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2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro最新文献

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Exact reconstruction formula for diffuse optical tomography using simultaneous sparse representation 同时稀疏表示的漫射光学层析成像精确重建公式
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541323
J. C. Ye, Su Yeon Lee, Y. Bresler
Diffuse optical tomography (DOT) is a sensitive and relatively low cost imaging modality. However, the inverse problem of reconstructing optical parameters from scattered light measurements is highly nonlinear due to the nonlinear coupling between the optical coefficients and the photon flux in the diffusion equation. Even though nonlinear iterative methods have been commonly used, such iterative processes are computationally expensive especially for the three dimensional imaging scenario with massive number of detector elements. The main contribution of this paper is a novel non-iterative and exact inversion algorithm when the optical inhomogeneities are sparsely distributed. We show that the problem can be converted into simultaneous sparse representation problem with multiple measurement vectors from compressed sensing framework. The exact reconstruction formula is obtained using simultaneous orthogonal matching pursuit (S-OMP) and a simple two step approach without ever calculating the diffusion equation. Simulation results also confirm our theory.
漫射光学层析成像(DOT)是一种灵敏度高、成本相对较低的成像方式。然而,由于光学系数与扩散方程中光子通量之间的非线性耦合,散射光测量反演光学参数的反演问题是高度非线性的。尽管非线性迭代方法已经被广泛使用,但这种迭代过程的计算成本很高,特别是对于具有大量探测器元素的三维成像场景。本文的主要贡献是在稀疏分布的光学非均匀性条件下提出了一种新的非迭代精确反演算法。我们证明了该问题可以转化为压缩感知框架中多个测量向量的同时稀疏表示问题。在不计算扩散方程的情况下,采用同时正交匹配追踪(S-OMP)和简单的两步法得到了精确的重建公式。仿真结果也证实了我们的理论。
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引用次数: 23
Texture analysis of 3D bladder cancer CT images for improving radiotherapy planning 三维膀胱癌CT图像纹理分析对放疗规划的指导意义
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541080
W. Nailon, A. Redpath, D. McLaren
At present no single texture analysis approach can provide automatic classification to the accuracy required for radiotherapy applications. The method presented was developed to classify areas within the gross tumor volume (GTV), and other clinically relevant regions, on computerized tomography (CT) images. For eight bladder cancer patients, CT information was acquired at the radiotherapy planning stage and thereafter at regular intervals during treatment. Textural features (N=27) were calculated on regions extracted within the bladder, rectum and a region identified as clinically relevant. The sequential forward search (SFS) method was used to reduce the feature set (N=3). The results demonstrate the significant sensitivity of the reduced feature set for classification of any orthogonal CT image and the potential of the approach for radiotherapy applications.
目前,没有单一的纹理分析方法可以提供放射治疗应用所需的自动分类精度。提出的方法是为了在计算机断层扫描(CT)图像上对总肿瘤体积(GTV)内的区域和其他临床相关区域进行分类。8例膀胱癌患者在放疗计划阶段及治疗期间定期获取CT信息。对膀胱、直肠内提取的区域和确定为临床相关的区域计算纹理特征(N=27)。采用顺序前向搜索(SFS)方法对特征集进行约简(N=3)。结果表明,对于任何正交CT图像的分类,简化的特征集具有显著的敏感性,并且该方法具有放射治疗应用的潜力。
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引用次数: 5
Innovation modelling and wavelet analysis of fractal processes in bio-imaging 生物成像中分形过程的创新建模与小波分析
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541293
P. D. Tafti, D. Ville, M. Unser
Growth and form in biology are often associated with some level of fractality. Fractal characteristics have also been noted in a number of imaging modalities. These observations make fractal modelling relevant in the context of bio-imaging. In this paper, we introduce a simple and yet rigorous innovation model for multi-dimensional fractional Brownian motion (fBm) and provide the computational tools for the analysis of such processes in a multi-resolution framework. The key point is that these processes can be whitened by application of the appropriate fractional Lapla-cian operator which has a corresponding polyharmonic wavelet. We examine the case of MRI and mammography images through comparison with theoretical results, which underline the suitability of fractal models in the study of bio-textures.
