Search Results for author: Holger Roth

Found 33 papers, 8 papers with code

UNetFormer: A Unified Vision Transformer Model and Pre-Training Framework for 3D Medical Image Segmentation

1 code implementation1 Apr 2022 Ali Hatamizadeh, Ziyue Xu, Dong Yang, Wenqi Li, Holger Roth, Daguang Xu

Vision Transformers (ViT)s have recently become popular due to their outstanding modeling capabilities, in particular for capturing long-range information, and scalability to dataset and model sizes which has led to state-of-the-art performance in various computer vision and medical image analysis tasks.

Brain Tumor Segmentation Representation Learning +1

GradViT: Gradient Inversion of Vision Transformers

no code implementations CVPR 2022 Ali Hatamizadeh, Hongxu Yin, Holger Roth, Wenqi Li, Jan Kautz, Daguang Xu, Pavlo Molchanov

In this work we demonstrate the vulnerability of vision transformers (ViTs) to gradient-based inversion attacks.

Closing the Generalization Gap of Cross-silo Federated Medical Image Segmentation

no code implementations CVPR 2022 An Xu, Wenqi Li, Pengfei Guo, Dong Yang, Holger Roth, Ali Hatamizadeh, Can Zhao, Daguang Xu, Heng Huang, Ziyue Xu

In this work, we propose a novel training framework FedSM to avoid the client drift issue and successfully close the generalization gap compared with the centralized training for medical image segmentation tasks for the first time.

Federated Learning Medical Image Segmentation +1

Swin UNETR: Swin Transformers for Semantic Segmentation of Brain Tumors in MRI Images

1 code implementation4 Jan 2022 Ali Hatamizadeh, Vishwesh Nath, Yucheng Tang, Dong Yang, Holger Roth, Daguang Xu

Semantic segmentation of brain tumors is a fundamental medical image analysis task involving multiple MRI imaging modalities that can assist clinicians in diagnosing the patient and successively studying the progression of the malignant entity.

3D Semantic Segmentation Brain Tumor Segmentation +1

The Power of Proxy Data and Proxy Networks for Hyper-Parameter Optimization in Medical Image Segmentation

no code implementations12 Jul 2021 Vishwesh Nath, Dong Yang, Ali Hatamizadeh, Anas A. Abidin, Andriy Myronenko, Holger Roth, Daguang Xu

First, we show higher correlation to using full data for training when testing on the external validation set using smaller proxy data than a random selection of the proxy data.

AutoML Medical Image Segmentation +1

Auto-FedAvg: Learnable Federated Averaging for Multi-Institutional Medical Image Segmentation

no code implementations20 Apr 2021 Yingda Xia, Dong Yang, Wenqi Li, Andriy Myronenko, Daguang Xu, Hirofumi Obinata, Hitoshi Mori, Peng An, Stephanie Harmon, Evrim Turkbey, Baris Turkbey, Bradford Wood, Francesca Patella, Elvira Stellato, Gianpaolo Carrafiello, Anna Ierardi, Alan Yuille, Holger Roth

In this work, we design a new data-driven approach, namely Auto-FedAvg, where aggregation weights are dynamically adjusted, depending on data distributions across data silos and the current training progress of the models.

Federated Learning Lesion Segmentation +2

DiNTS: Differentiable Neural Network Topology Search for 3D Medical Image Segmentation

1 code implementation CVPR 2021 Yufan He, Dong Yang, Holger Roth, Can Zhao, Daguang Xu

In this work, we focus on three important aspects of NAS in 3D medical image segmentation: flexible multi-path network topology, high search efficiency, and budgeted GPU memory usage.

Medical Image Segmentation Neural Architecture Search +1

UNETR: Transformers for 3D Medical Image Segmentation

7 code implementations18 Mar 2021 Ali Hatamizadeh, Yucheng Tang, Vishwesh Nath, Dong Yang, Andriy Myronenko, Bennett Landman, Holger Roth, Daguang Xu

Inspired by the recent success of transformers for Natural Language Processing (NLP) in long-range sequence learning, we reformulate the task of volumetric (3D) medical image segmentation as a sequence-to-sequence prediction problem.

3D Medical Imaging Segmentation Natural Language Processing +1

Democratizing Artificial Intelligence in Healthcare: A Study of Model Development Across Two Institutions Incorporating Transfer Learning

no code implementations25 Sep 2020 Vikash Gupta1, Holger Roth, Varun Buch3, Marcio A. B. C. Rockenbach, Richard D. White, Dong Yang, Olga Laur, Brian Ghoshhajra, Ittai Dayan, Daguang Xu, Mona G. Flores, Barbaros Selnur Erdal

The training of deep learning models typically requires extensive data, which are not readily available as large well-curated medical-image datasets for development of artificial intelligence (AI) models applied in Radiology.

