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2009 2nd International Conference on Biomedical Engineering and Informatics最新文献

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Physical Properties of LYSO Scintillator for NN-PET Detectors 用于NN-PET探测器的LYSO闪烁体的物理性质
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305107
Junwei Du, Yonggang Wang, Lijun Zhang, Zhong-qiu Zhou, Zizhong Xu, Xiaolian Wang
Cerium doped lutetium oxyorthosilicate scintillators, such as LYSO, which possess high stopping power, high light output and fast decay time, are promising candidates for use in positron emission tomography. In this paper, the luminescence and nuclear spectroscopic properties of two LYSO samples, used in the NN-PET detectors, are studied. UV-excited emission spectra show that maximum emission spectral values are within the range of 400-425nm, which is well compatible with spectral response of PMT H7546B. The decay time, energy resolution, light output and energy spectra related to coincidence time window were investigated. The decay times of the two LYSO samples are 34.16±1.43ns, 34.26±1.95ns, respectively. The energy resolution and the light output, relative to NaI(Tl), are 10.25%±0.06%, 10.17%±0.10% and 75.3±5.7, 76.1±5.8 respectively when detected with PMT XP2262B. The energy spectra change obviously with coincidence time window and coincidence energy resolution is 14% when obtained using coincidence detector based on LYSO and H7546B. Keywords-LYSO;Decay time;Energy resolution;Light output; Energy spectra;
掺杂铈的氧化硅酸镥闪烁体,如LYSO,具有高阻挡功率,高光输出和快速衰减时间,是正电子发射断层成像的有希望的候选者。本文研究了用于NN-PET探测器的两种LYSO样品的发光和核光谱特性。紫外激发发射光谱显示,PMT H7546B的最大发射光谱值在400 ~ 425nm范围内,与PMT H7546B的光谱响应吻合较好。研究了衰减时间、能量分辨率、光输出和与符合时间窗相关的能谱。两种LYSO样品的衰减时间分别为34.16±1.43ns、34.26±1.95ns。用PMT XP2262B检测时,相对于NaI(Tl)的能量分辨率和光输出分别为10.25%±0.06%、10.17%±0.10%和75.3±5.7、76.1±5.8。采用LYSO和H7546B型符合检测器获得的能谱随符合时间窗变化明显,符合能量分辨率为14%。衰减时间;能量分辨率;光输出;能量谱;
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引用次数: 17
Epithelial Tissue Abnormity Analysis Based on Single Backscattering Polarimetric Spectrum 基于单次后向散射偏振光谱的上皮组织异常分析
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305339
Yongqiang Zhao, PeiFeng Wei
The pathological changes of skin will change the tissue's birefringence and structure, which can be measured by the polarization and spectral changes of tissue's scattering light. Light-scattering polarimetric spectrum is an effective tool to measure these features for quantitative pathology analysis. In this paper, a theoretical model of single backscattering spectra based on Mie theory is established, to describe the polarized light scattering spectroscopy for a two-layered scattering medium. To test the utility of this model, an epithelial tissue polarimetric spectral imaging system is proposed, then human frostbite sample is imaged using the system. Proposed model is used to acquire the morphological parameters closely relating to the abnormality of biological tissue, including the mean diameter, size distribution and relative refractive index. Experimental results demonstrated the potentials of the proposed techniques in skin pathological diagnosis and treatment evaluation.
皮肤的病理变化会改变组织的双折射和结构,这可以通过组织散射光的偏振和光谱变化来测量。光散射偏振光谱是定量病理分析中测量这些特征的有效工具。本文建立了基于Mie理论的单后向散射光谱理论模型,用于描述双层散射介质的偏振光散射光谱。为了验证该模型的有效性,提出了一种上皮组织偏振光谱成像系统,并利用该系统对人体冻伤样本进行了成像。该模型用于获取与生物组织异常密切相关的形态学参数,包括平均直径、尺寸分布和相对折射率。实验结果证明了该技术在皮肤病理诊断和治疗评价方面的潜力。
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引用次数: 0
Prediction of Membrane Protein Types by Using Support Vector Machine Based on Composite Vector 基于复合向量的支持向量机预测膜蛋白类型
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305127
Ting Wang, Xiuzhen Hu
By using of the composite vector with increment of diversity and scoring function to express the information of sequence, a support vector machine (SVM) algorithm for predicting the eight types of membrane proteins is proposed. The overall jackknife success rate is 91.81% what is higher than other results. In order to evaluate the predictive method, the six types of membrane proteins are predicted by using our method. The better results are obtained.
