1 code implementation • 7 Apr 2023 • Erich Bremer, Tammy DiPrima, Joseph Balsamo, Jonas Almeida, Rajarsi Gupta, Joel Saltz
Halcyon is a new pathology imaging analysis and feature management system based on W3C linked-data open standards and is designed to scale to support the needs for the voluminous production of features from deep-learning feature pipelines.
no code implementations • CVPR 2023 • Shahira Abousamra, Rajarsi Gupta, Tahsin Kurc, Dimitris Samaras, Joel Saltz, Chao Chen
In digital pathology, the spatial context of cells is important for cell classification, cancer diagnosis and prognosis.
no code implementations • 3 Apr 2023 • Xuan Xu, Saarthak Kapse, Rajarsi Gupta, Prateek Prasanna
This marks the first time that ViT has been introduced to diffusion autoencoders in computational pathology, allowing the model to better capture the complex and intricate details of histopathology images.
1 code implementation • 17 Jul 2022 • Jingwei Zhang, Xin Zhang, Ke Ma, Rajarsi Gupta, Joel Saltz, Maria Vakalopoulou, Dimitris Samaras
Histopathology whole slide images (WSIs) play a very important role in clinical studies and serve as the gold standard for many cancer diagnoses.
no code implementations • 15 Jun 2022 • Rajarsi Gupta, Jakub Kaczmarzyk, Soma Kobayashi, Tahsin Kurc, Joel Saltz
The combination of data analysis methods, increasing computing capacity, and improved sensors enable quantitative granular, multi-scale, cell-based analyses.
1 code implementation • 14 Jun 2022 • Jakub R. Kaczmarzyk, Tahsin M. Kurc, Shahira Abousamra, Rajarsi Gupta, Joel H. Saltz, Peter K. Koo
Histopathology remains the gold standard for diagnosis of various cancers.
no code implementations • 30 Mar 2022 • Ujjwal Baid, Sarthak Pati, Tahsin M. Kurc, Rajarsi Gupta, Erich Bremer, Shahira Abousamra, Siddhesh P. Thakur, Joel H. Saltz, Spyridon Bakas
We evaluate the performance of federated learning (FL) in developing deep learning models for analysis of digitized tissue sections.
no code implementations • 17 Feb 2022 • Souradeep Chakraborty, Ke Ma, Rajarsi Gupta, Beatrice Knudsen, Gregory J. Zelinsky, Joel H. Saltz, Dimitris Samaras
To quantify the relationship between a pathologist's attention and evidence for cancer in the WSI, we obtained tumor annotations from a genitourinary specialist.
1 code implementation • ICCV 2021 • Shahira Abousamra, David Belinsky, John Van Arnam, Felicia Allard, Eric Yee, Rajarsi Gupta, Tahsin Kurc, Dimitris Samaras, Joel Saltz, Chao Chen
In digital pathology, both detection and classification of cells are important for automatic diagnostic and prognostic tasks.
no code implementations • CVPR 2021 • Jingwei Zhang, Ke Ma, John Van Arnam, Rajarsi Gupta, Joel Saltz, Maria Vakalopoulou, Dimitris Samaras
To tackle these problems, we propose a novel spatial and magnification based attention sampling strategy.
1 code implementation • 18 Feb 2020 • Le Hou, Rajarsi Gupta, John S. Van Arnam, Yuwei Zhang, Kaustubh Sivalenka, Dimitris Samaras, Tahsin M. Kurc, Joel H. Saltz
To address this, we developed an analysis pipeline that segments nuclei in whole slide tissue images from multiple cancer types with a quality control process.
no code implementations • 9 Jul 2019 • Shahira Abousamra, Le Hou, Rajarsi Gupta, Chao Chen, Dimitris Samaras, Tahsin Kurc, Rebecca Batiste, Tianhao Zhao, Shroyer Kenneth, Joel Saltz
This allows for a much larger training set, that reflects visual variability across multiple cancer types and thus training of a single network which can be automatically applied to each cancer type without human adjustment.
1 code implementation • 26 May 2019 • Han Le, Rajarsi Gupta, Le Hou, Shahira Abousamra, Danielle Fassler, Tahsin Kurc, Dimitris Samaras, Rebecca Batiste, Tianhao Zhao, Arvind Rao, Alison L. Van Dyke, ASHISH SHARMA, Erich Bremer, Jonas S. Almeida, Joel Saltz
Quantitative assessment of Tumor-TIL spatial relationships is increasingly important in both basic science and clinical aspects of breast cancer research.
no code implementations • 9 Apr 2019 • Maozheng Zhao, Le Hou, Han Le, Dimitris Samaras, Nebojsa Jojic, Danielle Fassler, Tahsin Kurc, Rajarsi Gupta, Kolya Malkin, Shroyer Kenneth, Joel Saltz
On the other hand, collecting low resolution labels (labels for a block of pixels) for these high resolution images is much more cost efficient.
no code implementations • 28 Nov 2018 • Sina Rashidian, Janos Hajagos, Richard Moffitt, Fusheng Wang, Xinyu Dong, Kayley Abell-Hart, Kimberly Noel, Rajarsi Gupta, Mathew Tharakan, Veena Lingam, Joel Saltz, Mary Saltz
Characterization of a patient clinical phenotype is central to biomedical informatics.
no code implementations • 31 Oct 2018 • Quoc Dang Vu, Simon Graham, Minh Nguyen Nhat To, Muhammad Shaban, Talha Qaiser, Navid Alemi Koohbanani, Syed Ali Khurram, Tahsin Kurc, Keyvan Farahani, Tianhao Zhao, Rajarsi Gupta, Jin Tae Kwak, Nasir Rajpoot, Joel Saltz
Segmentation of nuclei and classification of tissue images are two common tasks in tissue image analysis.