Search Results for author: Koen van Leemput

Found 24 papers, 12 papers with code

A Lightweight Causal Model for Interpretable Subject-level Prediction

1 code implementation19 Jun 2023 Chiara Mauri, Stefano Cerri, Oula Puonti, Mark Mühlau, Koen van Leemput

Recent years have seen a growing interest in methods for predicting a variable of interest, such as a subject's diagnosis, from medical images.

The Brain Tumor Segmentation (BraTS-METS) Challenge 2023: Brain Metastasis Segmentation on Pre-treatment MRI

no code implementations1 Jun 2023 Ahmed W. Moawad, Anastasia Janas, Ujjwal Baid, Divya Ramakrishnan, Leon Jekel, Kiril Krantchev, Harrison Moy, Rachit Saluja, Klara Osenberg, Klara Wilms, Manpreet Kaur, Arman Avesta, Gabriel Cassinelli Pedersen, Nazanin Maleki, Mahdi Salimi, Sarah Merkaj, Marc von Reppert, Niklas Tillmans, Jan Lost, Khaled Bousabarah, Wolfgang Holler, MingDe Lin, Malte Westerhoff, Ryan Maresca, Katherine E. Link, Nourel Hoda Tahon, Daniel Marcus, Aristeidis Sotiras, Pamela Lamontagne, Strajit Chakrabarty, Oleg Teytelboym, Ayda Youssef, Ayaman Nada, Yuri S. Velichko, Nicolo Gennaro, Connectome Students, Group of Annotators, Justin Cramer, Derek R. Johnson, Benjamin Y. M. Kwan, Boyan Petrovic, Satya N. Patro, Lei Wu, Tiffany So, Gerry Thompson, Anthony Kam, Gloria Guzman Perez-Carrillo, Neil Lall, Group of Approvers, Jake Albrecht, Udunna Anazodo, Marius George Lingaru, Bjoern H Menze, Benedikt Wiestler, Maruf Adewole, Syed Muhammad Anwar, Dominic LaBella, Hongwei Bran Li, Juan Eugenio Iglesias, Keyvan Farahani, James Eddy, Timothy Bergquist, Verena Chung, Russel Takeshi Shinohara, Farouk Dako, Walter Wiggins, Zachary Reitman, Chunhao Wang, Xinyang Liu, Zhifan Jiang, Koen van Leemput, Marie Piraud, Ivan Ezhov, Elaine Johanson, Zeke Meier, Ariana Familiar, Anahita Fathi Kazerooni, Florian Kofler, Evan Calabrese, Sanjay Aneja, Veronica Chiang, Ichiro Ikuta, Umber Shafique, Fatima Memon, Gian Marco Conte, Spyridon Bakas, Jeffrey Rudie, Mariam Aboian

Clinical monitoring of metastatic disease to the brain can be a laborious and time-consuming process, especially in cases involving multiple metastases when the assessment is performed manually.

Brain Tumor Segmentation Decision Making +2

The Brain Tumor Segmentation (BraTS) Challenge 2023: Focus on Pediatrics (CBTN-CONNECT-DIPGR-ASNR-MICCAI BraTS-PEDs)