Transfer Learning

Learning Image Labels On-the-fly for Training Robust Classification Models

no code implementations22 Sep 2020 Xiaosong Wang, Ziyue Xu, Dong Yang, Leo Tam, Holger Roth, Daguang Xu

We apply the attention-on-label scheme on the classification task of a synthetic noisy CIFAR-10 dataset to prove the concept, and then demonstrate superior results (3-5% increase on average in multiple disease classification AUCs) on the chest x-ray images from a hospital-scale dataset (MIMIC-CXR) and hand-labeled dataset (OpenI) in comparison to regular training paradigms.

General Classification Robust classification

Uncertainty-aware multi-view co-training for semi-supervised medical image segmentation and domain adaptation

no code implementations28 Jun 2020 Yingda Xia, Dong Yang, Zhiding Yu, Fengze Liu, Jinzheng Cai, Lequan Yu, Zhuotun Zhu, Daguang Xu, Alan Yuille, Holger Roth

Experiments on the NIH pancreas segmentation dataset and a multi-organ segmentation dataset show state-of-the-art performance of the proposed framework on semi-supervised medical image segmentation.

Pancreas Segmentation Semantic Segmentation +3

LAMP: Large Deep Nets with Automated Model Parallelism for Image Segmentation

1 code implementation22 Jun 2020 Wentao Zhu, Can Zhao, Wenqi Li, Holger Roth, Ziyue Xu, Daguang Xu

In this work, we introduce Large deep 3D ConvNets with Automated Model Parallelism (LAMP) and investigate the impact of both input's and deep 3D ConvNets' size on segmentation accuracy.

Semantic Segmentation

Searching Learning Strategy with Reinforcement Learning for 3D Medical Image Segmentation

no code implementations10 Jun 2020 Dong Yang, Holger Roth, Ziyue Xu, Fausto Milletari, Ling Zhang, Daguang Xu

For example, fully convolutional neural networks (FCN) achieve the state-of-the-art performance in several applications of 2D/3D medical image segmentation.

Data Augmentation Medical Image Segmentation +2

Enhancing Foreground Boundaries for Medical Image Segmentation

no code implementations MIDL 2019 Dong Yang, Holger Roth, Xiaosong Wang, Ziyue Xu, Andriy Myronenko, Daguang Xu

Object segmentation plays an important role in the modern medical image analysis, which benefits clinical study, disease diagnosis, and surgery planning.

Medical Image Segmentation Semantic Segmentation

The Future of Digital Health with Federated Learning

no code implementations18 Mar 2020 Nicola Rieke, Jonny Hancox, Wenqi Li, Fausto Milletari, Holger Roth, Shadi Albarqouni, Spyridon Bakas, Mathieu N. Galtier, Bennett Landman, Klaus Maier-Hein, Sebastien Ourselin, Micah Sheller, Ronald M. Summers, Andrew Trask, Daguang Xu, Maximilian Baust, M. Jorge Cardoso

Data-driven Machine Learning has emerged as a promising approach for building accurate and robust statistical models from medical data, which is collected in huge volumes by modern healthcare systems.

Federated Learning

Training Models 20X Faster in Medical Image Analysis

no code implementations MIDL 2019 Dong Yang, Holger Roth, Xiaosong Wang, Ziyue Xu, Yan Cheng, Daguang Xu

Analyzing high-dimensional medical images (2D/3D/4D CT, MRI, histopathological images, etc.)

Correlation via Synthesis: End-to-end Image Generation and Radiogenomic Learning Based on Generative Adversarial Network

no code implementations MIDL 2019 Ziyue Xu, Xiaosong Wang, Hoo-chang Shin, Dong Yang, Holger Roth, Fausto Milletari, Ling Zhang, Daguang Xu

In this work, we investigate the potential of an end-to-end method fusing gene code with image features to generate synthetic pathology image and learn radiogenomic map simultaneously.

Image Generation

C2FNAS: Coarse-to-Fine Neural Architecture Search for 3D Medical Image Segmentation

no code implementations CVPR 2020 Qihang Yu, Dong Yang, Holger Roth, Yutong Bai, Yixiao Zhang, Alan L. Yuille, Daguang Xu

3D convolution neural networks (CNN) have been proved very successful in parsing organs or tumours in 3D medical images, but it remains sophisticated and time-consuming to choose or design proper 3D networks given different task contexts.

