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2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro最新文献

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Localizing the dermis/epidermis boundary in reflectance confocal microscopy images with a hybrid classification algorithm 基于混合分类算法的反射共聚焦显微图像真皮/表皮边界定位
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193308
Sila Kurugol, Jennifer G. Dy, M. Rajadhyaksha, D. Brooks
Confocal reflectance microscopy is an emerging modality, for dermatology applications, especially for in-situ and bedside detection of skin cancers. As this technology gains acceptance, automated processing methods become increasingly important to develop. Since the dominant internal feature of the skin is the epidermis/dermis boundary, it has been chosen as the initial target for this development. This boundary is a complex corrugated 3D layer marked by optically subtle changes and features. Indeed, even trained clinicians in an attempt at validation of our early work, were unable to precisely and reliably locate the boundary within optical resolution. Thus here we propose to detect two boundaries, a lower boundary for the epidermis and an upper boundary for the dermis thus trapping the epidermis/dermis boundary. We use a novel combined segmentation/classification approach applied to z-sequences of tiles in the 3D stack. The approach employs a sequential classification on texture features, selected via on-line feature selection, to minimize the labeling required and to cope with high inter- and intra-subject variability and low optical contrast. Initial results indicate the ability of our approach to find these two boundaries successfully for most of the z-sequences from the stack.
共聚焦反射显微镜是一种新兴的方式,用于皮肤科应用,特别是在现场和床边检测皮肤癌。随着这项技术的普及,自动化处理方法的发展变得越来越重要。由于皮肤的主要内部特征是表皮/真皮层边界,因此它已被选为该发展的初始目标。这个边界是一个复杂的波纹三维层,以光学微妙的变化和特征为标志。事实上,即使是训练有素的临床医生在尝试验证我们的早期工作时,也无法在光学分辨率内精确可靠地定位边界。因此,我们建议检测两个边界,表皮的下边界和真皮的上边界,从而捕获表皮/真皮边界。我们使用了一种新的组合分割/分类方法,应用于3D堆栈中的z序列瓷砖。该方法通过在线特征选择对纹理特征进行顺序分类,以最大限度地减少所需的标记,并应对主体间和主体内的高度可变性和低光学对比度。初步结果表明,我们的方法能够从堆栈中成功地找到这两个边界。
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引用次数: 7
CT image construction of the lung in a totally deflated mode 全放气模式下肺的CT图像构建
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193113
A. Sadeghi-Naini, Rajnikant V. Patel, A. Samani
A novel technique is proposed to construct CT images of the lung in a totally deflated mode using non-rigid registration and extrapolation. This CT image would be very useful in performing tumor ablative procedures (such as brachytherapy) for the treatment of lung cancer. This is because during such procedures the target lung is almost completely deflated whereas pre-operative images are acquired while the lung is partially inflated. This makes pre-operative images very inaccurate. Given that Ultrasound (US) imaging is very sensitive to residual air in a deflated lung, it is not an effective intra-operative imaging modality by itself. One possible approach for image guided lung brachytherapy is registering low quality intra-operative ultrasound images to high quality lung CT image of the deflated lung constructed using the proposed technique. The technique was applied to an ex-vivo porcine lung and the preliminary results were found to be very encouraging.
提出了一种利用非刚性配准和外推法构建全放气模式肺CT图像的新方法。该CT图像对肺癌的肿瘤消融治疗(如近距离放射治疗)非常有用。这是因为在此过程中,靶肺几乎完全瘪了,而术前图像是在肺部分充气时获得的。这使得术前图像非常不准确。鉴于超声(US)成像对肺内残余空气非常敏感,它本身并不是一种有效的术中成像方式。图像引导肺近距离放射治疗的一种可能方法是将低质量的术中超声图像注册到使用该技术构建的高质量肺部CT图像。该技术已应用于离体猪肺,初步结果令人鼓舞。
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引用次数: 8
Tracking cell motion using GM-PHD 使用GM-PHD跟踪细胞运动
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193262
R. Juang, A. Levchenko, P. Burlina
We present a method for tracking the movement of multiple cells and their lineage. We use the Gaussian Mixture Probability Hypothesis Density (GM-PHD) filter, a multi-target tracking algorithm, to track the motion of multiple cells over time and to keep track of the lineage of cells as they spawn. We describe a spawning model for the GM-PHD filter as well as modifications to the original GM-PHD algorithm to track lineage. Experimental results are provided illustrating the approach for dense cell colonies.