no code implementations26 May 2023 Anahita Fathi Kazerooni, Nastaran Khalili, Xinyang Liu, Debanjan Haldar, Zhifan Jiang, Syed Muhammed Anwar, Jake Albrecht, Maruf Adewole, Udunna Anazodo, Hannah Anderson, Sina Bagheri, Ujjwal Baid, Timothy Bergquist, Austin J. Borja, Evan Calabrese, Verena Chung, Gian-Marco Conte, Farouk Dako, James Eddy, Ivan Ezhov, Ariana Familiar, Keyvan Farahani, Shuvanjan Haldar, Juan Eugenio Iglesias, Anastasia Janas, Elaine Johansen, Blaise V Jones, Florian Kofler, Dominic LaBella, Hollie Anne Lai, Koen van Leemput, Hongwei Bran Li, Nazanin Maleki, Aaron S McAllister, Zeke Meier, Bjoern Menze, Ahmed W Moawad, Khanak K Nandolia, Julija Pavaine, Marie Piraud, Tina Poussaint, Sanjay P Prabhu, Zachary Reitman, Andres Rodriguez, Jeffrey D Rudie, Mariana Sanchez-Montano, Ibraheem Salman Shaikh, Lubdha M. Shah, Nakul Sheth, Russel Taki Shinohara, Wenxin Tu, Karthik Viswanathan, Chunhao Wang, Jeffrey B Ware, Benedikt Wiestler, Walter Wiggins, Anna Zapaishchykova, Mariam Aboian, Miriam Bornhorst, Peter de Blank, Michelle Deutsch, Maryam Fouladi, Lindsey Hoffman, Benjamin Kann, Margot Lazow, Leonie Mikael, Ali Nabavizadeh, Roger Packer, Adam Resnick, Brian Rood, Arastoo Vossough, Spyridon Bakas, Marius George Linguraru

Pediatric tumors of the central nervous system are the most common cause of cancer-related death in children.

Benchmarking Brain Tumor Segmentation +2

Prediction of MGMT Methylation Status of Glioblastoma using Radiomics and Latent Space Shape Features

no code implementations25 Sep 2021 Sveinn Pálsson, Stefano Cerri, Koen van Leemput

In this paper we propose a method for predicting the status of MGMT promoter methylation in high-grade gliomas.

feature selection

An augmentation strategy to mimic multi-scanner variability in MRI

1 code implementation23 Mar 2021 Maria Ines Meyer, Ezequiel de la Rosa, Nuno Barros, Roberto Paolella, Koen van Leemput, Diana M. Sima

Most publicly available brain MRI datasets are very homogeneous in terms of scanner and protocols, and it is difficult for models that learn from such data to generalize to multi-center and multi-scanner data.

Data Augmentation

A Contrast-Adaptive Method for Simultaneous Whole-Brain and Lesion Segmentation in Multiple Sclerosis

1 code implementation11 May 2020 Stefano Cerri, Oula Puonti, Dominik S. Meier, Jens Wuerfel, Mark Mühlau, Hartwig R. Siebner, Koen van Leemput

Here we present a method for the simultaneous segmentation of white matter lesions and normal-appearing neuroanatomical structures from multi-contrast brain MRI scans of multiple sclerosis patients.

3D Medical Imaging Segmentation Brain Image Segmentation +4

A Learning Strategy for Contrast-agnostic MRI Segmentation

3 code implementations MIDL 2019 Benjamin Billot, Douglas Greve, Koen van Leemput, Bruce Fischl, Juan Eugenio Iglesias, Adrian V. Dalca

These samples are produced using the generative model of the classical Bayesian segmentation framework, with randomly sampled parameters for appearance, deformation, noise, and bias field.

Brain Segmentation MRI segmentation +2

Relevance Vector Machines for harmonization of MRI brain volumes using image descriptors

no code implementations8 Nov 2019 Maria Ines Meyer, Ezequiel de la Rosa, Koen van Leemput, Diana M. Sima

In this work, we explore a novel approach to harmonize brain volume measurements by using only image descriptors.

Semi-Supervised Variational Autoencoder for Survival Prediction

1 code implementation10 Oct 2019 Sveinn Pálsson, Stefano Cerri, Andrea Dittadi, Koen van Leemput

In this paper we propose a semi-supervised variational autoencoder for classification of overall survival groups from tumor segmentation masks.

Brain Tumor Segmentation Segmentation +3

PSACNN: Pulse Sequence Adaptive Fast Whole Brain Segmentation

no code implementations17 Jan 2019 Amod Jog, Andrew Hoopes, Douglas N. Greve, Koen van Leemput, Bruce Fischl

In this paper we propose a CNN-based segmentation algorithm that, in addition to being highly accurate and fast, is also resilient to variation in the input acquisition.

