scholarly journals Development and validation of an interpretable deep learning framework for Alzheimer’s disease classification

Brain ◽  
2020 ◽  
Vol 143 (6) ◽  
pp. 1920-1933 ◽  
Author(s):  
Shangran Qiu ◽  
Prajakta S Joshi ◽  
Matthew I Miller ◽  
Chonghua Xue ◽  
Xiao Zhou ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Framingham Heart Study ◽  
Disease Risk ◽  
Imaging Techniques ◽  
Disease Diagnosis ◽  
Disease Classification ◽  
Imaging Biomarker ◽  
Heart Study

Abstract Alzheimer’s disease is the primary cause of dementia worldwide, with an increasing morbidity burden that may outstrip diagnosis and management capacity as the population ages. Current methods integrate patient history, neuropsychological testing and MRI to identify likely cases, yet effective practices remain variably applied and lacking in sensitivity and specificity. Here we report an interpretable deep learning strategy that delineates unique Alzheimer’s disease signatures from multimodal inputs of MRI, age, gender, and Mini-Mental State Examination score. Our framework linked a fully convolutional network, which constructs high resolution maps of disease probability from local brain structure to a multilayer perceptron and generates precise, intuitive visualization of individual Alzheimer’s disease risk en route to accurate diagnosis. The model was trained using clinically diagnosed Alzheimer’s disease and cognitively normal subjects from the Alzheimer’s Disease Neuroimaging Initiative (ADNI) dataset (n = 417) and validated on three independent cohorts: the Australian Imaging, Biomarker and Lifestyle Flagship Study of Ageing (AIBL) (n = 382), the Framingham Heart Study (n = 102), and the National Alzheimer’s Coordinating Center (NACC) (n = 582). Performance of the model that used the multimodal inputs was consistent across datasets, with mean area under curve values of 0.996, 0.974, 0.876 and 0.954 for the ADNI study, AIBL, Framingham Heart Study and NACC datasets, respectively. Moreover, our approach exceeded the diagnostic performance of a multi-institutional team of practicing neurologists (n = 11), and high-risk cerebral regions predicted by the model closely tracked post-mortem histopathological findings. This framework provides a clinically adaptable strategy for using routinely available imaging techniques such as MRI to generate nuanced neuroimaging signatures for Alzheimer’s disease diagnosis, as well as a generalizable approach for linking deep learning to pathophysiological processes in human disease.

scholarly journals Development and validation of a deep learning framework for Alzheimer’s disease classification

2019 ◽  
Author(s):  
Vijaya B. Kolachalama ◽  
Shangran Qiu ◽  
Prajakta S. Joshi ◽  
Matthew I. Miller ◽  
Chonghua Xue ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Learning Strategy ◽  
Imaging Techniques ◽  
Neuropsychological Testing ◽  
Model Performance ◽  
Disease Classification ◽  
Imaging Biomarker ◽  
Convolutional Network

AbstractAlzheimer’s disease (AD) is the primary cause of dementia worldwide (1), with an increasing morbidity burden that may outstrip diagnosis and management capacity as the population ages. Current methods integrate patient history, neuropsychological testing and magnetic resonance imaging (MRI) to identify likely cases, yet effective practices remain variably-applied and lacking in sensitivity and specificity (2). Here we report an explainable deep learning strategy that delineates unique AD signatures from multimodal inputs of MRI, age, gender, and mini-mental state examination (MMSE) score. Our framework linked a fully convolutional network (FCN) to a multilayer perceptron (MLP) to construct high resolution maps of disease probability from local brain structure. This enabled precise, intuitive visualization of individual AD risk en route to accurate diagnosis. The model was trained using clinically-diagnosed AD and cognitively normal (NC) subjects from the Alzheimer’s Disease Neuroimaging Initiative (ADNI) dataset (n=417) (3), and validated on three independent cohorts: the Australian Imaging, Biomarker & Lifestyle Flagship Study of Ageing (AIBL, n=382) (4), the Framingham Heart Study (FHS, n=102) (5), and the National Alzheimer’s Coordinating Center (NACC, n=582) (6). Model performance was consistent across datasets, with mean accuracy values of 0.966, 0.948, 0.815, and 0.916 for ADNI, AIBL, FHS and NACC, respectively. Moreover, our approach exceeded the diagnostic performance of a multi-institutional team of practicing neurologists (n=11), and high-risk cerebral regions predicted by the model closely tracked postmortem histopathological findings. This framework provides a clinically-adaptable strategy for using routinely available imaging techniques such as MRI to generate nuanced neuroimaging signatures for AD diagnosis, as well as a generalizable approach for linking deep learning to pathophysiological processes in human disease.

