerstin Kleese van Dam, Tahsin M. Kurç, Qing Liu, Abid Malik, Kshitij Mehta, Klaus Mueller, Todd S. Munson, George Ostrouchov, Manish Parashar, Tom Peterka, Line Pouchard, Dingwen Tao, Ozan Tugluk, Stefan M. Wild, Matthew Wolf, Justin M. Wozniak, Wei Xu, Shinjae Yoo:
Computing Just What You Need: Online Data Analysis and Reduction at Extreme Scales. Euro-Par 2017: 3-19 - [c119]Furqan Baig, Hoang Vo, Tahsin M. Kurç, Joel H. Saltz, Fusheng Wang:
SparkGIS: Resource Aware Efficient In-Memory Spatial Query Processing. SIGSPATIAL/GIS 2017: 28:1-28:10 - [c118]Qing Liu, Norbert Podhorszki, Jong Youl Choi, Jeremy Logan, Matthew Wolf, Scott Klasky, Tahsin M. Kurç, Xubin He:
StoreRush: An Application-Level Approach to Harvesting Idle Storage in a Best Effort Environment. ICCS 2017: 475-484 - [c117]Naiyun Zhou, Xiaxia Yu, Tianhao Zhao, Si Wen, Fusheng Wang, Wei Zhu, Tahsin M. Kurç, Allen R. Tannenbaum, Joel H. Saltz, Yi Gao:
Evaluation of nucleus segmentation in digital pathology images through large scale image synthesis. Digital Pathology 2017: 101400K - [c116]Veda Murthy, Le Hou, Dimitris Samaras, Tahsin M. Kurç, Joel H. Saltz:
Center-Focusing Multi-task CNN with Injected Features for Classification of Glioma Nuclear Images. WACV 2017: 834-841 - [i11]Le Hou, Vu Nguyen, Dimitris Samaras, Tahsin M. Kurç, Yi Gao, Tianhao Zhao, Joel H. Saltz:
Sparse Autoencoder for Unsupervised Nucleus Detection and Representation in Histopathology Images. CoRR abs/1704.00406 (2017) - [i10]Le Hou, Ayush Agarwal, Dimitris Samaras, Tahsin M. Kurç, Rajarsi R. Gupta, Joel H. Saltz:
Unsupervised Histopathology Image Synthesis. CoRR abs/1712.05021 (2017) - 2016
- [c115]Erich Bremer, Tahsin M. Kurç, Yi Gao, Joel H. Saltz, Jonas S. Almeida:
Safe "cloudification" of large images through picker APIs. AMIA 2016 - [c114]Veronica E. Lynn, Niranjan Balasubramanian, Tahsin M. Kurç, Joel H. Saltz, Rebecca Jacobson:
POE: A Pathology Extraction Tool for Finding Attribute-Value Pairs in Glioma Pathology Reports. AMIA 2016 - [c113]Le Hou, Dimitris Samaras, Tahsin M. Kurç, Yi Gao, James E. Davis, Joel H. Saltz:
Patch-Based Convolutional Neural Network for Whole Slide Tissue Image Classification. CVPR 2016: 2424-2433 - [c112]David Pugmire, James Kress, Jong Youl Choi, Scott Klasky, Tahsin M. Kurç, Michael Churchill, Matthew Wolf, Greg Eisenhauer, Hank Childs, Kesheng Wu, Alexander Sim, Junmin Gu, Jonathan Low:
Visualization and Analysis for Near-Real-Time Decision Making in Distributed Workflows. IPDPS Workshops 2016: 1007-1013 - [c111]Yi Gao, William Liu, Shipra Arjun, Liangjia Zhu, Vadim Ratner, Tahsin M. Kurç, Joel H. Saltz, Allen R. Tannenbaum:
Multi-scale learning based segmentation of glands in digital colonrectal pathology images. Digital Pathology 2016: 97910M - [c110]Yi Gao, Vadim Ratner, Liangjia Zhu, Tammy Diprima, Tahsin M. Kurç, Allen R. Tannenbaum, Joel H. Saltz:
Hierarchical nucleus segmentation in digital pathology images. Digital Pathology 2016: 979117 - [i9]Le Hou, Dimitris Samaras, Tahsin M. Kurç, Yi Gao, Joel H. Saltz:
Neural Networks with Smooth Adaptive Activation Functions for Regression. CoRR abs/1608.06557 (2016) - [i8]George Teodoro, Tahsin M. Kurç, Luis F. R. Taveira, Alba C. M. A. Melo, Jun Kong, Joel H. Saltz:
Efficient Methods and Parallel Execution for Algorithm Sensitivity Analysis with Parameter Tuning on Microscopy Imaging Datasets. CoRR abs/1612.03413 (2016) - [i7]Veda Murthy, Le Hou, Dimitris Samaras, Tahsin M. Kurç, Joel H. Saltz:
Center-Focusing Multi-task CNN with Injected Features for Classification of Glioma Nuclear Images. CoRR abs/1612.06825 (2016) - 2015
- [j50]Tahsin M. Kurç, Xin Qi, Daihou Wang, Fusheng Wang, George Teodoro, Lee Cooper, Michael Nalisnik, Lin Yang, Joel H. Saltz, David J. Foran:
Scalable analysis of Big pathology image data cohorts using efficient methods and high-performance computing strategies. BMC Bioinform. 16: 399:1-399:21 (2015) - [c109]Jonas S. Almeida, Janos G. Hajagos, Ivan Crnosija, Tahsin M. Kurç, Mary M. Saltz, Joel H. Saltz:
