Search Results for author: Elsa Angelini

Found 13 papers, 2 papers with code

Push the Boundary of SAM: A Pseudo-label Correction Framework for Medical Segmentation

no code implementations2 Aug 2023 Ziyi Huang, Hongshan Liu, Haofeng Zhang, Xueshen Li, Haozhe Liu, Fuyong Xing, Andrew Laine, Elsa Angelini, Christine Hendon, Yu Gan

One key advantage of our model is its ability to train deep networks using SAM-generated pseudo labels without relying on a set of expert-level annotations while attaining good segmentation performance.

Image Segmentation Medical Image Segmentation +4

MAPSeg: Unified Unsupervised Domain Adaptation for Heterogeneous Medical Image Segmentation Based on 3D Masked Autoencoding and Pseudo-Labeling

no code implementations16 Mar 2023 Xuzhe Zhang, Yuhao Wu, Elsa Angelini, Ang Li, Jia Guo, Jerod M. Rasmussen, Thomas G. O'Connor, Pathik D. Wadhwa, Andrea Parolin Jackowski, Hai Li, Jonathan Posner, Andrew F. Laine, Yun Wang

In this study, we introduce Masked Autoencoding and Pseudo-Labeling Segmentation (MAPSeg), a $\textbf{unified}$ UDA framework with great versatility and superior performance for heterogeneous and volumetric medical image segmentation.

Domain Generalization Image Segmentation +5

Cardiac Adipose Tissue Segmentation via Image-Level Annotations

no code implementations9 Jun 2022 Ziyi Huang, Yu Gan, Theresa Lye, Yanchen Liu, Haofeng Zhang, Andrew Laine, Elsa Angelini, Christine Hendon

To lessen the need for pixel-wise labeling, we develop a two-stage deep learning framework for cardiac adipose tissue segmentation using image-level annotations on OCT images of human cardiac substrates.

Segmentation Weakly-supervised Learning

Suggestive Annotation of Brain MR Images with Gradient-guided Sampling

no code implementations2 Jun 2022 Chengliang Dai, Shuo Wang, Yuanhan Mo, Elsa Angelini, Yike Guo, Wenjia Bai

We evaluate the framework on two different brain image analysis tasks, namely brain tumour segmentation and whole brain segmentation.

Brain Segmentation Image Segmentation +2

QU-BraTS: MICCAI BraTS 2020 Challenge on Quantifying Uncertainty in Brain Tumor Segmentation - Analysis of Ranking Scores and Benchmarking Results

1 code implementation19 Dec 2021 Raghav Mehta, Angelos Filos, Ujjwal Baid, Chiharu Sako, Richard McKinley, Michael Rebsamen, Katrin Datwyler, Raphael Meier, Piotr Radojewski, Gowtham Krishnan Murugesan, Sahil Nalawade, Chandan Ganesh, Ben Wagner, Fang F. Yu, Baowei Fei, Ananth J. Madhuranthakam, Joseph A. Maldjian, Laura Daza, Catalina Gomez, Pablo Arbelaez, Chengliang Dai, Shuo Wang, Hadrien Reynaud, Yuan-han Mo, Elsa Angelini, Yike Guo, Wenjia Bai, Subhashis Banerjee, Lin-min Pei, Murat AK, Sarahi Rosas-Gonzalez, Ilyess Zemmoura, Clovis Tauber, Minh H. Vu, Tufve Nyholm, Tommy Lofstedt, Laura Mora Ballestar, Veronica Vilaplana, Hugh McHugh, Gonzalo Maso Talou, Alan Wang, Jay Patel, Ken Chang, Katharina Hoebel, Mishka Gidwani, Nishanth Arun, Sharut Gupta, Mehak Aggarwal, Praveer Singh, Elizabeth R. Gerstner, Jayashree Kalpathy-Cramer, Nicolas Boutry, Alexis Huard, Lasitha Vidyaratne, Md Monibor Rahman, Khan M. Iftekharuddin, Joseph Chazalon, Elodie Puybareau, Guillaume Tochon, Jun Ma, Mariano Cabezas, Xavier Llado, Arnau Oliver, Liliana Valencia, Sergi Valverde, Mehdi Amian, Mohammadreza Soltaninejad, Andriy Myronenko, Ali Hatamizadeh, Xue Feng, Quan Dou, Nicholas Tustison, Craig Meyer, Nisarg A. Shah, Sanjay Talbar, Marc-Andre Weber, Abhishek Mahajan, Andras Jakab, Roland Wiest, Hassan M. Fathallah-Shaykh, Arash Nazeri, Mikhail Milchenko1, Daniel Marcus, Aikaterini Kotrotsou, Rivka Colen, John Freymann, Justin Kirby, Christos Davatzikos, Bjoern Menze, Spyridon Bakas, Yarin Gal, Tal Arbel

In this study, we explore and evaluate a score developed during the BraTS 2019 and BraTS 2020 task on uncertainty quantification (QU-BraTS) and designed to assess and rank uncertainty estimates for brain tumor multi-compartment segmentation.

Benchmarking Brain Tumor Segmentation +5

Recursive Refinement Network for Deformable Lung Registration between Exhale and Inhale CT Scans

1 code implementation14 Jun 2021 Xinzi He, Jia Guo, Xuzhe Zhang, Hanwen Bi, Sarah Gerard, David Kaczka, Amin Motahari, Eric Hoffman, Joseph Reinhardt, R. Graham Barr, Elsa Angelini, Andrew Laine

We introduce a recursive refinement network (RRN) for unsupervised medical image registration, to extract multi-scale features, construct normalized local cost correlation volume and recursively refine volumetric deformation vector fields.

Image Registration Medical Image Registration

Suggestive Annotation of Brain Tumour Images with Gradient-guided Sampling

no code implementations26 Jun 2020 Chengliang Dai, Shuo Wang, Yuanhan Mo, Kaichen Zhou, Elsa Angelini, Yike Guo, Wenjia Bai

Machine learning has been widely adopted for medical image analysis in recent years given its promising performance in image segmentation and classification tasks.

BIG-bench Machine Learning Image Segmentation +2

Simultaneous Left Atrium Anatomy and Scar Segmentations via Deep Learning in Multiview Information with Attention

no code implementations2 Feb 2020 Guang Yang, Jun Chen, Zhifan Gao, Shuo Li, Hao Ni, Elsa Angelini, Tom Wong, Raad Mohiaddin, Eva Nyktari, Ricardo Wage, Lei Xu, Yanping Zhang, Xiuquan Du, Heye Zhang, David Firmin, Jennifer Keegan

Using our MVTT recursive attention model, both the LA anatomy and scar can be segmented accurately (mean Dice score of 93% for the LA anatomy and 87% for the scar segmentations) and efficiently (~0. 27 seconds to simultaneously segment the LA anatomy and scars directly from the 3D LGE CMR dataset with 60-68 2D slices).

Anatomy Segmentation

Multiview Two-Task Recursive Attention Model for Left Atrium and Atrial Scars Segmentation

no code implementations12 Jun 2018 Jun Chen, Guang Yang, Zhifan Gao, Hao Ni, Elsa Angelini, Raad Mohiaddin, Tom Wong, Yanping Zhang, Xiuquan Du, Heye Zhang, Jennifer Keegan, David Firmin

Late Gadolinium Enhanced Cardiac MRI (LGE-CMRI) for detecting atrial scars in atrial fibrillation (AF) patients has recently emerged as a promising technique to stratify patients, guide ablation therapy and predict treatment success.

Anatomy Segmentation

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