Unsupervised Anomaly Detection of Healthcare Providers Using Generative Adversarial Networks
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ABSTRACT:
SUBMITTER: Hattingh M
PROVIDER: S-EPMC7134221 | biostudies-literature | 2020 Mar
REPOSITORIES: biostudies-literature
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Project description:Conventional paper currency and modern electronic currency are two important modes of transactions. In several parts of the world, conventional methodology has clear precedence over its electronic counterpart. However, the identification of forged currency paper notes is now becoming an increasingly crucial problem because of the new and improved tactics employed by counterfeiters. In this paper, a machine assisted system-dubbed DeepMoney-is proposed which has been developed to discriminate fake notes from genuine ones. For this purpose, state-of-the-art models of machine learning called Generative Adversarial Networks (GANs) are employed. GANs use unsupervised learning to train a model that can then be used to perform supervised predictions. This flexibility provides the best of both worlds by allowing unlabelled data to be trained on whilst still making concrete predictions. This technique was applied to Pakistani banknotes. State-of-the-art image processing and feature recognition techniques were used to design the overall approach of a valid input. Augmented samples of images were used in the experiments which show that a high-precision machine can be developed to recognize genuine paper money. An accuracy of 80% has been achieved. The code is available as an open source to allow others to reproduce and build upon the efforts already made.
| S-EPMC7924467 | biostudies-literature
Project description:Epitranscriptome is an exciting area that studies different types of modifications in transcripts and the prediction of such modification sites from the transcript sequence is of significant interest. However, the scarcity of positive sites for most modifications imposes critical challenges for training robust algorithms. To circumvent this problem, we propose MR-GAN, a generative adversarial network (GAN) based model, which is trained in an unsupervised fashion on the entire pre-mRNA sequences to learn a low dimensional embedding of transcriptomic sequences. MR-GAN was then applied to extract embeddings of the sequences in a training dataset we created for eight epitranscriptome modifications, including m6A, m1A, m1G, m2G, m5C, m5U, 2'-O-Me, Pseudouridine (Ψ) and Dihydrouridine (D), of which the positive samples are very limited. Prediction models were trained based on the embeddings extracted by MR-GAN. We compared the prediction performance with the one-hot encoding of the training sequences and SRAMP, a state-of-the-art m6A site prediction algorithm and demonstrated that the learned embeddings outperform one-hot encoding by a significant margin for up to 15% improvement. Using MR-GAN, we also investigated the sequence motifs for each modification type and uncovered known motifs as well as new motifs not possible with sequences directly. The results demonstrated that transcriptome features extracted using unsupervised learning could lead to high precision for predicting multiple types of epitranscriptome modifications, even when the data size is small and extremely imbalanced.
| S-EPMC7710330 | biostudies-literature
Project description:PurposeComplementary information obtained from multiple contrasts of tissue facilitates physicians assessing, diagnosing and planning treatment of a variety of diseases. However, acquiring multiple contrasts magnetic resonance images (MRI) for every patient using multiple pulse sequences is time-consuming and expensive, where, medical image synthesis has been demonstrated as an effective alternative. The purpose of this study is to develop a unified framework for multimodal MR image synthesis.MethodsA unified generative adversarial network consisting of only a single generator and a single discriminator was developed to learn the mappings among images of four different modalities. The generator took an image and its modality label as inputs and learned to synthesize the image in the target modality, while the discriminator was trained to distinguish between real and synthesized images and classify them to their corresponding modalities. The network was trained and tested using multimodal brain MRI consisting of four different contrasts which are T1-weighted (T1), T1-weighted and contrast-enhanced (T1c), T2-weighted (T2), and fluid-attenuated inversion recovery (Flair). Quantitative assessments of our proposed method were made through computing normalized mean absolute error (NMAE), peak signal-to-noise ratio (PSNR), structural similarity index measurement (SSIM), visual information fidelity (VIF), and naturalness image quality evaluator (NIQE).ResultsThe proposed model was trained and tested on a cohort of 274 glioma patients with well-aligned multi-types of MRI scans. After the model was trained, tests were conducted by using each of T1, T1c, T2, Flair as a single input modality to generate its respective rest modalities. Our proposed method shows high accuracy and robustness for image synthesis with arbitrary MRI modality that is available in the database as input. For example, with T1 as input modality, the NMAEs for the generated T1c, T2, Flair respectively are 0.034 ± 0.005, 0.041 ± 0.006, and 0.041 ± 0.006, the PSNRs respectively are 32.353 ± 2.525 dB, 30.016 ± 2.577 dB, and 29.091 ± 2.795 dB, the SSIMs are 0.974 ± 0.059, 0.969 ± 0.059, and 0.959 ± 0.059, the VIF are 0.750 ± 0.087, 0.706 ± 0.097, and 0.654 ± 0.062, and NIQE are 1.396 ± 0.401, 1.511 ± 0.460, and 1.259 ± 0.358, respectively.ConclusionsWe proposed a novel multimodal MR image synthesis method based on a unified generative adversarial network. The network takes an image and its modality label as inputs and synthesizes multimodal images in a single forward pass. The results demonstrate that the proposed method is able to accurately synthesize multimodal MR images from a single MR image.