Medical Image Segmentation Neural Architecture Search +1

End-to-End Adversarial Shape Learning for Abdomen Organ Deep Segmentation

no code implementations15 Oct 2019 Jinzheng Cai, Yingda Xia, Dong Yang, Daguang Xu, Lin Yang, Holger Roth

However, it is challenging to train the conventional CNN-based segmentation models that aware of the shape and topology of organs.

Pancreas Segmentation

NeurReg: Neural Registration and Its Application to Image Segmentation

1 code implementation4 Oct 2019 Wentao Zhu, Andriy Myronenko, Ziyue Xu, Wenqi Li, Holger Roth, Yufang Huang, Fausto Milletari, Daguang Xu

Furthermore, we design three segmentation frameworks based on the proposed registration framework: 1) atlas-based segmentation, 2) joint learning of both segmentation and registration tasks, and 3) multi-task learning with atlas-based segmentation as an intermediate feature.

Image Registration Multi-Task Learning +1

Weakly supervised segmentation from extreme points

no code implementations2 Oct 2019 Holger Roth, Ling Zhang, Dong Yang, Fausto Milletari, Ziyue Xu, Xiaosong Wang, Daguang Xu

Here, we propose to use minimal user interaction in the form of extreme point clicks in order to train a segmentation model that can, in turn, be used to speed up the annotation of medical images.

Weakly supervised segmentation

Cardiac Segmentation of LGE MRI with Noisy Labels

no code implementations2 Oct 2019 Holger Roth, Wentao Zhu, Dong Yang, Ziyue Xu, Daguang Xu

In the first step, we register a small set of five LGE cardiac magnetic resonance (CMR) images with ground truth labels to a set of 40 target LGE CMR images without annotation.

Cardiac Segmentation Data Augmentation +1

Correlation via synthesis: end-to-end nodule image generation and radiogenomic map learning based on generative adversarial network

no code implementations8 Jul 2019 Ziyue Xu, Xiaosong Wang, Hoo-chang Shin, Dong Yang, Holger Roth, Fausto Milletari, Ling Zhang, Daguang Xu

Radiogenomic map linking image features and gene expression profiles is useful for noninvasively identifying molecular properties of a particular type of disease.

Image Generation

4D CNN for semantic segmentation of cardiac volumetric sequences

no code implementations17 Jun 2019 Andriy Myronenko, Dong Yang, Varun Buch, Daguang Xu, Alvin Ihsani, Sean Doyle, Mark Michalski, Neil Tenenholtz, Holger Roth

We propose a 4D convolutional neural network (CNN) for the segmentation of retrospective ECG-gated cardiac CT, a series of single-channel volumetric data over time.

Semantic Segmentation

Interactive segmentation of medical images through fully convolutional neural networks

no code implementations19 Mar 2019 Tomas Sakinis, Fausto Milletari, Holger Roth, Panagiotis Korfiatis, Petro Kostandy, Kenneth Philbrick, Zeynettin Akkus, Ziyue Xu, Daguang Xu, Bradley J. Erickson

Semi-automated approaches keep users in control of the results by providing means for interaction, but the main challenge is to offer a good trade-off between precision and required interaction.

Computed Tomography (CT) Interactive Segmentation +1

3D Semi-Supervised Learning with Uncertainty-Aware Multi-View Co-Training

no code implementations29 Nov 2018 Yingda Xia, Fengze Liu, Dong Yang, Jinzheng Cai, Lequan Yu, Zhuotun Zhu, Daguang Xu, Alan Yuille, Holger Roth

Meanwhile, a fully-supervised method based on our approach achieved state-of-the-art performances on both the LiTS liver tumor segmentation and the Medical Segmentation Decathlon (MSD) challenge, demonstrating the robustness and value of our framework, even when fully supervised training is feasible.

Medical Image Segmentation Tumor Segmentation

Towards dense volumetric pancreas segmentation in CT using 3D fully convolutional networks

no code implementations17 Nov 2017 Holger Roth, Masahiro Oda, Natsuki Shimizu, Hirohisa ODA, Yuichiro Hayashi, Takayuki Kitasaka, Michitaka Fujiwara, Kazunari Misawa, Kensaku MORI

Pancreas segmentation in computed tomography imaging has been historically difficult for automated methods because of the large shape and size variations between patients.

Pancreas Segmentation

2D View Aggregation for Lymph Node Detection Using a Shallow Hierarchy of Linear Classifiers

no code implementations14 Aug 2014 Ari Seff, Le Lu, Kevin M. Cherry, Holger Roth, Jiamin Liu, Shijun Wang, Joanne Hoffman, Evrim B. Turkbey, Ronald M. Summers

In this paper, we propose a new algorithm representation of decomposing the LN detection problem into a set of 2D object detection subtasks on sampled CT slices, largely alleviating the curse of dimensionality issue.

2D object detection object-detection +1

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