Brain Segmentation

Identifying the Best Machine Learning Algorithms for Brain Tumor Segmentation, Progression Assessment, and Overall Survival Prediction in the BRATS Challenge

1 code implementation5 Nov 2018 Spyridon Bakas, Mauricio Reyes, Andras Jakab, Stefan Bauer, Markus Rempfler, Alessandro Crimi, Russell Takeshi Shinohara, Christoph Berger, Sung Min Ha, Martin Rozycki, Marcel Prastawa, Esther Alberts, Jana Lipkova, John Freymann, Justin Kirby, Michel Bilello, Hassan Fathallah-Shaykh, Roland Wiest, Jan Kirschke, Benedikt Wiestler, Rivka Colen, Aikaterini Kotrotsou, Pamela Lamontagne, Daniel Marcus, Mikhail Milchenko, Arash Nazeri, Marc-Andre Weber, Abhishek Mahajan, Ujjwal Baid, Elizabeth Gerstner, Dongjin Kwon, Gagan Acharya, Manu Agarwal, Mahbubul Alam, Alberto Albiol, Antonio Albiol, Francisco J. Albiol, Varghese Alex, Nigel Allinson, Pedro H. A. Amorim, Abhijit Amrutkar, Ganesh Anand, Simon Andermatt, Tal Arbel, Pablo Arbelaez, Aaron Avery, Muneeza Azmat, Pranjal B., W Bai, Subhashis Banerjee, Bill Barth, Thomas Batchelder, Kayhan Batmanghelich, Enzo Battistella, Andrew Beers, Mikhail Belyaev, Martin Bendszus, Eze Benson, Jose Bernal, Halandur Nagaraja Bharath, George Biros, Sotirios Bisdas, James Brown, Mariano Cabezas, Shilei Cao, Jorge M. Cardoso, Eric N Carver, Adrià Casamitjana, Laura Silvana Castillo, Marcel Catà, Philippe Cattin, Albert Cerigues, Vinicius S. Chagas, Siddhartha Chandra, Yi-Ju Chang, Shiyu Chang, Ken Chang, Joseph Chazalon, Shengcong Chen, Wei Chen, Jefferson W. Chen, Zhaolin Chen, Kun Cheng, Ahana Roy Choudhury, Roger Chylla, Albert Clérigues, Steven Colleman, Ramiro German Rodriguez Colmeiro, Marc Combalia, Anthony Costa, Xiaomeng Cui, Zhenzhen Dai, Lutao Dai, Laura Alexandra Daza, Eric Deutsch, Changxing Ding, Chao Dong, Shidu Dong, Wojciech Dudzik, Zach Eaton-Rosen, Gary Egan, Guilherme Escudero, Théo Estienne, Richard Everson, Jonathan Fabrizio, Yong Fan, Longwei Fang, Xue Feng, Enzo Ferrante, Lucas Fidon, Martin Fischer, Andrew P. French, Naomi Fridman, Huan Fu, David Fuentes, Yaozong Gao, Evan Gates, David Gering, Amir Gholami, Willi Gierke, Ben Glocker, Mingming Gong, Sandra González-Villá, T. Grosges, Yuanfang Guan, Sheng Guo, Sudeep Gupta, Woo-Sup Han, Il Song Han, Konstantin Harmuth, Huiguang He, Aura Hernández-Sabaté, Evelyn Herrmann, Naveen Himthani, Winston Hsu, Cheyu Hsu, Xiaojun Hu, Xiaobin Hu, Yan Hu, Yifan Hu, Rui Hua, Teng-Yi Huang, Weilin Huang, Sabine Van Huffel, Quan Huo, Vivek HV, Khan M. Iftekharuddin, Fabian Isensee, Mobarakol Islam, Aaron S. Jackson, Sachin R. Jambawalikar, Andrew Jesson, Weijian Jian, Peter Jin, V Jeya Maria Jose, Alain Jungo, B Kainz, Konstantinos Kamnitsas, Po-Yu Kao, Ayush Karnawat, Thomas Kellermeier, Adel Kermi, Kurt Keutzer, Mohamed Tarek Khadir, Mahendra Khened, Philipp Kickingereder, Geena Kim, Nik King, Haley Knapp, Urspeter Knecht, Lisa Kohli, Deren Kong, Xiangmao Kong, Simon Koppers, Avinash Kori, Ganapathy Krishnamurthi, Egor Krivov, Piyush Kumar, Kaisar Kushibar, Dmitrii Lachinov, Tryphon Lambrou, Joon Lee, Chengen Lee, Yuehchou Lee, M Lee, Szidonia Lefkovits, Laszlo Lefkovits, James Levitt, Tengfei Li, Hongwei Li, Hongyang Li, Xiaochuan Li, Yuexiang Li, Heng Li, Zhenye Li, Xiaoyu Li, Zeju Li, Xiaogang Li, Wenqi Li, Zheng-Shen Lin, Fengming Lin, Pietro Lio, Chang