Hippocampal Representations for Deep Learning on Alzheimer’s Disease

Abstract Deep learning offers a powerful approach for analyzing hippocampal changes in Alzheimer's disease (AD) without relying on handcrafted features. Nevertheless, an input format needs to be selected to pass the image information to the neural network, which has wide ramifications for the analysis, but has not been evaluated yet. We compare five hippocampal representations (and their respective tailored network architectures) that span from raw images to geometric representations like meshes and point clouds. We performed a thorough evaluation for the prediction of AD diagnosis and time-to-dementia prediction with experiments on an independent test dataset. Our results show that choosing an appropriate representation of the hippocampus for predicting Alzheimer's disease with deep learning is crucial, since it impacts performance and ease of interpretation.

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Application of deep learning in detecting neurological disorders from magnetic resonance images: a survey on the detection of Alzheimer’s disease, Parkinson’s disease and schizophrenia

Brain Informatics ◽

10.1186/s40708-020-00112-2 ◽

2020 ◽

Vol 7 (1) ◽

Cited By ~ 6

Author(s):

Manan Binth Taj Noor ◽

Nusrat Zerin Zenia ◽

M Shamim Kaiser ◽

Shamim Al Mamun ◽

Mufti Mahmud

Keyword(s):

Alzheimer’S Disease ◽

Parkinson’S Disease ◽

Alzheimer's Disease ◽

Parkinson's Disease ◽

Deep Learning ◽

Magnetic Resonance ◽

Neurological Disorders ◽

Magnetic Resonance Images ◽

Future Research ◽

Comparative Performance

Abstract Neuroimaging, in particular magnetic resonance imaging (MRI), has been playing an important role in understanding brain functionalities and its disorders during the last couple of decades. These cutting-edge MRI scans, supported by high-performance computational tools and novel ML techniques, have opened up possibilities to unprecedentedly identify neurological disorders. However, similarities in disease phenotypes make it very difficult to detect such disorders accurately from the acquired neuroimaging data. This article critically examines and compares performances of the existing deep learning (DL)-based methods to detect neurological disorders—focusing on Alzheimer’s disease, Parkinson’s disease and schizophrenia—from MRI data acquired using different modalities including functional and structural MRI. The comparative performance analysis of various DL architectures across different disorders and imaging modalities suggests that the Convolutional Neural Network outperforms other methods in detecting neurological disorders. Towards the end, a number of current research challenges are indicated and some possible future research directions are provided.

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Development and validation of a deep learning system to screen vision-threatening conditions in high myopia using optical coherence tomography images

British Journal of Ophthalmology ◽

10.1136/bjophthalmol-2020-317825 ◽

2020 ◽

pp. bjophthalmol-2020-317825

Author(s):

Yonghao Li ◽

Weibo Feng ◽

Xiujuan Zhao ◽

Bingqian Liu ◽

Yan Zhang ◽

...

Keyword(s):

Optical Coherence Tomography ◽

Deep Learning ◽

High Myopia ◽

Large Scale ◽

Learning System ◽

Youden Index ◽

Optical Coherence ◽

Test Dataset ◽

Independent Test ◽

Independent Test Dataset

Background/aimsTo apply deep learning technology to develop an artificial intelligence (AI) system that can identify vision-threatening conditions in high myopia patients based on optical coherence tomography (OCT) macular images.MethodsIn this cross-sectional, prospective study, a total of 5505 qualified OCT macular images obtained from 1048 high myopia patients admitted to Zhongshan Ophthalmic Centre (ZOC) from 2012 to 2017 were selected for the development of the AI system. The independent test dataset included 412 images obtained from 91 high myopia patients recruited at ZOC from January 2019 to May 2019. We adopted the InceptionResnetV2 architecture to train four independent convolutional neural network (CNN) models to identify the following four vision-threatening conditions in high myopia: retinoschisis, macular hole, retinal detachment and pathological myopic choroidal neovascularisation. Focal Loss was used to address class imbalance, and optimal operating thresholds were determined according to the Youden Index.ResultsIn the independent test dataset, the areas under the receiver operating characteristic curves were high for all conditions (0.961 to 0.999). Our AI system achieved sensitivities equal to or even better than those of retina specialists as well as high specificities (greater than 90%). Moreover, our AI system provided a transparent and interpretable diagnosis with heatmaps.ConclusionsWe used OCT macular images for the development of CNN models to identify vision-threatening conditions in high myopia patients. Our models achieved reliable sensitivities and high specificities, comparable to those of retina specialists and may be applied for large-scale high myopia screening and patient follow-up.