利用多样性增量复合向量和评分函数表达序列信息,提出了一种预测8种膜蛋白的支持向量机算法。整体叠刀成功率为91.81%,高于其他结果。为了对预测方法进行评价,对6种膜蛋白进行了预测。取得了较好的效果。
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引用次数: 0
The Implementation and Application of the Microarray Preprocessing Generalized PDNN Model 微阵列预处理广义PDNN模型的实现与应用
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5302030
Wei Wei, Lin Wan, M. Qian, Minghua Deng
The preprocessing of the Microarray data is a hot topic in the bioinformatics research. The key point of a successful preprocessing method is to remove the noise of nonspecific binding and to keep the information of specific binding as much as possible. One way to solve these problems is to understand the principle of the binding between probes and target sequences, and to distinguish specific binding from nonspecific binding correctly. In this paper, we introduce MM probe intensities into position dependent nearest neighbor (PDNN) model, which contain much information of nonspecific binding.We use two-step model to estimate the parameters,which can simplify the computation. Based on the Wilcoxon rank test, we can determine whether a gene is present, with which we can obtain the training data set for the specific binding and non specific binding parameters. We also apply our model to gene expression data (HGU133plus2.0 and HGU133A) . We find that all these improvements increase the precision and stability, and show better result compared to the other four methods( Mas5.0, dChip, RMA and PDNN ).
微阵列数据预处理是生物信息学研究的热点。一种成功的预处理方法的关键是去除非特异性绑定的噪声,并尽可能地保留特异性绑定的信息。解决这些问题的途径之一是理解探针与靶序列的结合原理,正确区分特异性结合与非特异性结合。将MM探针强度引入到包含大量非特异性结合信息的位置依赖最近邻(PDNN)模型中。我们采用两步模型来估计参数,简化了计算。通过Wilcoxon秩检验,我们可以确定某个基因是否存在,从而获得特异性结合参数和非特异性结合参数的训练数据集。我们还将我们的模型应用于基因表达数据(HGU133plus2.0和HGU133A)。我们发现所有这些改进都提高了精度和稳定性,并且与其他四种方法(Mas5.0, dChip, RMA和PDNN)相比显示出更好的结果。
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引用次数: 1
The Experimental Study on Ocular Rigidity of Rabbit In Vivo 兔眼强直的体内实验研究
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305808
Weiyi Chen, Chunsheng Liu, Xiaojun Wang, Yanjun Li, Xiao-na Li, Lei Ma
Ocular rigidity is an important indicator describing the entirety elastic properties of the eyeball, which has a direct correlation with myopia and glaucoma. In this paper, how the intraocular pressures (IOP), central corneal thickness (CCT), and ages influenced ocular rigidity of New Zealand white rabbits was investigated. CCT and basic IOP were measured by the PachyMeter Echograph and Schiote Tonometer respectively. Dynamic relationship between IOP and volume of eye was measured by self-established test system. Our results showed that there was no difference between the ocular rigidity of both eyes in the same group rabbits. The ocular rigidity decreased with the increase of ages, while increased with the IOP. But CCT、initial IOP and Axial Length of the eye in four groups had no significant effects on ocular rigidity.