生物学中的生长和形态通常与某种程度的分形有关。在许多成像方式中也注意到分形特征。这些观察结果使得分形建模与生物成像相关。本文介绍了一个简单而严谨的多维分数布朗运动(fBm)创新模型,并提供了在多分辨率框架下分析这一过程的计算工具。关键是这些过程可以通过适当的分数阶拉普拉斯算子进行白化,该算子具有相应的多谐小波。我们通过与理论结果的比较来研究MRI和乳房x线摄影图像的情况,这强调了分形模型在生物纹理研究中的适用性。
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引用次数: 5
Automated segmentation of thoracic aorta in non-contrast CT images 非对比CT图像中胸主动脉的自动分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540924
U. Kurkure, Olga C. Avila-Montes, I. Kakadiaris
Aortic calcification has been shown to be related to cardiovascular disease. In this paper, we present a novel method for localization and segmentation of thoracic aorta in non- contrast CT images using dynamic programming concepts to detect and quantify aortic calcium. The localization and segmentation of the aorta are formulated as optimal path detection problems, which are solved using dynamic programming principles. We apply these methods on Hough space for aorta localization and a transformed polar coordinate space for aorta segmentation. We evaluate the proposed approach by comparing it with the manual annotations in terms of aorta location, boundary distance, and volume overlap.
主动脉钙化已被证明与心血管疾病有关。在本文中,我们提出了一种在非对比CT图像中使用动态规划概念来检测和量化主动脉钙的新方法。将主动脉的定位和分割问题表述为最优路径检测问题,利用动态规划原理求解。我们将这些方法应用于霍夫空间进行主动脉定位,并将变换后的极坐标空间用于主动脉分割。在主动脉位置、边界距离和体积重叠方面,我们将该方法与手动注释进行比较,以评估该方法。
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引用次数: 47
Model-based registration to correct for motion between acquisitions in diffusion MR imaging 基于模型的配准校正弥散磁共振成像中获取之间的运动
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541154
Yu Bai, D. Alexander
In diffusion tensor MRI, a number of diffusion-weighted images with different diffusion-weighting gradient directions are acquired during scanning. The tensor calculation assumes that each voxel corresponds to the same anatomical location in all the measurements. Movements and distortions violate this assumption and typically the images are realigned before model fitting. The traditional method uses a non-diffusion- weighted image as the reference for registration, but the differences between diffusion-weighted images and the non- diffusion weighted reference image can cause mismatching to occur during registration, even using metrics like the mutual information (MI) that accounts for non-linear contrast differences. We propose alternative model-based methods to improve motion correction and avoid the errors that the traditional method introduces. We demonstrate quantitative improvements using the new approaches on a full data with slight, but typical, movement during acquisition.
在弥散张量MRI中,扫描过程中会获得许多具有不同弥散加权梯度方向的弥散加权图像。张量计算假设每个体素对应于所有测量中的相同解剖位置。运动和扭曲违反了这一假设,通常图像在模型拟合之前被重新排列。传统方法使用非扩散加权图像作为配准参考,但扩散加权图像与非扩散加权参考图像之间的差异可能导致配准过程中出现不匹配,即使使用互信息(MI)等指标来解释非线性对比度差异。我们提出了基于模型的替代方法来改进运动校正,避免传统方法引入的误差。我们在采集过程中使用新方法对具有轻微但典型的移动的完整数据进行了定量改进。
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引用次数: 53
Atlas based segmentation of white matter fiber bundles in DTMRI using fractional anisotropy and principal eigen vectors 利用分数各向异性和主特征向量对DTMRI白质纤维束进行基于图谱的分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541137
E. Davoodi-bojd, H. Soltanian-Zadeh
In this work, we develop an atlas based method for automatic segmentation of white matter fiber bundles. To this end, we propose a new method for registration of diffusion tensor (DT) images using DTI information which is also used in the fiber tracking process, and we also propose a strategy for segmenting the fiber bundles using the new registration method and a probabilistic white matter atlas. We apply the registration method to 13 real DTI data sets and evaluate the results by comparing the level of alignment of all fibers. Then, we use the proposed strategy to segment 10 major fiber bundles in one of the subjects. One of the advantages of such a method is the robustness of the results thanks to using prior knowledge. The segmented results can be used for comparing and evaluating other fiber bundle segmentation methods.
