• The Journal of the Korea Contents Association
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• v.9 no.4
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• pp.114-120
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• 2009

In this study, we employed the idea that disease-related proteins tend to be work as an important factor for architecture of the disease network. We initially obtained 43 atopy-related proteins from the Online Mendelian Inheritance in Man (OMIM) and then constructed atopy-related protein interaction network. The protein network can be derived the map of the relationship between different disease proteins, denoted disease interaction network. We demonstrate that the associations between diseases are directly correlated to their underlying protein-protein interaction networks. From constructed the disease-protein bipartite network, we derived three diseasomal proteins, CCR5, CCL11, and IL/4R. Although we use the relatively small subnetwork, an atopy-related disease network, it is sufficient that the discovery of protein interaction networks assigned by diseases will provide insight into the underlying molecular mechanisms and biological processes in complex human disease system.

• Journal of the Korea Society of Computer and Information
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• v.24 no.9
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• pp.103-108
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• 2019

The purpose of this study is to identify the factors that may affect the 5-year survival of colon cancer through network model and to use it as a clinical decision supporting system for colorectal cancer patients. This study was conducted using data from 2,540 patients who underwent colorectal cancer surgery from 1996 to 2018. Eleven factors related to survival of colorectal cancer were selected by consulting medical experts and previous studies. Analysis was proceeded from the data sorted out into 1,839 patients excluding missing values and outliers. Logistic regression analysis showed that age, BMI, and heart disease were statistically significant in order to identify factors affecting 5-year survival of colorectal cancer. Additionally, a correlation analysis was carried out age, BMI, heart disease, diabetes, and other diseases were correlated with 5-year survival of colorectal cancer. Sex was related with BMI, lung disease, and liver disease. Age was associated with heart disease, heart disease, hypertension, diabetes, and other diseases, and BMI with hypertension, diabetes, and other diseases. Heart disease was associated with hypertension, diabetes, hypertension, diabetes, and other diseases. In addition, diabetes and kidney disease were associated. In the correlation analysis, the network model was constructed with the Network Correlation Coefficient less than p <0.001 as the weight. The network model showed that factors directly affecting survival were age, BMI levels, heart disease, and indirectly influencing factors were diabetes, high blood pressure, liver disease and other diseases. If the network model is used as an assistant indicator for the treatment of colorectal cancer, it could contribute to increasing the survival rate of patients.

• Genomics & Informatics
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• v.14 no.1
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• pp.2-11
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• 2016

The advances in mass spectrometry-based proteomics technologies have enabled the generation of global proteome data from tissue or body fluid samples collected from a broad spectrum of human diseases. Comparative proteomic analysis of global proteome data identifies and prioritizes the proteins showing altered abundances, called differentially expressed proteins (DEPs), in disease samples, compared to control samples. Protein biomarker candidates that can serve as indicators of disease states are then selected as key molecules among these proteins. Recently, it has been addressed that cellular pathways can provide better indications of disease states than individual molecules and also network analysis of the DEPs enables effective identification of cellular pathways altered in disease conditions and key molecules representing the altered cellular pathways. Accordingly, a number of network-based approaches to identify disease-related pathways and representative molecules of such pathways have been developed. In this review, we summarize analytical platforms for network-based protein biomarker discovery and key components in the platforms.

• Journal of the Korean Institute of Intelligent Systems
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• v.25 no.6
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• pp.529-535
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• 2015

Biological networks have been handled with the static concept. However, life phenomena in cells occur depending on the cellular state and the external environment, and only a few proteins and their interactions are selectively activated. Therefore, we should adopt the dynamic network concept that the structure of a biological network varies along the flow of time. This concept is effective to analyze the progressive transition of the disease. In this paper, we applied the proposed method to Alzheimer's disease to analyze the structural and functional characteristics of the disease network. Using gene expression data and protein-protein interaction data, we constructed the sub-networks in accordance with the progress of disease (normal, early, middle and late). Based on this, we analyzed structural properties of the network. Furthermore, we found module structures in the network to analyze the functional properties of the sub-networks using the gene ontology analysis (GO). As a result, it was shown that the functional characteristics of the dynamics network is well compatible with the stage of the disease which shows that it can be used to describe important biological events of the disease. Via the proposed approach, it is possible to observe the molecular network change involved in the disease progression which is not generally investigated, and to understand the pathogenesis and progression mechanism of the disease at a molecular level.

• Bioinformatics and Biosystems
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• v.2 no.2
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• pp.71-74
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• 2007

Cell phenotypes are determined by groups of functionally related genes. Microarray profiling of gene expression provides us response of cellular state to its perturbation. Several methods for uncovering a cellular network show reliable network reconstruction. In this study, we present reconstruction of genetic regulatory network of inflammation bowel disease in human peripheral blood mononuclear cell. The microarray based on Affymetrix Gene Chip Human Genome U133 Array Set HG-U133A is processed and applied network reconstruction algorithm, ARACNe. As a result, we will show that inferred network composed of 450 nodes and 2017 edges is roughly scale-free network and hierarchical organization. The major hub, CCNL2 (cyclin A2), in inferred network is shown to be associated with inflammatory function as well as apoptotic function.