| S-EPMC7796974 | biostudies-literature
Project description:The real-time detection of pine cones in Korean pine forests is not only the data basis for the mechanized picking of pine cones, but also one of the important methods for evaluating the yield of Korean pine forests. In recent years, there has been a certain number of detection accuracy for image processing of fruits in trees using deep-learning methods, but the overall performance of these methods has not been satisfactory, and they have never been used in the detection of pine cones. In this paper, a pine cone detection method based on Boundary Equilibrium Generative Adversarial Networks (BEGAN) and You Only Look Once (YOLO) v3 mode is proposed to solve the problems of insufficient data set, inaccurate detection result and slow detection speed. First, we use traditional image augmentation technology and generative adversarial network BEGAN to implement data augmentation. Second, we introduced a densely connected network (DenseNet) structure in the backbone network of YOLOv3. Third, we expanded the detection scale of YOLOv3, and optimized the loss function of YOLOv3 using the Distance-IoU (DIoU) algorithm. Finally, we conducted a comparative experiment. The experimental results show that the performance of the model can be effectively improved by using BEGAN for data augmentation. Under same conditions, the improved YOLOv3 model is better than the Single Shot MultiBox Detector (SSD), the faster-regions with convolutional neural network (Faster R-CNN) and the original YOLOv3 model. The detection accuracy reaches 95.3%, and the detection efficiency is 37.8% higher than that of the original YOLOv3.
| S-EPMC7472199 | biostudies-literature
Project description:BackgroundGlaucoma leads to irreversible blindness. Globally, it is the second most common retinal disease that leads to blindness, slightly less common than cataracts. Therefore, there is a great need to avoid the silent growth of this disease using recently developed generative adversarial networks (GANs).ObjectiveThis paper aims to introduce a GAN technology for the diagnosis of eye disorders, particularly glaucoma. This paper illustrates deep adversarial learning as a potential diagnostic tool and the challenges involved in its implementation. This study describes and analyzes many of the pitfalls and problems that researchers will need to overcome to implement this kind of technology.MethodsTo organize this review comprehensively, articles and reviews were collected using the following keywords: ("Glaucoma," "optic disc," "blood vessels") and ("receptive field," "loss function," "GAN," "Generative Adversarial Network," "Deep learning," "CNN," "convolutional neural network" OR encoder). The records were identified from 5 highly reputed databases: IEEE Xplore, Web of Science, Scopus, ScienceDirect, and PubMed. These libraries broadly cover the technical and medical literature. Publications within the last 5 years, specifically 2015-2020, were included because the target GAN technique was invented only in 2014 and the publishing date of the collected papers was not earlier than 2016. Duplicate records were removed, and irrelevant titles and abstracts were excluded. In addition, we excluded papers that used optical coherence tomography and visual field images, except for those with 2D images. A large-scale systematic analysis was performed, and then a summarized taxonomy was generated. Furthermore, the results of the collected articles were summarized and a visual representation of the results was presented on a T-shaped matrix diagram. This study was conducted between March 2020 and November 2020.ResultsWe found 59 articles after conducting a comprehensive survey of the literature. Among the 59 articles, 30 present actual attempts to synthesize images and provide accurate segmentation/classification using single/multiple landmarks or share certain experiences. The other 29 articles discuss the recent advances in GANs, do practical experiments, and contain analytical studies of retinal disease.ConclusionsRecent deep learning techniques, namely GANs, have shown encouraging performance in retinal disease detection. Although this methodology involves an extensive computing budget and optimization process, it saturates the greedy nature of deep learning techniques by synthesizing images and solves major medical issues. This paper contributes to this research field by offering a thorough analysis of existing works, highlighting current limitations, and suggesting alternatives to support other researchers and participants in further improving and strengthening future work. Finally, new directions for this research have been identified.
| S-EPMC8493455 | biostudies-literature
Project description:Population genetics relies heavily on simulated data for validation, inference and intuition. In particular, since the evolutionary 'ground truth' for real data is always limited, simulated data are crucial for training supervised machine learning methods. Simulation software can accurately model evolutionary processes but requires many hand-selected input parameters. As a result, simulated data often fail to mirror the properties of real genetic data, which limits the scope of methods that rely on it. Here, we develop a novel approach to estimating parameters in population genetic models that automatically adapts to data from any population. Our method, pg-gan, is based on a generative adversarial network that gradually learns to generate realistic synthetic data. We demonstrate that our method is able to recover input parameters in a simulated isolation-with-migration model. We then apply our method to human data from the 1000 Genomes Project and show that we can accurately recapitulate the features of real data.
