Accurate pose estimation using single marker single camera calibration system. - Sarthak Pati; Okan Erat; Lejing Wang; Simon Weidert; Ekkehard Euler; Nassir Navab; Pascal Fallavollita (Image-Guided Procedures, 2013)

GLISTRboost: Combining Multimodal MRI Segmentation, Registration, and Biophysical Tumor Growth Modeling with Gradient Boosting Machines for Glioma Segmentation. - Spyridon Bakas; Ke Zeng; Aristeidis Sotiras; Saima Rathore; Hamed Akbari; Bilwaj Gaonkar; Martin Rozycki; Sarthak Pati; Christos Davatzikos (Brainles@MICCAI, 2015)

Segmentation of Gliomas in Pre-operative and Post-operative Multimodal Magnetic Resonance Imaging Volumes Based on a Hybrid Generative-Discriminative Framework. - Ke Zeng; Spyridon Bakas; Aristeidis Sotiras; Hamed Akbari; Martin Rozycki; Saima Rathore; Sarthak Pati; Christos Davatzikos (BrainLes@MICCAI, 2016)

Brain Cancer Imaging Phenomics Toolkit (brain-CaPTk): An Interactive Platform for Quantitative Analysis of Glioblastoma. - Saima Rathore; Spyridon Bakas; Sarthak Pati; Hamed Akbari; Ratheesh Kalarot; Patmaa Sridharan; Martin Rozycki; Mark Bergman; Birkan Tunç; Ragini Verma; Michel Bilello; Christos Davatzikos (BrainLes@MICCAI, 2017)

The Cancer Imaging Phenomics Toolkit (CaPTk): Technical Overview. - Sarthak Pati; Ashish Singh; Saima Rathore; Aimilia Gastounioti; Mark Bergman; Phuc Ngo; Sung Min Ha; Dimitrios Bounias; James Minock; Grayson Murphy; Hongming Li; Amit Bhattarai; et al. (BrainLes@MICCAI (2), 2019)

Skull-Stripping of Glioblastoma MRI Scans Using 3D Deep Learning. - Siddhesh P. Thakur; Jimit Doshi; Sarthak Pati; Sung Min Ha; Chiharu Sako; Sanjay N. Talbar; Uday Kulkarni; Christos Davatzikos; Güray Erus; Spyridon Bakas (BrainLes@MICCAI (1), 2019)

Accurate and Robust Alignment of Variable-stained Histologic Images Using a General-purpose Greedy Diffeomorphic Registration Tool. - Ludovic Venet; Sarthak Pati; Paul A. Yushkevich; Spyridon Bakas (CoRR, 2019)

Estimating Glioblastoma Biophysical Growth Parameters Using Deep Learning Regression. - Sarthak Pati; Vaibhav Sharma; Heena Aslam; Siddhesh P. Thakur; Hamed Akbari; Andreas Mang; Shashank Subramanian; George Biros; Christos Davatzikos; Spyridon Bakas (BrainLes@MICCAI (1), 2020)

Brain extraction on MRI scans in presence of diffuse glioma: Multi-institutional performance evaluation of deep learning methods and robust modality-agnostic training. - Siddhesh P. Thakur; Jimit Doshi; Sarthak Pati; Saima Rathore; Chiharu Sako; Michel Bilello; Sung Min Ha; Gaurav Shukla; Adam E. Flanders; Aikaterini Kotrotsou; Mikhail Milchenko; Spencer Liem; et al. (NeuroImage, 2020)

ANHIR: Automatic Non-Rigid Histological Image Registration Challenge. - Jirí Borovec; Jan Kybic; Ignacio Arganda-Carreras; Dmitry V. Sorokin; Gloria Bueno; Alexander V. Khvostikov; Spyridon Bakas; Eric I-Chao Chang; Stefan Heldmann; Kimmo Kartasalo; Leena Latonen; Johannes Lotz 002; et al. (IEEE Trans. Medical Imaging, 2020)

Optimization of Deep Learning Based Brain Extraction in MRI for Low Resource Environments. - Siddhesh P. Thakur; Sarthak Pati; Ravi Panchumarthy; Deepthi Karkada; Junwen Wu; Dmitry Kurtaev; Chiharu Sako; Prashant Shah; Spyridon Bakas (BrainLes@MICCAI (1), 2021)

Classification of Infection and Ischemia in Diabetic Foot Ulcers Using VGG Architectures. - Orhun Güley; Sarthak Pati; Spyridon Bakas (DFUC@MICCAI, 2021)

GaNDLF: A Generally Nuanced Deep Learning Framework for Scalable End-to-End Clinical Workflows in Medical Imaging. - Sarthak Pati; Siddhesh P. Thakur; Megh Bhalerao; Ujjwal Baid; Caleb M. Grenko; Brandon Edwards; Micah J. Sheller; Jose Agraz; Bhakti Baheti; Vishnu Bashyam; Parth Sharma; Babak Haghighi; et al. (CoRR, 2021)

