2010 5th International Symposium on Health Informatics and Bioinformatics最新文献

Analysis of phosphatase 1B WPD loop closure 磷酸酶1B WPD环闭合分析

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478888

Burcu Ozkaral, A. Ozcan, Burak Alakent, Elif Ozkirimli

{"title":"Analysis of phosphatase 1B WPD loop closure","authors":"Burcu Ozkaral, A. Ozcan, Burak Alakent, Elif Ozkirimli","doi":"10.1109/HIBIT.2010.5478888","DOIUrl":"https://doi.org/10.1109/HIBIT.2010.5478888","url":null,"abstract":"Protein tyrosine phosphatase 1B (PTP1B) is a negative regulator of insulin and leptin signaling, and is therefore a major molecular target for the treatment of type II diabetes and obesity. WPD loop is a key element in the mechanism of PTP1B catalysis. In the apo form, WPD loop is usually in an “open” conformation, whereas it closes over the active site upon substrate binding. Here, targeted molecular dynamics (TMD) simulations are reported to examine the transition of the WPD loop from the open to closed states as well as the effect of this motion on the PTP1B conformational activation mechanism. Our results indicate that WPD loop motion is described by some residue-residue interactions between the WPD loop and the active site and the changes of some WPD loop dihedral angles. Trp179 side chain dihedral angle changes gradually during the simulation, while Asp181 backbone dihedral angle makes a jump to the end of the simulation. The formation of hydrogen bonds between Trp-179 and Asp-181 with Arg-221 is observed to mediate the closure of WPD loop. Elucidating the detailed mechanism of PTP1B conformational activation will guide future drug design efforts toward type II diabetes and obesity.","PeriodicalId":215457,"journal":{"name":"2010 5th International Symposium on Health Informatics and Bioinformatics","volume":"15 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"115142580","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Combination of conventional regularization methods and genetic algorithm for solving the inverse problem of electrocardiography 结合传统正则化方法与遗传算法求解心电图逆问题

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478914

Sedat Sarikaya, G. Weber, Yesim Serinagaoglu Dogrusöz

{"title":"Combination of conventional regularization methods and genetic algorithm for solving the inverse problem of electrocardiography","authors":"Sedat Sarikaya, G. Weber, Yesim Serinagaoglu Dogrusöz","doi":"10.1109/HIBIT.2010.5478914","DOIUrl":"https://doi.org/10.1109/HIBIT.2010.5478914","url":null,"abstract":"Distribution of electrical potentials over the surface of the heart, which is called the epicardial potential distribution, is a valuable tool to understand whether there is a defect in the heart. Direct measurement of these potentials requires highly invasive procedures. An alternative is to reconstruct these epicardial potentials non-invasively from the body surface potentials, which constitutes one form of the ill-posed inverse problem of electrocardiography (ECG). The goal of this study is to solve the inverse problem of ECG using several regularization methods and compare their performances. We employed Tikhonov Regularization, Truncated Singular Value Decomposition (TSVD), Least Squares QR (LSQR) methods in this study. We compared the effectiveness of these regularization methods to solve the ill-posed inverse ECG problem. Some of the regularization methods require a regularization parameter to solve the inverse problem. We used the well-known L-Curve method to obtain the regularization parameter. The performance of the regularization methods for solving the inverse ECG problem was also evaluated based on a realistic heart-torso model simulation protocol. In this paper, we also investigated the usage of genetic algorithm (GA) for regularizing the ill-posed inverse ECG problem. The results showed that GA can be applied to regularize the ill-posed problem when combined with the results of conventional regularization methods or additional information about solutions.","PeriodicalId":215457,"journal":{"name":"2010 5th International Symposium on Health Informatics and Bioinformatics","volume":"110 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2010-04-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"117210202","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Classification of normal and abnormal respiration patterns using flow volume curve and neural network 利用流量曲线和神经网络对正常和异常呼吸模式进行分类

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478898

S. Jafari, H. Arabalibeik, K. Agin

引用次数: 24

Interaction prediction of PDZ domains using a machine learning approach 使用机器学习方法的PDZ域交互预测

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478896

Sibel Kalyoncu, O. Keskin, A. Gursoy

引用次数: 0

Multiple sequence alignment based on structural properties 基于结构性质的多序列比对

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478910

Bugra Ozer, Gizem Gezici, Cem Meydan, U. Sezerman

引用次数: 4

Stochastic simulation of large biochemical systems by approximate Gillespie algorithm 基于近似Gillespie算法的大型生化系统随机模拟

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478883

V. Purutçuoğlu

引用次数: 0

Application of shape analysis on renal tumors in 3D 三维形态分析在肾脏肿瘤中的应用

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478889

S. Giebel, J. Schiltz, J. Schenk

引用次数: 1

Relative protein quantitation with post translational modifications in mass spectrometry based proteomics 基于质谱的蛋白质组学中翻译后修饰的相对蛋白质定量

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478886

J. Allmer

引用次数: 0

Using amino acid typing to improve the accuracy of NMR structure based assignments 利用氨基酸分型提高核磁共振结构分配的准确性

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478879

H. Erdogan, M. Apaydin

引用次数: 2

Coupling between energy and residue position fluctuations in native proteins 天然蛋白质中能量和残基位置波动之间的耦合

2010 5th International Symposium on Health Informatics and Bioinformatics Pub Date : 2010-04-20 DOI: 10.1109/HIBIT.2010.5478890

Mert Gur, B. Erman

引用次数: 0