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      Distributed deep learning networks among institutions for medical imaging

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          Abstract

          Objective

          Deep learning has become a promising approach for automated support for clinical diagnosis. When medical data samples are limited, collaboration among multiple institutions is necessary to achieve high algorithm performance. However, sharing patient data often has limitations due to technical, legal, or ethical concerns. In this study, we propose methods of distributing deep learning models as an attractive alternative to sharing patient data.

          Methods

          We simulate the distribution of deep learning models across 4 institutions using various training heuristics and compare the results with a deep learning model trained on centrally hosted patient data. The training heuristics investigated include ensembling single institution models, single weight transfer, and cyclical weight transfer. We evaluated these approaches for image classification in 3 independent image collections (retinal fundus photos, mammography, and ImageNet).

          Results

          We find that cyclical weight transfer resulted in a performance that was comparable to that of centrally hosted patient data. We also found that there is an improvement in the performance of cyclical weight transfer heuristic with a high frequency of weight transfer.

          Conclusions

          We show that distributing deep learning models is an effective alternative to sharing patient data. This finding has implications for any collaborative deep learning study.

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          Most cited references10

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          Deep Patient: An Unsupervised Representation to Predict the Future of Patients from the Electronic Health Records

          Secondary use of electronic health records (EHRs) promises to advance clinical research and better inform clinical decision making. Challenges in summarizing and representing patient data prevent widespread practice of predictive modeling using EHRs. Here we present a novel unsupervised deep feature learning method to derive a general-purpose patient representation from EHR data that facilitates clinical predictive modeling. In particular, a three-layer stack of denoising autoencoders was used to capture hierarchical regularities and dependencies in the aggregated EHRs of about 700,000 patients from the Mount Sinai data warehouse. The result is a representation we name “deep patient”. We evaluated this representation as broadly predictive of health states by assessing the probability of patients to develop various diseases. We performed evaluation using 76,214 test patients comprising 78 diseases from diverse clinical domains and temporal windows. Our results significantly outperformed those achieved using representations based on raw EHR data and alternative feature learning strategies. Prediction performance for severe diabetes, schizophrenia, and various cancers were among the top performing. These findings indicate that deep learning applied to EHRs can derive patient representations that offer improved clinical predictions, and could provide a machine learning framework for augmenting clinical decision systems.
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            Residual Convolutional Neural Network for the Determination ofIDHStatus in Low- and High-Grade Gliomas from MR Imaging

            Purpose: Isocitrate dehydrogenase (IDH) mutations in glioma patients confer longer survival and may guide treatment decision making. We aimed to predict the IDH status of gliomas from MR imaging by applying a residual convolutional neural network to preoperative radiographic data.Experimental Design: Preoperative imaging was acquired for 201 patients from the Hospital of University of Pennsylvania (HUP), 157 patients from Brigham and Women's Hospital (BWH), and 138 patients from The Cancer Imaging Archive (TCIA) and divided into training, validation, and testing sets. We trained a residual convolutional neural network for each MR sequence (FLAIR, T2, T1 precontrast, and T1 postcontrast) and built a predictive model from the outputs. To increase the size of the training set and prevent overfitting, we augmented the training set images by introducing random rotations, translations, flips, shearing, and zooming.Results: With our neural network model, we achieved IDH prediction accuracies of 82.8% (AUC = 0.90), 83.0% (AUC = 0.93), and 85.7% (AUC = 0.94) within training, validation, and testing sets, respectively. When age at diagnosis was incorporated into the model, the training, validation, and testing accuracies increased to 87.3% (AUC = 0.93), 87.6% (AUC = 0.95), and 89.1% (AUC = 0.95), respectively.Conclusions: We developed a deep learning technique to noninvasively predict IDH genotype in grade II-IV glioma using conventional MR imaging using a multi-institutional data set. Clin Cancer Res; 24(5); 1073-81. ©2017 AACR.
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              Deep image mining for diabetic retinopathy screening

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                Author and article information

                Journal
                J Am Med Inform Assoc
                J Am Med Inform Assoc
                jamia
                Journal of the American Medical Informatics Association : JAMIA
                Oxford University Press
                1067-5027
                1527-974X
                August 2018
                29 March 2018
                29 March 2018
                : 25
                : 8
                : 945-954
                Affiliations
                [1 ]Athinoula A. Martinos Center for Biomedical Imaging, Department of Radiology, Massachusetts General Hospital, Charlestown, MA, 02129, USA
                [2 ]Department of Radiology and Biomedical Data Science, Stanford University, Palo Alto, CA, 94305, USA
                [3 ]MGH and BWH Center for Clinical Data Science, Massachusetts General Hospital, Boston, MA, 02114, USA
                Author notes

                Ken Chang, Niranjan Balachandar, Daniel L Rubin and Jayashree Kalpathy-Cramer contributed equally

                Co-Corresponding Author: Daniel Rubin, Department of Biomedical Data Science and Radiology, Stanford University, 1201 Welch Road, Stanford, CA 94305, USA ( dlrubin@ 123456stanford.edu )
                Co-Corresponding Author: Jayashree Kalpathy-Cramer, Athinoula A. Martinos Center for Biomedical Imaging, 149 13th Street, Charlestown, MA 02129, USA ( kalpathy@ 123456nmr.mgh.harvard.edu )
                Article
                ocy017
                10.1093/jamia/ocy017
                6077811
                29617797
                04c0c65e-e652-4e66-90d7-56dc58d8df42
                © The Author(s) 2018. Published by Oxford University Press on behalf of the American Medical Informatics Association.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License ( http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

                History
                : 6 October 2017
                : 22 January 2018
                : 15 February 2018
                Page count
                Pages: 10
                Funding
                Funded by: National Institutes of Health Blueprint for Neuroscience Research
                Award ID: T90DA022759/R90DA023427
                Funded by: NIH 10.13039/100000002
                Funded by: National Institute of Biomedical Imaging and Bioengineering 10.13039/100000070
                Funded by: National Institutes of Health 10.13039/100000002
                Funded by: National Institutes of Health 10.13039/100000002
                Award ID: U01CA154601
                Award ID: U24CA180927
                Award ID: U24CA180918
                Award ID: U01CA190214
                Award ID: U01CA187947
                Categories
                Research and Applications

                Bioinformatics & Computational biology
                deep learning,neural networks,distributed learning,medical imaging

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