The Federated Tumor Segmentation (FeTS) Challenge. - Sarthak Pati; Ujjwal Baid; Maximilian Zenk; Brandon Edwards; Micah J. Sheller; G. Anthony Reina; Patrick Foley; Alexey Gruzdev; Jason Martin; Shadi Albarqouni; Yong Chen 016; Russell Taki Shinohara; et al. (CoRR, 2021)

OpenFL: An open-source framework for Federated Learning. - G. Anthony Reina; Alexey Gruzdev; Patrick Foley; Olga Perepelkina; Mansi Sharma; Igor Davidyuk; Ilya Trushkin; Maksim Radionov; Aleksandr Mokrov; Dmitry Agapov; Jason Martin; Brandon Edwards; et al. (CoRR, 2021)

The RSNA-ASNR-MICCAI BraTS 2021 Benchmark on Brain Tumor Segmentation and Radiogenomic Classification. - Ujjwal Baid; Satyam Ghodasara; Michel Bilello; Suyash Mohan; Evan Calabrese; Errol Colak; Keyvan Farahani; Jayashree Kalpathy-Cramer; Felipe C. Kitamura; Sarthak Pati; Luciano M. Prevedello; Jeffrey D. Rudie; et al. (CoRR, 2021)

Leveraging 2D Deep Learning ImageNet-trained Models for Native 3D Medical Image Analysis. - Bhakti Baheti; Sarthak Pati; Bjoern H. Menze; Spyridon Bakas (BrainLes@MICCAI, 2022)

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)

Federated Learning Enables Big Data for Rare Cancer Boundary Detection. - Sarthak Pati; Ujjwal Baid; Brandon Edwards; Micah J. Sheller; Hans Shih-Han Wang; G. Anthony Reina; Patrick Foley; Alexey Gruzdev; Deepthi Karkada; Christos Davatzikos; Chiharu Sako; Satyam Ghodasara; et al. (CoRR, 2022)

MammoDL: Mammographic Breast Density Estimation using Federated Learning. - Keshava Katti; Ramya Muthukrishnan; Angelina Heyler; Sarthak Pati; Aprupa Alahari; Michael Sanborn; Emily F. Conant; Christopher G. Scott; Stacey J. Winham; Celine M. Vachon; Pratik Chaudhari; Despina Kontos; et al. (CoRR, 2022)

Why is the Winner the Best? - Matthias Eisenmann; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Fabian Isensee; Tim J. Adler; Sharib Ali; Vincent Andrearczyk; Marc Aubreville; Ujjwal Baid; Spyridon Bakas; Niranjan Balu; et al. (CVPR, 2023)

Why is the winner the best? - Matthias Eisenmann; Annika Reinke; Vivienn Weru; Minu Dietlinde Tizabi; Fabian Isensee; Tim J. Adler; Sharib Ali; Vincent Andrearczyk; Marc Aubreville; Ujjwal Baid; Spyridon Bakas; Niranjan Balu; et al. (CoRR, 2023)

GenerateCT: Text-Guided 3D Chest CT Generation. - Ibrahim Ethem Hamamci; Sezgin Er; Enis Simsar; Alperen Tezcan; Ayse Gulnihan Simsek; Furkan Almas; Sevval Nil Esirgun; Hadrien Reynaud; Sarthak Pati; Christian Bluethgen; Bjoern H. Menze (CoRR, 2023)

DENTEX: An Abnormal Tooth Detection with Dental Enumeration and Diagnosis Benchmark for Panoramic X-rays. - Ibrahim Ethem Hamamci; Sezgin Er; Enis Simsar; Atif Emre Yüksel; Sadullah Gultekin; Serife Damla Ozdemir; Kaiyuan Yang 005; Hongwei Bran Li; Sarthak Pati; Bernd Stadlinger; Albert Mehl; Mustafa Gundogar; et al. (CoRR, 2023)

Evaluation of software impact designed for biomedical research: Are we measuring what's meaningful? - Awan Afiaz; Andrey Ivanov; John Chamberlin; David Hanauer; Candace Savonen; Mary J. Goldman; Martin Morgan; Michael Reich; Alexander Getka; Aaron Holmes; Sarthak Pati; Dan Knight; et al. (CoRR, 2023)

Panoptica - instance-wise evaluation of 3D semantic and instance segmentation maps. - Florian Kofler; Hendrik Kristian Möller; Josef A. Buchner; Ezequiel de la Rosa; Ivan Ezhov; Marcel Rosier; Isra Mekki; Suprosanna Shit; Moritz Negwer; Rami Al-Maskari; Ali Ertürk; Shankeeth Vinayahalingam; et al. (CoRR, 2023)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Oscar Esteban; Quinten McNamara; Krista DeStasio; Rémi Gau; Jean-Baptiste Poline; Hans J. Johnson; et al. (Zenodo, 2023)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Oscar Esteban; Rémi Gau; Dimitri Papadopoulos Orfanos; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2023)

Federated benchmarking of medical artificial intelligence with MedPerf. - Alexandros Karargyris; Renato Umeton; Micah J. Sheller; Alejandro Aristizabal; Johnu George; Anna Wuest; Sarthak Pati; Hasan Kassem; Maximilian Zenk; Ujjwal Baid; Prakash Narayana Moorthy; Alexander Chowdhury; et al. (Nat. Mac. Intell., 2023)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Rémi Gau; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2023)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Rémi Gau; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2023)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Rémi Gau; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2023)