• The Journal of the Acoustical Society of Korea
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• v.38 no.3
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• pp.308-313
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• 2019

Parkinson's disease, one of the three major diseases in old age, has more than 70 % of patients with speech disorders, and recently, diagnostic methods of Parkinson's disease through speech signals have been devised. In this paper, we propose a method of diagnosis of Parkinson's disease based on deep residual gated recurrent neural network using speech features. In the proposed method, the speech features for diagnosing Parkinson's disease are selected and applied to the deep residual gated recurrent neural network to classify Parkinson's disease patients. The proposed deep residual gated recurrent neural network, an algorithm combining residual learning with deep gated recurrent neural network, has a higher recognition rate than the traditional method in Parkinson's disease diagnosis.

• The Journal of Internal Korean Medicine
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• v.44 no.1
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• pp.35-52
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• 2023

Objective: Internal injuries and consumptive disease have different causes, yet they can affect each other. The relationship and combination of prescription drugs in the clinical practice of internal injuries and consumptive disease were analyzed for various diseases of "Donguibogam" through network analysis. Methods: The prescriptions used in consumptive disease and internal injury were established by conducting a full survey on the papers extracted from Donguibogam. The R version 4.0.3 (2020-10-10) and the igraph and arules package were used to perform network analysis and association rule relationship mining analysis in the first and second prescription compositions. Results: The herb frequently used for internal injury was Glycyrrhizae Radix, while the herb combination frequently used was Citri Pericarpium-Glycyrrhizae Radix. For centrality, the main factor was generally Glycyrrhizae Radix. In the case of consumptive disease, the herb most frequently used was Angelicae Gigantis Radix, and the combination most frequently used was Rehmanniae Radix Preparata-Angelicae Gigantis Radix. In terms of centrality, it was Angelicae Gigantis Radix. As a result of the network analysis of herbal prescription frequency, each group was divided into three. Conclusion: The interrelationship between internal injury and consumptive disease prescription drugs may reveal the differences and similarities between internal injury and consumptive disease and may serve as a basis for the development of new drugs or materials that can enhance mutual effectiveness in the treatment of internal injury and consumptive diseases.

• Journal of Korea Multimedia Society
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• v.25 no.11
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• pp.1653-1671
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• 2022

Crop diseases affect crop production, more than 30 billion USD globally. We proposed a classification study of crop species and diseases using deep learning algorithms for corn, cucumber, pepper, and strawberry. Our study has three steps of species classification, disease detection, and disease classification, which is noteworthy for using captured images without additional processes. We designed deep learning approach of deep learning convolutional neural networks based on Mask R-CNN model to classify crop species. Inception and Resnet models were presented for disease detection and classification sequentially. For classification, we trained Mask R-CNN network and achieved loss value of 0.72 for crop species classification and segmentation. For disease detection, InceptionV3 and ResNet101-V2 models were trained for nodes of crop species on 1,500 images of normal and diseased labels, resulting in the accuracies of 0.984, 0.969, 0.956, and 0.962 for corn, cucumber, pepper, and strawberry by InceptionV3 model with higher accuracy and AUC. For disease classification, InceptionV3 and ResNet 101-V2 models were trained for nodes of crop species on 1,500 images of diseased label, resulting in the accuracies of 0.995 and 0.992 for corn and cucumber by ResNet101 with higher accuracy and AUC whereas 0.940 and 0.988 for pepper and strawberry by Inception.

• BMB Reports
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• v.50 no.11
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• pp.535-536
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• 2017

A novel approach has been used to identify functional interactions relevant to human disease. Using high-throughput human-yeast genetic interaction screens, a first draft of disease interactome was obtained. This was achieved by first searching for candidate human disease genes that confer toxicity in yeast, and second, identifying modulators of toxicity. This study found potentially disease-relevant interactions by analyzing the network of functional interactions and focusing on genes implicated in amyotrophic lateral sclerosis (ALS), for example. In the subsequent proof-of-concept study focused on ALS, similar functional relationships between a specific kinase and ALS-associated genes were observed in mammalian cells and zebrafish, supporting findings in human-yeast genetic interaction screens. Results of combined analyses highlighted MAP2K5 kinase as a potential therapeutic target in ALS.

• ETRI Journal
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• v.39 no.6
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• pp.851-858
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• 2017

Parkinson's disease is a growing and chronic movement disorder, and its diagnosis is difficult especially at the initial stages. In this paper, movement characteristics extracted by a computer using multilayer back propagation neural network mapping are converted to the symptoms of this disease. Then, modulation of three classifiers of C4.5, k-nearest neighbors, and support vector machine with majority voting are applied to support experts in diagnosing the disease. The purpose of this study is to choose appropriate characteristics and increase the accuracy of the diagnosis. Experiments were performed to demonstrate the improvement of Parkinson's disease diagnosis using this method.