眼强直是描述眼球整体弹性特性的重要指标,与近视、青光眼有直接关系。本文研究了眼压(IOP)、角膜中央厚度(CCT)和年龄对新西兰大白兔眼强直的影响。分别用PachyMeter超声仪和Schiote眼压仪测量CCT和基本眼压。采用自建测试系统测量眼内压与眼体积的动态关系。我们的研究结果表明,在同一组家兔中,两只眼睛的眼强直没有差异。眼强直随年龄的增加而降低,随IOP的升高而升高。但四组患者的CCT、初始IOP和眼轴长对眼强直无显著影响。
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引用次数: 2
Analysis of Synonymous Codon Usage in the UL26.5 Gene of Duck Enteritis Virus 鸭肠炎病毒UL26.5基因同义密码子使用分析
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305044
Yao Zhang, A. Cheng, Mingshu Wang, Dekang Zhu, R. Jia, Fei Liu, Xiaoyue Chen
The analysis on codon usage bias of UL26.5 gene of duck enteritis virus (DEV) may provide a basis for understanding the evolution and pathogenesis of DEV and for selecting appropriate host expression systems to improve the expression of target genes in vivo and in vitro. In this study, the synonymous codon usage in the UL26.5 gene of DEV and 27 reference herpesviruses have been investigated . The results reveals that the synonymous codons with A and T at the third codon positon have widely usage in the codon of UL26.5 gene of DEV. G + C compositional constraint is the main factor that determines the codon usage bias in UL26.5 gene. The phylogentic analysis suggested that DEV was evolutionarily closer to fowl herpesviruses which further clustered into Alphaherpesvirinae. There were both 21 codons showing distinct usage differences between DEV with Escherichia coli and yeast, 25 between DEV and Homo sapiens, 26 between DEV and adenovirus. Therefore the yeast and E. coli expression system may be suitable for the expression of DEV UL26.5 gene if some codons could be optimized.
分析鸭肠炎病毒(DEV) UL26.5基因密码子使用偏向性,为了解DEV的进化和发病机制以及选择合适的宿主表达系统提高靶基因在体内和体外的表达提供依据。本研究对DEV和27种参比疱疹病毒UL26.5基因的同义密码子使用情况进行了研究。结果表明,在DEV的UL26.5基因密码子中,位于第三位的A和T的同义密码子被广泛使用,G + C组成约束是决定UL26.5基因密码子使用偏向的主要因素。系统发育分析表明,DEV在进化上更接近禽疱疹病毒,后者进一步聚类到甲疱疹病毒科。共有21个密码子与大肠杆菌和酵母菌、25个密码子与智人、26个密码子与腺病毒存在明显的使用差异。因此,如果对某些密码子进行优化,酵母和大肠杆菌表达系统可能适合于DEV UL26.5基因的表达。
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引用次数: 7
Analytical System Based on Raman Spectroscopy in Melamine Detection 基于拉曼光谱的三聚氰胺检测分析系统
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305231
Hai-ling Xiao, Ru-gang Zhong, D. Zheng
People have paid close attention to melamine by Sanlu Event. Melamine, a widely used as an organic chemical in industry, was added in milk to increase the protein content. Obviously, traditional kjeldahl hasn't suitable to detect real protein content. Focusing on the milk with melamine in market, a rapid and easy method is necessary to meet the needs to detect melamine from the milk. In this study, the analytical system was developed by surface enhanced Raman spectrum (SERS) and portable Raman spectrometer, which had fast detecting and alarming functions. Firstly, Qualitative analysis method for detecting melamine in milk was found. And the peak 709cm -1 was used as the essential peak for qualitative analysis method. On the basis of that, quantitative method was further defined. The concentration of melamine in milk vs Ratio of 709cm -1 /1026cm -1 showed a good linear relationship when the standard concentration of melamine in milk within 3ppm to 10ppm. Detective limit of this method was 1ppm, and the quantization limit was 3ppm. Recovery was in 86% to 106% and satisfied the request of GB/T22388-2008 (80%- 110%). Analytical system was established for determination melamine in milk. Multiple functions were contained in this system. Detecting and result were completed rapidly by used analytical system on condition that the concentration of melamine within 3ppm to 10ppm. The red signal was displaying at concentration above 3ppm, and the green signal was giving at concentration below 3ppm.