OpenHealth Platform for Interactive Contextualization of Population Health Open Data. AMIA 2015 - [c108]Mary M. Saltz, Joel H. Saltz, Janos G. Hajagos, Andrew White, Charles Boicey, Jim Murry, Ivan Crnosija, Tahsin M. Kurç, Erich Bremer, Jonas S. Almeida:
Integrative Informatics and Predictive Modeling Support for Population Health. AMIA 2015 - [c107]Jeremias M. Gomes, George Teodoro, Alba de Melo, Jun Kong, Tahsin M. Kurç, Joel H. Saltz:
Efficient Irregular Wavefront Propagation Algorithms on Intel(R) Xeon Phi(TM). SBAC-PAD 2015: 25-32 - [c106]Furqan Baig, Mudit Mehrotra, Hoang Vo, Fusheng Wang, Joel H. Saltz, Tahsin M. Kurç:
SparkGIS: Efficient Comparison and Evaluation of Algorithm Results in Tissue Image Analysis Studies. Big-O(Q)/DMAH@VLDB 2015: 134-146 - [i6]Le Hou, Dimitris Samaras, Tahsin M. Kurç, Yi Gao, James E. Davis, Joel H. Saltz:
Efficient Multiple Instance Convolutional Neural Networks for Gigapixel Resolution Image Classification. CoRR abs/1504.07947 (2015) - [i5]George Teodoro, Tahsin M. Kurç, Guilherme Andrade, Jun Kong, Renato Ferreira, Joel H. Saltz:
Performance Analysis and Efficient Execution on Systems with multi-core CPUs, GPUs and MICs. CoRR abs/1505.03819 (2015) - 2014
- [j49]Lin Yang, Xin Qi, Fuyong Xing, Tahsin M. Kurç, Joel H. Saltz, David J. Foran:
Parallel content-based sub-image retrieval using hierarchical searching. Bioinform. 30(7): 996-1002 (2014) - [j48]George Teodoro, Tony Pan, Tahsin M. Kurç, Jun Kong, Lee Cooper, Scott Klasky, Joel H. Saltz:
Region templates: Data representation and management for high-throughput image analysis. Parallel Comput. 40(10): 589-610 (2014) - [c105]George Teodoro, Tahsin M. Kurç, Jun Kong, Lee Cooper, Joel H. Saltz:
Comparative Performance Analysis of Intel (R) Xeon Phi (TM), GPU, and CPU: A Case Study from Microscopy Image Analysis. IPDPS 2014: 1063-1072 - [c104]Guilherme Andrade, Renato Ferreira, George Teodoro, Leonardo Rocha, Joel H. Saltz, Tahsin M. Kurç:
Efficient Execution of Microscopy Image Analysis on CPU, GPU, and MIC Equipped Cluster Systems. SBAC-PAD 2014: 89-96 - [i4]George Teodoro, Tony Pan, Tahsin M. Kurç, Jun Kong, Lee Cooper, Scott Klasky, Joel H. Saltz:
Region Templates: Data Representation and Management for Large-Scale Image Analysis. CoRR abs/1405.7958 (2014) - 2013
- [j47]Joel H. Saltz, George Teodoro, Tony Pan, Lee A. D. Cooper, Jun Kong, Scott Klasky, Tahsin M. Kurç:
Feature-based analysis of large-scale spatio-temporal sensor data on hybrid architectures. Int. J. High Perform. Comput. Appl. 27(3): 263-272 (2013) - [j46]Cristobal Vergara-Niedermayr, Fusheng Wang, Tony Pan, Tahsin M. Kurç, Joel H. Saltz:
Semantically Interoperable XML Data. Int. J. Semantic Comput. 7(3): 237-256 (2013) - [j45]David A. Gutman, Jake Cobb, Dhananjaya Somanna, Yuna Park, Fusheng Wang, Tahsin M. Kurç, Joel H. Saltz, Daniel J. Brat, Lee A. D. Cooper:
Research and applications: Cancer Digital Slide Archive: an informatics resource to support integrated in silico analysis of TCGA pathology data. J. Am. Medical Informatics Assoc. 20(6): 1091-1098 (2013) - [j44]Andrew R. Post, Tahsin M. Kurç, Sharath R. Cholleti, Jingjing Gao, Xia Lin, William Bornstein, Dedra Cantrell, David Levine, Sam Hohmann, Joel H. Saltz:
The Analytic Information Warehouse (AIW): A platform for analytics using electronic health record data. J. Biomed. Informatics 46(3): 410-424 (2013) - [j43]George Teodoro, Tony Pan, Tahsin M. Kurç, Jun Kong, Lee A. D. Cooper, Joel H. Saltz:
Efficient irregular wavefront propagation algorithms on hybrid CPU-GPU machines. Parallel Comput. 39(4-5): 189-211 (2013) - [c103]Andrew R. Post, Tahsin M. Kurç, Richie Willard, Himanshu Rathod, Michel Mansour, Akshatha Kalsanka Pai, William M. Torian, Sanjay Agravat, Suzanne Sturm, Joel H. Saltz:
Temporal Abstraction-based Clinical Phenotyping with Eureka! AMIA 2013 - [c102]Andrew R. Post, Tahsin M. Kurç, Richie Willard, Himanshu Rathod, Michel Mansour, Akshatha Kalsanka Pai, William M. Torian, Sanjay Agravat, Suzanne Sturm, Joel H. Saltz:
Clinical Phenotyping with the Analytic Information Warehouse. AMIA 2013 - [c101]Jun Kong, Fusheng Wang, George Teodoro, Lee Cooper, Carlos Sanchez Moreno<