Lightweight deep residual network for alzheimer’s disease classification using sMRI slices

2021 ◽  
pp. 1-9
Author(s):  
Yanteng Zhang ◽  
Qizhi Teng ◽  
Linbo Qing ◽  
Yan Liu ◽  
Xiaohai He
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Computational Cost ◽  
Disease Classification ◽  
Learning Networks ◽  
Feature Maps ◽  
Medical Field ◽  
Widespread Application ◽  
Healthy Control

Alzheimer’s disease (AD) is a degenerative brain disease and the most common cause of dementia. In recent years, with the widespread application of artificial intelligence in the medical field, various deep learning-based methods have been applied for AD detection using sMRI images. Many of these networks achieved AD vs HC (Healthy Control) classification accuracy of up to 90%but with a large number of computational parameters and floating point operations (FLOPs). In this paper, we adopt a novel ghost module, which uses a series of cheap operations of linear transformation to generate more feature maps, embedded into our designed ResNet architecture for task of AD vs HC classification. According to experiments on the OASIS dataset, our lightweight network achieves an optimistic accuracy of 97.92%and its total parameters are dozens of times smaller than state-of-the-art deep learning networks. Our proposed AD classification network achieves better performance while the computational cost is reduced significantly.

scholarly journals Genetic Interaction with Plasma Lipids on Alzheimer’s Disease in the Framingham Heart Study

2018 ◽  
Vol 66 (3) ◽  
pp. 1275-1282
Author(s):  
Gina M. Peloso ◽  
Alexa S. Beiser ◽  
Anita L. Destefano ◽  
Sudha Seshadri
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Framingham Heart Study ◽  
Plasma Lipids ◽  
Genetic Interaction ◽  
Heart Study

scholarly journals A Network-based Deep Learning Framework Catalyzes GWAS and Multi-Omics Findings to Biology and Drug Repurposing for Alzheimer's Disease

2021 ◽  
Author(s):  
Jielin Xu ◽  
Yuan Hou ◽  
Yadi Zhou ◽  
Ming Hu ◽  
Feixiong Cheng
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Disease Risk ◽  
Association Studies ◽  
Open Chromatin ◽  
Genome Wide Association Studies ◽  
Risk Genes ◽  
Learning Framework ◽  
Protein Interactome

Human genome sequencing studies have identified numerous loci associated with complex diseases, including Alzheimer's disease (AD). Translating human genetic findings (i.e., genome-wide association studies [GWAS]) to pathobiology and therapeutic discovery, however, remains a major challenge. To address this critical problem, we present a network topology-based deep learning framework to identify disease-associated genes (NETTAG). NETTAG is capable of integrating multi-genomics data along with the protein-protein interactome to infer putative risk genes and drug targets impacted by GWAS loci. Specifically, we leverage non-coding GWAS loci effects on expression quantitative trait loci (eQTLs), histone-QTLs, and transcription factor binding-QTLs, enhancers and CpG islands, promoter regions, open chromatin, and promoter flanking regions. The key premises of NETTAG are that the disease risk genes exhibit distinct functional characteristics compared to non-risk genes and therefore can be distinguished by their aggregated genomic features under the human protein interactome. Applying NETTAG to the latest AD GWAS data, we identified 156 putative AD-risk genes (i.e., APOE, BIN1, GSK3B, MARK4, and PICALM). We showed that predicted risk genes are: 1) significantly enriched in AD-related pathobiological pathways, 2) more likely to be differentially expressed regarding transcriptome and proteome of AD brains, and 3) enriched in druggable targets with approved medicines (i.e., choline and ibudilast). In summary, our findings suggest that understanding of human pathobiology and therapeutic development could benefit from a network-based deep learning methodology that utilizes GWAS findings under the multimodal genomic analyses.