三鹿事件引起了人们的高度关注。三聚氰胺是一种在工业中广泛使用的有机化学品,它被添加到牛奶中以增加蛋白质含量。显然,传统的凯氏定氮法已经不适合检测真实的蛋白质含量。针对市场上含有三聚氰胺的牛奶,需要一种快速简便的方法来满足牛奶中三聚氰胺的检测需求。本研究采用表面增强拉曼光谱(SERS)和便携式拉曼光谱仪开发了具有快速检测和报警功能的分析系统。首先,建立了检测牛奶中三聚氰胺的定性分析方法。以709cm -1峰为定性分析的基本峰。在此基础上,进一步定义了定量方法。牛奶中三聚氰胺的浓度与709cm -1 /1026cm -1的比值在牛奶中三聚氰胺的标准浓度在3ppm ~ 10ppm范围内呈良好的线性关系。该方法检测限为1ppm,量化限为3ppm。回收率为86% ~ 106%,符合GB/T22388-2008(80% ~ 110%)的要求。建立了牛奶中三聚氰胺的分析系统。该系统包含多种功能。在三聚氰胺浓度在3ppm ~ 10ppm范围内的条件下,利用所使用的分析系统快速完成检测和结果。当浓度高于3ppm时显示红色信号,当浓度低于3ppm时显示绿色信号。
{"title":"Analytical System Based on Raman Spectroscopy in Melamine Detection","authors":"Hai-ling Xiao, Ru-gang Zhong, D. Zheng","doi":"10.1109/BMEI.2009.5305231","DOIUrl":"https://doi.org/10.1109/BMEI.2009.5305231","url":null,"abstract":"People have paid close attention to melamine by Sanlu Event. Melamine, a widely used as an organic chemical in industry, was added in milk to increase the protein content. Obviously, traditional kjeldahl hasn't suitable to detect real protein content. Focusing on the milk with melamine in market, a rapid and easy method is necessary to meet the needs to detect melamine from the milk. In this study, the analytical system was developed by surface enhanced Raman spectrum (SERS) and portable Raman spectrometer, which had fast detecting and alarming functions. Firstly, Qualitative analysis method for detecting melamine in milk was found. And the peak 709cm -1 was used as the essential peak for qualitative analysis method. On the basis of that, quantitative method was further defined. The concentration of melamine in milk vs Ratio of 709cm -1 /1026cm -1 showed a good linear relationship when the standard concentration of melamine in milk within 3ppm to 10ppm. Detective limit of this method was 1ppm, and the quantization limit was 3ppm. Recovery was in 86% to 106% and satisfied the request of GB/T22388-2008 (80%- 110%). Analytical system was established for determination melamine in milk. Multiple functions were contained in this system. Detecting and result were completed rapidly by used analytical system on condition that the concentration of melamine within 3ppm to 10ppm. The red signal was displaying at concentration above 3ppm, and the green signal was giving at concentration below 3ppm.","PeriodicalId":6389,"journal":{"name":"2009 2nd International Conference on Biomedical Engineering and Informatics","volume":"90 1","pages":"1-4"},"PeriodicalIF":0.0,"publicationDate":"2009-10-30","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"79751197","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
A Novel k'-Means Algorithm for Clustering Analysis 一种新的k′-均值聚类分析算法
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5304816
Chonglun Fang, Jinwen Ma
This paper proposes a novel k-means algorithm for clustering analysis for the cases that the true number of clusters in a data or points set is not known in advance. That is, assuming that the number of seed-points in the algorithm is set to be larger than the true number k of clusters in the data set, the proposed algorithm can assign the k seed-points to the actual clusters, respectively, with the extra seed-points corresponding to the empty clusters, i.e., having no winning points according to a newly defined distance. Via using the Mahalanobis distance, the proposed algorithm can be further extended to elliptical clustering analysis. It is demonstrated well by the experiments on simulated data set and the wine data that the proposed k- means algorithm can find the correct number of clusters in the sample data with a good correct classification rate. Moreover, the algorithm is successfully applied to unsupervised color image segmentation.
