Localization and Tracking in 4D Fluorescence Microscopy Imagery. - Shahira Abousamra; Shai Adar; Natalie Elia; Roy Shilkrot (CVPR Workshops, 2018)

Exascale Deep Learning to Accelerate Cancer Research. - Robert M. Patton; Shahira Abousamra; Dimitris Samaras; Joel H. Saltz; J. Travis Johnston; Steven R. Young; Catherine D. Schuman; Thomas E. Potok; Derek C. Rose; Seung-Hwan Lim; Junghoon Chae; Le Hou (IEEE BigData, 2019)

From Whole Slide Tissues to Knowledge: Mapping Sub-cellular Morphology of Cancer. - Tahsin M. Kurç; Ashish Sharma 001; Rajarsi Gupta 001; Le Hou; Han Le; Shahira Abousamra; Erich Bremer; Ryan Birmingham; Tammy Diprima; Nan Li; Feiqiao Wang; Joseph Balsamo; et al. (BrainLes@MICCAI (2), 2019)

Label Super Resolution with Inter-Instance Loss. - 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 (CoRR, 2019)

Utilizing Automated Breast Cancer Detection to Identify Spatial Distributions of Tumor Infiltrating Lymphocytes in Invasive Breast Cancer. - 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 001; Erich Bremer; et al. (CoRR, 2019)

Learning from Thresholds: Fully Automated Classification of Tumor Infiltrating Lymphocytes for Multiple Cancer Types. - Shahira Abousamra; Le Hou; Rajarsi R. Gupta; Chao Chen 012; Dimitris Samaras; Tahsin M. Kurç; Rebecca Batiste; Tianhao Zhao; Kenneth Shroyer; Joel H. Saltz (CoRR, 2019)

Weakly-Supervised Deep Stain Decomposition for Multiplex IHC Images. - Shahira Abousamra; Danielle Fassler; Le Hou; Yuwei Zhang; Rajarsi Gupta 001; Tahsin M. Kurç; Luisa F. Escobar-Hoyos; Dimitris Samaras; Beatrice Knudson; Kenneth Shroyer; Joel H. Saltz; Chao Chen 012 (ISBI, 2020)

Localization in the Crowd with Topological Constraints. - Shahira Abousamra; Minh Hoai; Dimitris Samaras; Chao Chen 012 (AAAI, 2021)

Multi-Class Cell Detection Using Spatial Context Representation. - Shahira Abousamra; David Belinsky; John S. Van Arnam; Felicia Allard; Eric Yee; Rajarsi Gupta 001; Tahsin M. Kurç; Dimitris Samaras; Joel H. Saltz; Chao Chen 012 (ICCV, 2021)

Federated Learning for the Classification of Tumor Infiltrating Lymphocytes. - Ujjwal Baid; Sarthak Pati; Tahsin M. Kurç; Rajarsi Gupta 001; Erich Bremer; Shahira Abousamra; Siddhesh P. Thakur; Joel H. Saltz; Spyridon Bakas (CoRR, 2022)

A Novel Framework for Characterization of Tumor-Immune Spatial Relationships in Tumor Microenvironment. - Mahmudul Hasan 006; Jakub R. Kaczmarzyk; David Paredes; Lyanne Oblein; Jaymie Oentoro; Shahira Abousamra; Michael Horowitz; Dimitris Samaras; Chao Chen 012; Tahsin M. Kurç; Kenneth R. Shroyer; Joel H. Saltz (CoRR, 2022)

Evaluating histopathology transfer learning with ChampKit. - Jakub R. Kaczmarzyk; Tahsin M. Kurç; Shahira Abousamra; Rajarsi Gupta 001; Joel H. Saltz; Peter K. Koo (CoRR, 2022)

Topology-Guided Multi-Class Cell Context Generation for Digital Pathology. - Shahira Abousamra; Rajarsi Gupta 001; Tahsin M. Kurç; Dimitris Samaras; Joel H. Saltz; Chao Chen 012 (CVPR, 2023)

Calibrating Uncertainty for Semi-Supervised Crowd Counting. - Chen Li 045; Xiaoling Hu 002; Shahira Abousamra; Chao Chen 012 (ICCV, 2023)

Unsupervised Stain Decomposition via Inversion Regulation for Multiplex Immunohistochemistry Images. - 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 012 (MIDL, 2023)

TopoSemiSeg: Enforcing Topological Consistency for Semi-Supervised Segmentation of Histopathology Images. - Meilong Xu; Xiaoling Hu 002; Saumya Gupta; Shahira Abousamra; Chao Chen 012 (CoRR, 2023)

ChampKit: A framework for rapid evaluation of deep neural networks for patch-based histopathology classification. - Jakub R. Kaczmarzyk; Rajarsi Gupta 001; Tahsin M. Kurç; Shahira Abousamra; Joel H. Saltz; Peter K. Koo (Comput. Methods Programs Biomed., 2023)

New Spatial Phenotypes from Imaging Uncover Survival Differences for Breast Cancer Patients. - Mahmudul Hasan 006; Ariadna Kim Silva; Shahira Abousamra; Shao-Jun Tang; Prateek Prasanna; Joel H. Saltz; Kevin Gardner; Chao Chen 012; Alisa Yurovsky (BCB, 2024)

Pan-Cancer Tumor Infiltrating Lymphocyte Detection based on Federated Learning. - Ujjwal Baid; Sarthak Pati; Tahsin M. Kurç; Rajarsi Gupta 001; Erich Bremer; Shahira Abousamra; Siddhesh P. Thakur; Joel H. Saltz; Spyridon Bakas (IEEE Big Data, 2024)

Uncertainty Estimation for Tumor Prediction with Unlabeled Data. - Juyoung Yun; Shahira Abousamra; Chen Li 045; Rajarsi Gupta 001; Tahsin M. Kurç; Dimitris Samaras; Alison L. Van Dyke; Joel H. Saltz; Chao Chen 012 (CVPR Workshops, 2024)

Semi-supervised Segmentation of Histopathology Images with Noise-Aware Topological Consistency. - Meilong Xu; Xiaoling Hu 002; Saumya Gupta; Shahira Abousamra; Chao Chen 012 (ECCV (78), 2024)

Semi-supervised Contrastive VAE for Disentanglement of Digital Pathology Images. - Mahmudul Hasan 006; Xiaoling Hu 002; Shahira Abousamra; Prateek Prasanna; Joel H. Saltz; Chao Chen 012 (MICCAI (4), 2024)

Hard Negative Sample Mining for Whole Slide Image Classification. - Wentao Huang; Xiaoling Hu 002; Shahira Abousamra; Prateek Prasanna; Chao Chen 012 (MICCAI (4), 2024)

Spatial Diffusion for Cell Layout Generation. - Chen Li 045; Xiaoling Hu 002; Shahira Abousamra; Meilong Xu; Chao Chen 012 (MICCAI (4), 2024)

RankByGene: Gene-Guided Histopathology Representation Learning Through Cross-Modal Ranking Consistency. - Wentao Huang; Meilong Xu; Xiaoling Hu 002; Shahira Abousamra; Aniruddha Ganguly; Saarthak Kapse; Alisa Yurovsky; Prateek Prasanna; Tahsin M. Kurç; Joel H. Saltz; Michael L. Miller; Chao Chen 012 (CoRR, 2024)

TopoCellGen: Generating Histopathology Cell Topology with a Diffusion Model. - Meilong Xu; Saumya Gupta; Xiaoling Hu 002; Chen Li 045; Shahira Abousamra; Dimitris Samaras; Prateek Prasanna; Chao Chen 012 (CVPR, 2025)