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)

GenerateCT: Text-Conditional Generation of 3D Chest CT Volumes. - Ibrahim Ethem Hamamci; Sezgin Er; Anjany Sekuboyina; Enis Simsar; Alperen Tezcan; Ayse Gulnihan Simsek; Sevval Nil Esirgun; Furkan Almas; Irem Dogan; Muhammed Furkan Dasdelen; Chinmay Prabhakar; Hadrien Reynaud; et al. (ECCV (79), 2024)

BraTS-Path Challenge: Assessing Heterogeneous Histopathologic Brain Tumor Sub-regions. - Spyridon Bakas; Siddhesh P. Thakur; Shahriar Faghani; Mana Moassefi; Ujjwal Baid; Verena Chung; Sarthak Pati; Shubham Innani; Bhakti Baheti; Jake Albrecht; Alexandros Karargyris; Hasan Kassem; et al. (CoRR, 2024)

Brain Tumor Segmentation (BraTS) Challenge 2024: Meningioma Radiotherapy Planning Automated Segmentation. - Dominic LaBella; Katherine Schumacher; Michael Mix; Kevin Leu; Shan McBurney-Lin; Pierre Nedelec; Javier E. Villanueva-Meyer; Jonathan Shapey; Tom Vercauteren; Kazumi Chia; Omar Al-Salihi; Justin Leu; et al. (CoRR, 2024)

BraTS-PEDs: Results of the Multi-Consortium International Pediatric Brain Tumor Segmentation Challenge 2023. - Anahita Fathi Kazerooni; Nastaran Khalili; Xinyang Liu; Debanjan Haldar; Zhifan Jiang; Anna Zapaishchykova; Julija Pavaine; Lubdha M. Shah; Blaise V. Jones; Nakul Sheth; Sanjay P. Prabhu; Aaron S. McAllister; et al. (CoRR, 2024)

GaNDLF-Synth: A Framework to Democratize Generative AI for (Bio)Medical Imaging. - Sarthak Pati; Szymon Mazurek; Spyridon Bakas (CoRR, 2024)

Privacy preservation for federated learning in health care. - Sarthak Pati; Sourav Kumar; Amokh Varma; Brandon Edwards; Charles Lu 001; Liangqiong Qu; Justin J. Wang; Anantharaman Lakshminarayanan; Shih-han Wang; Micah J. Sheller; Ken Chang; Praveer Singh; et al. (Patterns, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Rémi Gau; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Yaroslav O. Halchenko; Rémi Gau; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Rémi Gau; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Rémi Gau; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Rémi Gau; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Rémi Gau; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2024)

Optimization of deep learning models for inference in low resource environments. - Siddhesh P. Thakur; Sarthak Pati; Junwen Wu; Ravi Panchumarthy; Deepthi Karkada; Alexander Kozlov; Vasily Shamporov; Alexander Suslov; Daniil Lyakhov; Maksim Proshin; Prashant Shah; Dimitrios Makris 001; et al. (Comput. Biol. Medicine, 2025)

Adapting to evolving MRI data: A transfer learning approach for Alzheimer's disease prediction. - Rosanna Turrisi; Sarthak Pati; Giovanni Pioggia; Gennaro Tartarisco (NeuroImage, 2025)

PyBIDS: Python tools for BIDS datasets. - Tal Yarkoni; Christopher J. Markiewicz; Alejandro de la Vega; Krzysztof J. Gorgolewski; Taylor Salo; Rémi Gau; Yaroslav O. Halchenko; Dimitri Papadopoulos Orfanos; Oscar Esteban; Quinten McNamara; Krista DeStasio; Jean-Baptiste Poline; et al. (Zenodo, 2025)

Inclusive, Differentially Private Federated Learning for Clinical Data. - Santhosh Parampottupadam; Melih Cosgun; Sarthak Pati; Maximilian Zenk; Saikat Roy; Dimitrios Bounias; Benjamin Hamm; Sinem Sav; Ralf Floca; Klaus H. Maier-Hein (CoRR, 2025)

BraTS orchestrator : Democratizing and Disseminating state-of-the-art brain tumor image analysis. - Florian Kofler; Marcel Rosier; Mehdi Astaraki; Ujjwal Baid; Hendrik Kristian Möller; Josef A. Buchner; Felix Steinbauer; Eva Oswald; Ezequiel de la Rosa; Ivan Ezhov; Constantin von See; Jan Kirschke; et al. (CoRR, 2025)

BrainLesion Suite: A Flexible and User-Friendly Framework for Modular Brain Lesion Image Analysis. - Florian Kofler; Marcel Rosier; Mehdi Astaraki; Hendrik Kristian Möller; Isra Mekki; Josef A. Buchner; Anton Schmick; Arianna Pfiffer; Eva Oswald; Lucas Zimmer; Ezequiel de la Rosa; Sarthak Pati; et al. (CoRR, 2025)