Commenced in January 2007
Frequency: Monthly
Edition: International
Paper Count: 5

SOM Related Publications

5 Identification of Disease Causing DNA Motifs in Human DNA Using Clustering Approach

Authors: G. Tamilpavai, C. Vishnuppriya

Abstract:

Studying DNA (deoxyribonucleic acid) sequence is useful in biological processes and it is applied in the fields such as diagnostic and forensic research. DNA is the hereditary information in human and almost all other organisms. It is passed to their generations. Earlier stage detection of defective DNA sequence may lead to many developments in the field of Bioinformatics. Nowadays various tedious techniques are used to identify defective DNA. The proposed work is to analyze and identify the cancer-causing DNA motif in a given sequence. Initially the human DNA sequence is separated as k-mers using k-mer separation rule. The separated k-mers are clustered using Self Organizing Map (SOM). Using Levenshtein distance measure, cancer associated DNA motif is identified from the k-mer clusters. Experimental results of this work indicate the presence or absence of cancer causing DNA motif. If the cancer associated DNA motif is found in DNA, it is declared as the cancer disease causing DNA sequence. Otherwise the input human DNA is declared as normal sequence. Finally, elapsed time is calculated for finding the presence of cancer causing DNA motif using clustering formation. It is compared with normal process of finding cancer causing DNA motif. Locating cancer associated motif is easier in cluster formation process than the other one. The proposed work will be an initiative aid for finding genetic disease related research.

Keywords: Bioinformatics, Dna, SOM, cancer motif, k-mers, Levenshtein distance

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4 Developing Damage Assessment Model for Bridge Surroundings: A Study of Disaster by Typhoon Morakot in Taiwan

Authors: Jieh-Haur Chen, Pei-Fen Huang

Abstract:

This paper presents an integrated model that automatically measures the change of rivers, damage area of bridge surroundings, and change of vegetation. The proposed model is on the basis of a neurofuzzy mechanism enhanced by SOM optimization algorithm, and also includes three functions to deal with river imagery. High resolution imagery from FORMOSAT-2 satellite taken before and after the invasion period is adopted. By randomly selecting a bridge out of 129 destroyed bridges, the recognition results show that the average width has increased 66%. The ruined segment of the bridge is located exactly at the most scour region. The vegetation coverage has also reduced to nearly 90% of the original. The results yielded from the proposed model demonstrate a pinpoint accuracy rate at 99.94%. This study brings up a successful tool not only for large-scale damage assessment but for precise measurement to disasters.

Keywords: Optimization, Bridge, Fuzzy, Damage Assessment, ANN, SOM, remote sensing image, typhoon disaster

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3 Initialization Method of Reference Vectors for Improvement of Recognition Accuracy in LVQ

Authors: Yuji Mizuno, Hiroshi Mabuchi

Abstract:

Initial values of reference vectors have significant influence on recognition accuracy in LVQ. There are several existing techniques, such as SOM and k-means, for setting initial values of reference vectors, each of which has provided some positive results. However, those results are not sufficient for the improvement of recognition accuracy. This study proposes an ACO-used method for initializing reference vectors with an aim to achieve recognition accuracy higher than those obtained through conventional methods. Moreover, we will demonstrate the effectiveness of the proposed method by applying it to the wine data and English vowel data and comparing its results with those of conventional methods.

Keywords: Clustering, SOM, k-means, LVQ, ACO

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2 Comparison of Different Neural Network Approaches for the Prediction of Kidney Dysfunction

Authors: Ali Hussian Ali AlTimemy, Fawzi M. Al Naima

Abstract:

This paper presents the prediction of kidney dysfunction using different neural network (NN) approaches. Self organization Maps (SOM), Probabilistic Neural Network (PNN) and Multi Layer Perceptron Neural Network (MLPNN) trained with Back Propagation Algorithm (BPA) are used in this study. Six hundred and sixty three sets of analytical laboratory tests have been collected from one of the private clinical laboratories in Baghdad. For each subject, Serum urea and Serum creatinin levels have been analyzed and tested by using clinical laboratory measurements. The collected urea and cretinine levels are then used as inputs to the three NN models in which the training process is done by different neural approaches. SOM which is a class of unsupervised network whereas PNN and BPNN are considered as class of supervised networks. These networks are used as a classifier to predict whether kidney is normal or it will have a dysfunction. The accuracy of prediction, sensitivity and specificity were found for each type of the proposed networks .We conclude that PNN gives faster and more accurate prediction of kidney dysfunction and it works as promising tool for predicting of routine kidney dysfunction from the clinical laboratory data.

Keywords: prediction, PNN, SOM, BPNN, kidney dysfunction, Urea and Creatinine levels

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1 Multi-Agent Systems for Intelligent Clustering

Authors: Jung-Eun Park, Kyung-Whan Oh

Abstract:

Intelligent systems are required in order to quickly and accurately analyze enormous quantities of data in the Internet environment. In intelligent systems, information extracting processes can be divided into supervised learning and unsupervised learning. This paper investigates intelligent clustering by unsupervised learning. Intelligent clustering is the clustering system which determines the clustering model for data analysis and evaluates results by itself. This system can make a clustering model more rapidly, objectively and accurately than an analyzer. The methodology for the automatic clustering intelligent system is a multi-agent system that comprises a clustering agent and a cluster performance evaluation agent. An agent exchanges information about clusters with another agent and the system determines the optimal cluster number through this information. Experiments using data sets in the UCI Machine Repository are performed in order to prove the validity of the system.

Keywords: PCA, multi-agent system, SOM, Intelligent Clustering, VC(Variance Criterion)

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