Liu, Boqiang Liu, Xiang Liu, Mingyuan Liu, Ju Liu, Luyan Liu, Xavier Llado, Marc Moreno Lopez, Pablo Ribalta Lorenzo, Zhentai Lu, Lin Luo, Zhigang Luo, Jun Ma, Kai Ma, Thomas Mackie, Anant Madabushi, Issam Mahmoudi, Klaus H. Maier-Hein, Pradipta Maji, CP Mammen, Andreas Mang, B. S. Manjunath, Michal Marcinkiewicz, S McDonagh, Stephen McKenna, Richard McKinley, Miriam Mehl, Sachin Mehta, Raghav Mehta, Raphael Meier, Christoph Meinel, Dorit Merhof, Craig Meyer, Robert Miller, Sushmita Mitra, Aliasgar Moiyadi, David Molina-Garcia, Miguel A. B. Monteiro, Grzegorz Mrukwa, Andriy Myronenko, Jakub Nalepa, Thuyen Ngo, Dong Nie, Holly Ning, Chen Niu, Nicholas K Nuechterlein, Eric Oermann, Arlindo Oliveira, Diego D. C. Oliveira, Arnau Oliver, Alexander F. I. Osman, Yu-Nian Ou, Sebastien Ourselin, Nikos Paragios, Moo Sung Park, Brad Paschke, J. Gregory Pauloski, Kamlesh Pawar, Nick Pawlowski, Linmin Pei, Suting Peng, Silvio M. Pereira, Julian Perez-Beteta, Victor M. Perez-Garcia, Simon Pezold, Bao Pham, Ashish Phophalia, Gemma Piella, G. N. Pillai, Marie Piraud, Maxim Pisov, Anmol Popli, Michael P. Pound, Reza Pourreza, Prateek Prasanna, Vesna Prkovska, Tony P. Pridmore, Santi Puch, Élodie Puybareau, Buyue Qian, Xu Qiao, Martin Rajchl, Swapnil Rane, Michael Rebsamen, Hongliang Ren, Xuhua Ren, Karthik Revanuru, Mina Rezaei, Oliver Rippel, Luis Carlos Rivera, Charlotte Robert, Bruce Rosen, Daniel Rueckert, Mohammed Safwan, Mostafa Salem, Joaquim Salvi, Irina Sanchez, Irina Sánchez, Heitor M. Santos, Emmett Sartor, Dawid Schellingerhout, Klaudius Scheufele, Matthew R. Scott, Artur A. Scussel, Sara Sedlar, Juan Pablo Serrano-Rubio, N. Jon Shah, Nameetha Shah, Mazhar Shaikh, B. Uma Shankar, Zeina Shboul, Haipeng Shen, Dinggang Shen, Linlin Shen, Haocheng Shen, Varun Shenoy, Feng Shi, Hyung Eun Shin, Hai Shu, Diana Sima, M Sinclair, Orjan Smedby, James M. Snyder, Mohammadreza Soltaninejad, Guidong Song, Mehul Soni, Jean Stawiaski, Shashank Subramanian, Li Sun, Roger Sun, Jiawei Sun, Kay Sun, Yu Sun, Guoxia Sun, Shuang Sun, Yannick R Suter, Laszlo Szilagyi, Sanjay Talbar, DaCheng Tao, Zhongzhao Teng, Siddhesh Thakur, Meenakshi H Thakur, Sameer Tharakan, Pallavi Tiwari, Guillaume Tochon, Tuan Tran, Yuhsiang M. Tsai, Kuan-Lun Tseng, Tran Anh Tuan, Vadim Turlapov, Nicholas Tustison, Maria Vakalopoulou, Sergi Valverde, Rami Vanguri, Evgeny Vasiliev, Jonathan Ventura, Luis Vera, Tom Vercauteren, C. A. Verrastro, Lasitha Vidyaratne, Veronica Vilaplana, Ajeet Vivekanandan, Qian Wang, Chiatse J. Wang, Wei-Chung Wang, Duo Wang, Ruixuan Wang, Yuanyuan Wang, Chunliang Wang, Guotai Wang, Ning Wen, Xin Wen, Leon Weninger, Wolfgang Wick, Shaocheng Wu, Qiang Wu, Yihong Wu, Yong Xia, Yanwu Xu, Xiaowen Xu, Peiyuan Xu, Tsai-Ling Yang, Xiaoping Yang, Hao-Yu Yang, Junlin Yang, Haojin Yang, Guang Yang, Hongdou Yao, Xujiong Ye, Changchang Yin, Brett Young-Moxon, Jinhua Yu, Xiangyu Yue, Songtao Zhang, Angela Zhang, Kun Zhang, Xue-jie Zhang, Lichi Zhang, Xiaoyue Zhang, Yazhuo Zhang, Lei Zhang, Jian-Guo Zhang, Xiang Zhang, Tianhao Zhang, Sicheng Zhao, Yu Zhao, Xiaomei Zhao, Liang Zhao, Yefeng Zheng, Liming Zhong, Chenhong Zhou, Xiaobing Zhou, Fan Zhou, Hongtu Zhu, Jin Zhu, Ying Zhuge, Weiwei Zong, Jayashree Kalpathy-Cramer, Keyvan Farahani, Christos Davatzikos, Koen van Leemput, Bjoern Menze