在这项工作中,我们开发了一种基于图谱的白质纤维束自动分割方法。为此,我们提出了一种利用DTI信息对光纤跟踪过程中的扩散张量(DT)图像进行配准的新方法,并提出了一种利用新的配准方法和概率白质图谱对光纤束进行分割的策略。我们将该配准方法应用于13个真实的DTI数据集,并通过比较所有纤维的对准水平来评估结果。然后,我们使用所提出的策略来分割其中一个受试者的10个主要纤维束。该方法的优点之一是由于使用了先验知识,结果具有鲁棒性。分割结果可用于比较和评价其他纤维束分割方法。
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引用次数: 5
Quantified brain asymmetry for age estimation of normal and AD/MCI subjects 量化脑不对称对正常和AD/MCI受试者年龄的估计
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541295
Leonid Teverovskiy, J. Becker, O. Lopez, Yanxi Liu
We propose a quantified asymmetry based method for age estimation. Our method uses machine learning to discover automatically the most discriminative asymmetry feature set from different brain regions and image scales. Applying this regression model on a Tl MR brain image set of 246 healthy individuals (121 females; 125 males, 66 plusmn 7.5 years old), we achieve a mean absolute error of 5.4 years and a mean signed error of -0.2 years for age estimation on unseen MR images using the stringent leave-15%-out cross validation. Our results show significant changes in asymmetry with aging in the following regions: the posterior horns of the lateral ventricles, the amygdala, the ventral putamen with a nearby region of the anterior inferior caudate nucleus, the basal fore- brain, hyppocampus and parahyppocampal regions. We confirm the validity of the age estimation model using permutation test on 30 replicas of the original dataset with randomly permuted ages (with p-value < 0.001). Furthermore, we apply this model to a separate set of MR images containing normal, Alzheimer's disease (AD) and mild cognitive impairment (MCI) subjects. Our results reflect the relative severity of brain pathology between the three subject groups: mean signed age estimation error is 0.6 years for normal controls, 2.2 years for MCI patients, and 4.7 years for AD patients.
我们提出了一种量化的基于非对称性的年龄估计方法。我们的方法使用机器学习从不同的大脑区域和图像尺度中自动发现最具判别性的不对称特征集。将该回归模型应用于246例健康个体(121例女性;125名男性,66 + 7.5岁),我们使用严格的留15%交叉验证,对未见过的MR图像进行年龄估计,实现了平均绝对误差5.4岁和平均符号误差-0.2岁。结果显示,侧脑室后角、杏仁核、壳核腹侧及尾状核下前部附近区域、基底前脑、下丘脑和下丘脑旁区域的不对称性随着年龄的增长而发生显著变化。我们对原始数据集随机排列的30个副本(p值< 0.001)进行排列检验,证实了年龄估计模型的有效性。此外,我们将该模型应用于一组单独的MR图像,其中包括正常、阿尔茨海默病(AD)和轻度认知障碍(MCI)受试者。我们的结果反映了三组受试者之间脑病理的相对严重程度:正常对照组的平均签名年龄估计误差为0.6岁,MCI患者为2.2岁,AD患者为4.7岁。
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引用次数: 10
Morphological-based adaptive segmentation and quantification of cell assays in high content screening 高含量筛选中基于形态学的自适应细胞分割和定量分析
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541007
J. Angulo, B. Schaack
In fluorescence-labelled cell assays for high content screening applications, image processing software is necessary to have automatic algorithms for segmenting the cells individually and for quantifying their intensities, size/shape parameters, etc. Mathematical morphology is a non-linear image processing technique which is proven to be a very powerful tool in biomedical microscopy image analysis. This paper presents a morphological methodology based on connected filters, watershed transformation and granulometries for segmenting cells of different size, contrast, etc. In particular, the performance of the algorithms is illustrated with cell images from a toxicity assay in three-labels (Hoechst, EGFP, Phalloi'din) on nanodrops cell-on-chip format.
在用于高含量筛选应用的荧光标记细胞分析中,图像处理软件必须具有自动算法,用于单独分割细胞并量化其强度,大小/形状参数等。数学形态学是一种非线性图像处理技术,已被证明是生物医学显微图像分析的有力工具。本文提出了一种基于连通滤波器、分水岭变换和粒度测量的形态学方法,用于分割不同大小、对比度等的细胞。特别是,算法的性能用纳米滴细胞片上格式的三标签(Hoechst, EGFP, Phalloi'din)毒性试验的细胞图像来说明。
{"title":"Morphological-based adaptive segmentation and quantification of cell assays in high content screening","authors":"J. Angulo, B. Schaack","doi":"10.1109/ISBI.2008.4541007","DOIUrl":"https://doi.org/10.1109/ISBI.2008.4541007","url":null,"abstract":"In fluorescence-labelled cell assays for high content screening applications, image processing software is necessary to have automatic algorithms for segmenting the cells individually and for quantifying their intensities, size/shape parameters, etc. Mathematical morphology is a non-linear image processing technique which is proven to be a very powerful tool in biomedical microscopy image analysis. This paper presents a morphological methodology based on connected filters, watershed transformation and granulometries for segmenting cells of different size, contrast, etc. In particular, the performance of the algorithms is illustrated with cell images from a toxicity assay in three-labels (Hoechst, EGFP, Phalloi'din) on nanodrops cell-on-chip format.","PeriodicalId":184204,"journal":{"name":"2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro","volume":"23 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"123625214","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: 9
Locally adaptive fuzzy pulmonary vessel segmentation in contrast enhanced CT data 增强CT数据局部自适应模糊肺血管分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540942
J. Kaftan, A. Bakai, M. Das, T. Aach
Pulmonary vascular tree segmentation is the fundamental basis for different applications, such as the detection and visualization of pulmonary emboli (PE). Such an application requires an accurate and reliable segmentation of pulmonary vessels with varying diameters. We present a novel fuzzy approach to pulmonary vessel segmentation in contrast enhanced computed tomography (CT) data that considers a radius estimate of the current vessel to adapt the segmentation parameters. Hence, our method allows to capture even vessels with small diameters while suppressing leakage into surrounding structures in close proximity of vessels with large diameters. The method has been evaluated on different chest CT scans of patients referred for PE and demonstrates promising results. For quantitative validation, randomly selected sub-volumes that have been semi-automatically segmented by a medical expert have been used as reference to compare the locally adaptive method against the same method with global parameters.