本文提出了一种新的k-means聚类分析算法,用于事先不知道数据或点集中的真实聚类数量的情况。即假设算法中种子点的个数大于数据集中簇的真实个数k,则算法可以将k个种子点分别分配给实际簇,多余的种子点对应于空簇,即根据新定义的距离没有获胜点。通过利用马氏距离,该算法可以进一步扩展到椭圆聚类分析。在模拟数据集和葡萄酒数据上的实验表明,所提出的k- means算法能够在样本数据中找到正确的簇数,并具有良好的正确分类率。此外,该算法还成功地应用于无监督彩色图像分割。
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引用次数: 9
An Integrated Cross-Database Search System for microRNA microRNA的集成跨数据库检索系统
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305536
Yijun Chen
MicroRNAs (miRNAs) are small noncoding RNA gene products. It is important in biology and biomedicine. The miRNA is closely related to human disease, in particular, such as cancer and tumor. We develop an information system for miRNA, which integrates a variety of existing miRNA information system on the market. The system offers as much information as possible; meanwhile it costs as less time as possible by using simultaneous processing technologies, and reduces information redundancy by knowledge discover mechanisms. A special mechanism is used to speed up the query. We collect miRNA links from existing key systems through search engine and obtain all miRNA information by these links. Then after removing noise and irrelevant ones, we extract and separate the useful information from them. After that, we synthesize and compose comprehensive information in accordance with the cache database. Finally, an effective and efficient integrated cross-database miRNA query system, as well as user friendly GUI, is provided. Key Words—bioinformatics, microRNA, miRNA, web service, query system
MicroRNAs (miRNAs)是小的非编码RNA基因产物。它在生物学和生物医学中具有重要意义。miRNA与人类疾病,特别是癌症和肿瘤密切相关。我们开发了一个miRNA信息系统,该系统集成了市场上现有的各种miRNA信息系统。该系统提供尽可能多的信息;同时,利用同步处理技术尽可能减少时间开销,利用知识发现机制减少信息冗余。使用一种特殊的机制来加快查询速度。我们通过搜索引擎从现有的关键系统中收集miRNA链接,并通过这些链接获取所有miRNA信息。然后在去除噪声和无关信息后,从中提取并分离出有用信息。然后,根据缓存数据库对综合信息进行综合合成。最后,给出了一个高效的集成跨数据库miRNA查询系统和友好的用户界面。关键词:生物信息学,microRNA, miRNA, web服务,查询系统
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引用次数: 2
A Hybrid System for Prediction of Protein Subcellular Localization 预测蛋白质亚细胞定位的杂交系统
Pub Date : 2009-10-30 DOI: 10.1109/BMEI.2009.5305500
Shu-Bo Zhang, J. Lai
Protein subcellular localization prediction is important to functional annotation of protein. In this study, a hybrid system based on the sorting mechanism of protein was proposed to predict protein subcellular localization. At first, an unknown protein sequence was divided into two sub-sequences at certain position, then features were extracted from them and combined into a fusion feature vector to describe the whole protein sequence. Secondly, an optimal sub-classifier was searched out to discriminate each kind of protein from the others through iterative searching strategy. Finally, all of the sub-classifiers were combined into a hybrid system to predict subcellular localization of unknown protein. Experimental results on two public datasets showed that our hybrid system is an effective way for the prediction of protein subcellular localization, and it has higher accuracy than others.
蛋白质亚细胞定位预测是蛋白质功能解释的重要内容。本研究提出了一种基于蛋白质分选机制的杂交系统来预测蛋白质亚细胞定位。首先,将未知蛋白质序列在特定位置划分为两个子序列,然后从中提取特征并组合成一个融合特征向量来描述整个蛋白质序列。其次,通过迭代搜索策略,找出最优子分类器,将每种蛋白质与其他蛋白质区分开来;最后,将所有的亚分类器组合成一个杂交系统来预测未知蛋白的亚细胞定位。在两个公开数据集上的实验结果表明,该混合系统是一种有效的蛋白质亚细胞定位预测方法,具有较高的准确性。
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引用次数: 0
期刊
2009 2nd International Conference on Biomedical Engineering and Informatics
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