This study assesses the state-of-the-art machine learning (ML) methods used for brain tumor image analysis in mpMRI scans, during the last seven instances of the International Brain Tumor Segmentation (BraTS) challenge, i. e., 2012-2018.

Brain Tumor Segmentation Survival Prediction +1

Personalized Radiotherapy Design for Glioblastoma Using Mathematical Models, Multimodal Scans and Bayesian Inference

1 code implementation2 Jul 2018 Jana Lipkova, Panagiotis Angelikopoulos, Stephen Wu, Esther Alberts, Benedikt Wiestler, Christian Diehl, Christine Preibisch, Thomas Pyka, Stephanie Combs, Panagiotis Hadjidoukas, Koen van Leemput, Petros Koumoutsakos, John S. Lowengrub, Bjoern Menze

Here we provide a Bayesian machine learning framework for the rational design of improved, personalized radiotherapy plans using mathematical modeling and patient multimodal medical scans.

Computational Engineering, Finance, and Science

A probabilistic atlas of the human thalamic nuclei combining ex vivo MRI and histology

no code implementations22 Jun 2018 Juan Eugenio Iglesias, Ricardo Insausti, Garikoitz Lerma-Usabiaga, Martina Bocchetta, Koen van Leemput, Douglas N. Greve, Andre van der Kouwe, Bruce Fischl, Cesar Caballero-Gaudes, Pedro M Paz-Alonso

In this study, we present a probabilistic atlas of the thalamic nuclei built using ex vivo brain MRI scans and histological data, as well as the application of the atlas to in vivo MRI segmentation.

Bayesian Inference Hippocampus +2

Cannot find the paper you are looking for? You can Submit a new open access paper.