肺血管树分割是肺栓塞(PE)检测和可视化等不同应用的基础。这种应用需要对不同直径的肺血管进行准确可靠的分割。我们提出了一种新的模糊方法,在对比增强计算机断层扫描(CT)数据中进行肺血管分割,该方法考虑了当前血管的半径估计来适应分割参数。因此,我们的方法可以捕获小直径的血管,同时抑制泄漏到大直径血管附近的周围结构。该方法已被评估在不同的胸部CT扫描的病人转介PE和显示有希望的结果。为了进行定量验证,随机选择由医学专家半自动分割的子卷作为参考,将局部自适应方法与具有全局参数的相同方法进行比较。
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引用次数: 16
AutoMPR: Automatic detection of standard planes in 3D echocardiography AutoMPR:三维超声心动图中标准平面的自动检测
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541237
Xiaoguang Lu, B. Georgescu, Yefeng Zheng, Joanne Otsuki, D. Comaniciu
3D echocardiography is one of the emerging real-time imaging modalities that is increasingly used in clinical practice to assess cardiac functions. It provides a more complete heart representation for evaluation in comparison to conventional 2D echocardiography. However, one of the drawbacks is the time it takes clinicians to navigate the 3D volumes to the anatomy of interest and to obtain standardized views that are similar to the 2D acquisitions. We propose an automated supervised learning method to detect standard multiplanar reformatted planes (MPRs) from a 3D echocardiographic volume. Extensive evaluations on a database of 326 volumes show performance comparable to intra-user variability and the execution time of the algorithm is about 2 seconds.
三维超声心动图是一种新兴的实时成像方式,在临床实践中越来越多地用于评估心功能。与传统的二维超声心动图相比,它提供了更完整的心脏表征。然而,其中一个缺点是临床医生需要花费时间来导航3D体积到感兴趣的解剖结构,并获得类似于2D采集的标准化视图。我们提出了一种自动监督学习方法,用于从三维超声心动图容积中检测标准多平面重构平面(MPRs)。对326个卷的数据库进行广泛的评估表明,该算法的性能与用户内部的可变性相当,执行时间约为2秒。
{"title":"AutoMPR: Automatic detection of standard planes in 3D echocardiography","authors":"Xiaoguang Lu, B. Georgescu, Yefeng Zheng, Joanne Otsuki, D. Comaniciu","doi":"10.1109/ISBI.2008.4541237","DOIUrl":"https://doi.org/10.1109/ISBI.2008.4541237","url":null,"abstract":"3D echocardiography is one of the emerging real-time imaging modalities that is increasingly used in clinical practice to assess cardiac functions. It provides a more complete heart representation for evaluation in comparison to conventional 2D echocardiography. However, one of the drawbacks is the time it takes clinicians to navigate the 3D volumes to the anatomy of interest and to obtain standardized views that are similar to the 2D acquisitions. We propose an automated supervised learning method to detect standard multiplanar reformatted planes (MPRs) from a 3D echocardiographic volume. Extensive evaluations on a database of 326 volumes show performance comparable to intra-user variability and the execution time of the algorithm is about 2 seconds.","PeriodicalId":184204,"journal":{"name":"2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro","volume":"46 1","pages":"0"},"PeriodicalIF":0.0,"publicationDate":"2008-05-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"124465973","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: 33
期刊
2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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