Automated MRI-Based Deep Learning Model for Detection of Alzheimer’s Disease Process

2020 ◽  
Vol 30 (06) ◽  
pp. 2050032
Author(s):  
Wei Feng ◽  
Nicholas Van Halm-Lutterodt ◽  
Hao Tang ◽  
Andrew Mecum ◽  
Mohamed Kamal Mesregah ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Sensitivity And Specificity ◽  
Disease Process ◽  
Disease Classification ◽  
Support Vector ◽  
Imaging Data ◽  
Clinical Tool ◽  
3D Cnn

In the context of neuro-pathological disorders, neuroimaging has been widely accepted as a clinical tool for diagnosing patients with Alzheimer’s disease (AD) and mild cognitive impairment (MCI). The advanced deep learning method, a novel brain imaging technique, was applied in this study to evaluate its contribution to improving the diagnostic accuracy of AD. Three-dimensional convolutional neural networks (3D-CNNs) were applied with magnetic resonance imaging (MRI) to execute binary and ternary disease classification models. The dataset from the Alzheimer’s disease neuroimaging initiative (ADNI) was used to compare the deep learning performances across 3D-CNN, 3D-CNN-support vector machine (SVM) and two-dimensional (2D)-CNN models. The outcomes of accuracy with ternary classification for 2D-CNN, 3D-CNN and 3D-CNN-SVM were [Formula: see text]%, [Formula: see text]% and [Formula: see text]% respectively. The 3D-CNN-SVM yielded a ternary classification accuracy of 93.71%, 96.82% and 96.73% for NC, MCI and AD diagnoses, respectively. Furthermore, 3D-CNN-SVM showed the best performance for binary classification. Our study indicated that ‘NC versus MCI’ showed accuracy, sensitivity and specificity of 98.90%, 98.90% and 98.80%; ‘NC versus AD’ showed accuracy, sensitivity and specificity of 99.10%, 99.80% and 98.40%; and ‘MCI versus AD’ showed accuracy, sensitivity and specificity of 89.40%, 86.70% and 84.00%, respectively. This study clearly demonstrates that 3D-CNN-SVM yields better performance with MRI compared to currently utilized deep learning methods. In addition, 3D-CNN-SVM proved to be efficient without having to manually perform any prior feature extraction and is totally independent of the variability of imaging protocols and scanners. This suggests that it can potentially be exploited by untrained operators and extended to virtual patient imaging data. Furthermore, owing to the safety, noninvasiveness and nonirradiative properties of the MRI modality, 3D-CNN-SMV may serve as an effective screening option for AD in the general population. This study holds value in distinguishing AD and MCI subjects from normal controls and to improve value-based care of patients in clinical practice.

scholarly journals System for Automatic Assessment of Alzheimer’s Disease Diagnosis Based on Deep Learning Techniques

Proceedings ◽  
2019 ◽  
Vol 21 (1) ◽  
pp. 28
Author(s):  
Alejandro Puente-Castro ◽  
Cristian Robert Munteanu ◽  
Enrique Fernandez-Blanco
Keyword(s):  
Magnetic Resonance Imaging ◽  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Deep Learning ◽  
Reference Data ◽  
Disease Diagnosis ◽  
Resonance Imaging ◽  
Automatic Assessment ◽  
Learning Techniques ◽  
Magnetic Resonance Imaging Mri

Automatic detection of Alzheimer’s disease is a very active area of research. This is due to its usefulness in starting the protocol to stop the inevitable progression of this neurodegenerative disease. This paper proposes a system for the detection of the disease by means of Deep Learning techniques in magnetic resonance imaging (MRI). As a solution, a model of neuronal networks (ANN) and two sets of reference data for training are proposed. Finally, the goodness of this system is verified within the domain of the application.

Sign in / Sign up

Export Citation Format

Share Document