| S-EPMC8596911 | biostudies-literature
Project description:Single-cell RNA-sequencing (scRNA-seq) enables the characterization of transcriptomic profiles at the single-cell resolution with increasingly high throughput. However, it suffers from many sources of technical noises, including insufficient mRNA molecules that lead to excess false zero values, termed dropouts. Computational approaches have been proposed to recover the biologically meaningful expression by borrowing information from similar cells in the observed dataset. However, these methods suffer from oversmoothing and removal of natural cell-to-cell stochasticity in gene expression. Here, we propose the generative adversarial networks (GANs) for scRNA-seq imputation (scIGANs), which uses generated cells rather than observed cells to avoid these limitations and balances the performance between major and rare cell populations. Evaluations based on a variety of simulated and real scRNA-seq datasets show that scIGANs is effective for dropout imputation and enhances various downstream analysis. ScIGANs is robust to small datasets that have very few genes with low expression and/or cell-to-cell variance. ScIGANs works equally well on datasets from different scRNA-seq protocols and is scalable to datasets with over 100 000 cells. We demonstrated in many ways with compelling evidence that scIGANs is not only an application of GANs in omics data but also represents a competing imputation method for the scRNA-seq data.
| S-EPMC7470961 | biostudies-literature
Project description:The constant demand for novel functional materials calls for efficient strategies to accelerate the materials discovery, and crystal structure prediction is one of the most fundamental tasks along that direction. In addressing this challenge, generative models can offer new opportunities since they allow for the continuous navigation of chemical space via latent spaces. In this work, we employ a crystal representation that is inversion-free based on unit cell and fractional atomic coordinates and build a generative adversarial network for crystal structures. The proposed model is applied to generate the Mg-Mn-O ternary materials with the theoretical evaluation of their photoanode properties for high-throughput virtual screening (HTVS). The proposed generative HTVS framework predicts 23 new crystal structures with reasonable calculated stability and band gap. These findings suggest that the generative model can be an effective way to explore hidden portions of the chemical space, an area that is usually unreachable when conventional substitution-based discovery is employed.
| S-EPMC7453563 | biostudies-literature
Project description:PURPOSE:Although dose prediction for intensity modulated radiation therapy (IMRT) has been accomplished by a deep learning approach, delineation of some structures is needed for the prediction. We sought to develop a fully automated dose-generation framework for IMRT of prostate cancer by entering the patient CT datasets without the contour information into a generative adversarial network (GAN) and to compare its prediction performance to a conventional prediction model trained from patient contours. METHODS:We propose a synthetic approach to translate patient CT datasets into a dose distribution for IMRT. The framework requires only paired-images, i.e., patient CT images and corresponding RT-doses. The model was trained from 81 IMRT plans of prostate cancer patients, and then produced the dose distribution for 9 test cases. To compare its prediction performance to that of another trained model, we created a model trained from structure images. Dosimetric parameters for the planning target volume (PTV) and organs at risk (OARs) were calculated from the generated and original dose distributions, and mean differences of dosimetric parameters were compared between the CT-based model and the structure-based model. RESULTS:The mean differences of all dosimetric parameters except for D98% and D95% for PTV were within approximately 2% and 3% of the prescription dose for OARs in the CT-based model, while the differences in the structure-based model were within approximately 1% for PTV and approximately 2% for OARs, with a mean prediction time of 5 seconds per patient. CONCLUSIONS:Accurate and rapid dose prediction was achieved by the learning of patient CT datasets by a GAN-based framework. The CT-based dose prediction could reduce the time required for both the iterative optimization process and the structure contouring, allowing physicians and dosimetrists to focus their expertise on more challenging cases.
| S-EPMC7197852 | biostudies-literature
Project description:There have been abundant experimental studies exploring ultra-high-performance concrete (UHPC) in recent years. However, the relationships between the engineering properties of UHPC and its mixture composition are highly nonlinear and difficult to delineate using traditional statistical methods. There is a need for robust and advanced methods that can streamline the diverse pertinent experimental data available to create predictive tools with superior accuracy and provide insight into its nonlinear materials science aspects. Machine learning is a powerful tool that can unravel underlying patterns in complex data. Accordingly, this study endeavors to employ state-of-the-art machine learning techniques to predict the compressive strength of UHPC using a comprehensive experimental database retrieved from the open literature consisting of 810 test observations and 15 input features. A novel approach based on tabular generative adversarial networks was used to generate 6513 plausible synthetic data for training robust machine learning models, including random forest, extra trees, and gradient boosting regression. While the models were trained using the synthetic data, their ability to generalize their predictions was tested on the 810 experimental data thus far unknown and never presented to the models. The results indicate that the developed models achieved outstanding predictive performance. Parametric studies using the models were able to provide insight into the strength development mechanisms of UHPC and the significance of the various influential parameters.
| S-EPMC7663629 | biostudies-literature