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Deep Learning with Neuroimaging and Genomics in Alzheimer’s Disease

International Journal of Molecular Sciences ◽

10.3390/ijms22157911 ◽

2021 ◽

Vol 22 (15) ◽

pp. 7911

Author(s):

Eugene Lin ◽

Chieh-Hsin Lin ◽

Hsien-Yuan Lane

Keyword(s):

Alzheimer’S Disease ◽

Alzheimer's Disease ◽

Deep Learning ◽

Future Research ◽

Learning Approaches ◽

Learning Models ◽

Learning Techniques ◽

Neuroimaging Data ◽

Similarities And Differences ◽

Normal Controls

A growing body of evidence currently proposes that deep learning approaches can serve as an essential cornerstone for the diagnosis and prediction of Alzheimer’s disease (AD). In light of the latest advancements in neuroimaging and genomics, numerous deep learning models are being exploited to distinguish AD from normal controls and/or to distinguish AD from mild cognitive impairment in recent research studies. In this review, we focus on the latest developments for AD prediction using deep learning techniques in cooperation with the principles of neuroimaging and genomics. First, we narrate various investigations that make use of deep learning algorithms to establish AD prediction using genomics or neuroimaging data. Particularly, we delineate relevant integrative neuroimaging genomics investigations that leverage deep learning methods to forecast AD on the basis of incorporating both neuroimaging and genomics data. Moreover, we outline the limitations as regards to the recent AD investigations of deep learning with neuroimaging and genomics. Finally, we depict a discussion of challenges and directions for future research. The main novelty of this work is that we summarize the major points of these investigations and scrutinize the similarities and differences among these investigations.

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Deep Learning-Based Segmentation in Classification of Alzheimer’s Disease

Arabian Journal for Science and Engineering ◽

10.1007/s13369-020-05193-z ◽

2021 ◽

Author(s):

P. R. Buvaneswari ◽

R. Gayathri

Keyword(s):

Alzheimer’S Disease ◽

Alzheimer's Disease ◽

Deep Learning

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Artificial intelligence-based computational framework for drug-target prioritization and inference of novel repositionable drugs for Alzheimer’s disease

Alzheimer s Research & Therapy ◽

10.1186/s13195-021-00826-3 ◽

2021 ◽

Vol 13 (1) ◽

Author(s):

Shingo Tsuji ◽

Takeshi Hase ◽

Ayako Yachie-Kinoshita ◽

Taiko Nishino ◽

Samik Ghosh ◽

...

Keyword(s):

Alzheimer’S Disease ◽

Alzheimer's Disease ◽

Deep Learning ◽

Drug Target ◽

Target Genes ◽

Drug Repositioning ◽

Therapeutic Targets ◽

Machine Learning Techniques ◽

Computational Framework ◽

Novel Therapeutic

Abstract Background Identifying novel therapeutic targets is crucial for the successful development of drugs. However, the cost to experimentally identify therapeutic targets is huge and only approximately 400 genes are targets for FDA-approved drugs. As a result, it is inevitable to develop powerful computational tools that can identify potential novel therapeutic targets. Fortunately, the human protein-protein interaction network (PIN) could be a useful resource to achieve this objective. Methods In this study, we developed a deep learning-based computational framework that extracts low-dimensional representations of high-dimensional PIN data. Our computational framework uses latent features and state-of-the-art machine learning techniques to infer potential drug target genes. Results We applied our computational framework to prioritize novel putative target genes for Alzheimer’s disease and successfully identified key genes that may serve as novel therapeutic targets (e.g., DLG4, EGFR, RAC1, SYK, PTK2B, SOCS1). Furthermore, based on these putative targets, we could infer repositionable candidate-compounds for the disease (e.g., tamoxifen, bosutinib, and dasatinib). Conclusions Our deep learning-based computational framework could be a powerful tool to efficiently prioritize new therapeutic targets and enhance the drug repositioning strategy.

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Multi-Dimensional Underwater Point Cloud Detection Based on Deep Learning

Sensors ◽

10.3390/s21030884 ◽

2021 ◽

Vol 21 (3) ◽

pp. 884

Author(s):

Chia-Ming Tsai ◽

Yi-Horng Lai ◽

Yung-Da Sun ◽

Yu-Jen Chung ◽

Jau-Woei Perng

Keyword(s):

Deep Learning ◽

Point Cloud ◽

Three Dimensional ◽

Point Clouds ◽

Training Data ◽

Network Architectures ◽

Point Cloud Data ◽

Data Types ◽

Raw Data ◽

Cloud Data

Numerous sensors can obtain images or point cloud data on land, however, the rapid attenuation of electromagnetic signals and the lack of light in water have been observed to restrict sensing functions. This study expands the utilization of two- and three-dimensional detection technologies in underwater applications to detect abandoned tires. A three-dimensional acoustic sensor, the BV5000, is used in this study to collect underwater point cloud data. Some pre-processing steps are proposed to remove noise and the seabed from raw data. Point clouds are then processed to obtain two data types: a 2D image and a 3D point cloud. Deep learning methods with different dimensions are used to train the models. In the two-dimensional method, the point cloud is transferred into a bird’s eye view image. The Faster R-CNN and YOLOv3 network architectures are used to detect tires. Meanwhile, in the three-dimensional method, the point cloud associated with a tire is cut out from the raw data and is used as training data. The PointNet and PointConv network architectures are then used for tire classification. The results show that both approaches provide good accuracy.

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