2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)最新文献

Evolution of protein architectures inferred from phylogenomic analysis of CATH 从CATH的系统基因组分析推断蛋白质结构的进化

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-12-27 DOI: 10.1109/BIBMW.2011.6112548

S. A. Bukhari, G. Caetano-Anollés

{"title":"Evolution of protein architectures inferred from phylogenomic analysis of CATH","authors":"S. A. Bukhari, G. Caetano-Anollés","doi":"10.1109/BIBMW.2011.6112548","DOIUrl":"https://doi.org/10.1109/BIBMW.2011.6112548","url":null,"abstract":"Protein architecture refers to similar secondary structural arrangements irrespective of their connectivity. Here we aim to explore the evolution of protein architectures by benchmarking CATH and SCOP annotations. For example, we explore the appearance and diversification of protein architectures such as sandwiches, bundles, barrels, solenoids, ribbons, trefoils, prisms and propellers. Structural phylogenies generated at CATH “A”, “T” and “H” levels of structural abstraction revealed patterns of reductive evolution and three epochs in the evolution of protein world. Although CATH and SCOP differ significantly in their protein domain definitions and in the hierarchical partitioning of fold space, our findings strongly support the fact that both protein structural classification systems classify a protein on a very similar theoretical basis by taking into account their structural, functional and evolutionary roles. The tree of “A” showed that the 3-layer (aba) sandwich (3.40), the orthogonal bundle (1.10) and the alpha-beta complex (3.90) harbor simple secondary structure arrangements that are the most ancient, popular and abundant architectures in the protein world.","PeriodicalId":6345,"journal":{"name":"2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)","volume":"132 12 1","pages":"1029-1031"},"PeriodicalIF":0.0,"publicationDate":"2011-12-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79621961","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: 1

Hierarchical modeling of alternative exon usage associations with survival 替代外显子使用与生存关联的分层建模

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-12-27 DOI: 10.1109/BIBMW.2011.6112528

Ahmed Sadeque, N. Serao, B. Southey, Zeeshan Fazal, S. Rodriguez-Zas

引用次数: 1

3D point cloud sensors for low-cost medical in-situ visualization 用于低成本医疗现场可视化的三维点云传感器

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-12-27 DOI: 10.1109/BIBMW.2011.6112435

Alessio Pierluigi Placitelli, Luigi Gallo

引用次数: 11

A computer aided for image processing of computed tomography in hepatocellular carcinoma 一种用于肝细胞癌ct图像处理的计算机辅助系统

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBMW.2011.6112513

W. Hsu, J. Yeh, Yi-Chung Chang, M. Lo, Yi-Hsien Lin

{"title":"A computer aided for image processing of computed tomography in hepatocellular carcinoma","authors":"W. Hsu, J. Yeh, Yi-Chung Chang, M. Lo, Yi-Hsien Lin","doi":"10.1109/BIBMW.2011.6112513","DOIUrl":"https://doi.org/10.1109/BIBMW.2011.6112513","url":null,"abstract":"Low contrast to noise ratio (CNR) of unenhanced computed tomography (CT) is sometimes hard to visualize by the clinical practice. In order to assist the clinical diagnosis, a computer aided for unenhanced CT image processing is introduced in detection of hepatocellular carcinoma (HCC). This study utilized the stochastic resonance (SR) filter by adjusting localized threshold range with adding random noise for enhancing the region of interest (ROI). The quantitative measurement by using the measure of enhancement or measure of improvement (EME) is applied on the series of original and enhanced images. The value of mean and standard deviation of EME values is 2.652 ± 2.167 for the original images and 6.260 ± 1.206 for enhanced images. Then k-mean clustering method played the role based on the cluster analysis with the nearest mean for the local segmentation. The diagnostic check for determining the number of clusters on each enhanced images is important for getting a better result. In fact, K = 10 is more appropriate for the data sets of enhanced images. Finally, the image fusion process is involved two sets of data, enhanced and post-processed of enhanced and clustering information, to provide relevant information. Using the T = 0.45 as the threshold value applied on clustering and enhanced images eliminates the stronger intensity of pixels. Though those processes, the unenhanced information could be extracted out as the reference information for the clinical diagnosis. HCC was well isolated on processed images. Our results demonstrated the utilization of the computer aided for image processing of CT images might help to detect the HCC.","PeriodicalId":6345,"journal":{"name":"2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW)","volume":"69 1","pages":"942-944"},"PeriodicalIF":0.0,"publicationDate":"2011-11-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"74270930","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: 4

Research on data mining methods for organoleptic determination of Amomum villosum product 砂仁产品感官测定的数据挖掘方法研究

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBMW.2011.6112489

Zhao Wen-guang, Yu Chao-fan, Zhan Ruo-ting, H. Rui

引用次数: 4

3D Neuron Tip Detection in Volumetric Microscopy Images 三维神经元尖端检测在体积显微镜图像

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBM.2011.126

Min Liu, Hanchuan Peng, A. Roy-Chowdhury, E. Myers

引用次数: 27

Diagnostic Classification of Digital Mammograms by Wavelet-Based Spectral Tools: A Comparative Study 基于小波的光谱工具对数字乳房x线照片诊断分类的比较研究

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBM.2011.44

Erin K. Hamilton, Seonghye Jeon, Pepa Ramírez-Cobo, K. Lee, B. Vidakovic

引用次数: 13

Encoding protein structure with functions on graphs 用图上的函数编码蛋白质结构

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBMW.2011.6112396

Promita Bose, Xiaxia Yu, R. Harrison

引用次数: 18

Exploring the biological basis of deficiency pattern in rheumatoid arthritis through text mining 通过文本挖掘探讨类风湿关节炎虚证的生物学基础

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBMW.2011.6112477

Guang Zheng, M. Jiang, Cheng Lu, Hongtao Guo, Junping Zhan, A. Lu

引用次数: 15

Bio-signal procssor platform system for array sensors 阵列传感器的生物信号处理平台系统

2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops (BIBMW) Pub Date : 2011-11-12 DOI: 10.1109/BIBMW.2011.6112497

Donghoon Lee, Seungpyo Jung, Youngju Park, Jingzhe Xu, Jusung Park

引用次数: 1