我们提出了一种方法来跟踪运动的多个细胞和他们的血统。我们使用高斯混合概率假设密度(GM-PHD)滤波器,一种多目标跟踪算法,来跟踪多个细胞随时间的运动,并在细胞产生时跟踪细胞的谱系。我们描述了GM-PHD滤波器的产卵模型以及对原始GM-PHD算法的修改以跟踪血统。实验结果说明了该方法对密集细胞菌落的影响。
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引用次数: 44
Automatic extraction of the left atrial anatomy from MR for atrial fibrillation ablation 心房颤动消融的MR左房解剖结构自动提取
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193094
R. Karim, D. Rueckert, R. Mohiaddin, P. Drivas
This paper describes and evaluates methods to detect pulmonary vein drainages and create detailed vessel trees of each drainage from contrast-enhanced magnetic resonance angiography (MRA). This description of the drainage allow us to determine the highly complex left atrial anatomy in a qualitative and quantitative way. It is beneficial for planning atrial fibrillation ablation procedures. We conclude that our methods permit the creation of drainage trees for the detailed description of the atrial anatomy from cardiac MRA data.
本文描述和评估了检测肺静脉引流的方法,并通过对比增强磁共振血管造影(MRA)创建了每个引流的详细血管树。这种引流的描述使我们能够以定性和定量的方式确定高度复杂的左心房解剖。这对规划房颤消融手术是有益的。我们的结论是,我们的方法允许创建引流树,以便从心脏MRA数据中详细描述心房解剖结构。
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引用次数: 5
Automated detection of drusen in the macula 自动检测黄斑积水
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5192983
D. E. Freund, N. Bressler, P. Burlina
Age related macular degeneration (AMD) is a condition of the retina that occurs with individuals over 50. AMD is characterized by the formation of drusen in the macula. This condition leads to a deterioration of foveal vision and eventually functional blindness. Automatically screening atrisk individuals may allow the detection of intermediate stage AMD where it is still treatable using anti-VEGH therapy. One of the difficulties in detecting and locating drusen is that their aspect (shape, texture, color, extent) varies significantly, and because of this it is often difficult to build a classifier. To address this difficulty we use a two pronged approach based on (a) multiscale analysis and (b) kernel based anomaly detection. We show experimental results on examples of fundus images taken from healthy and affected patients.
年龄相关性黄斑变性(AMD)是一种视网膜疾病,发生在50岁以上的人群中。黄斑变性的特点是在黄斑处形成囊肿。这种情况导致中央凹视力恶化,最终导致功能性失明。自动筛选有风险的个体可能允许检测中期AMD,在那里它仍然可以使用抗vegh治疗。在检测和定位的困难之一是他们的方面(形状,纹理,颜色,范围)变化很大,因为这往往是很难建立一个分类器。为了解决这一困难,我们使用了基于(a)多尺度分析和(b)基于核的异常检测的双管齐下的方法。我们展示了从健康和受影响的患者眼底图像的例子的实验结果。
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引用次数: 57
Desiccation diagnosis in lumbar discs from clinical MRI with a probabilistic model 基于概率模型的临床MRI诊断腰椎间盘干燥
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193105
Raja' S. Alomari, Jason J. Corso, V. Chaudhary, G. Dhillon
Lumbar intervertebral disc diseases are among the main causes of lower back pain (LBP). Desiccation is a common disease resulting from various reasons and ultimately most people are affected by desiccation at some age. We propose a probabilistic model that incorporates intervertebral disc appearance and contextual information for automating the diagnosis of lumbar disc desiccation. We utilize a Gibbs distribution for processing localized lumbar intervertebral discs' appearance and contextual information. We use 55 clinical T2-weighted MRI for lumbar area and achieve over 96% accuracy on a cross validation experiment.
腰椎间盘疾病是导致腰痛的主要原因之一。干燥是一种由各种原因引起的常见病,最终大多数人都会在某个年龄段受到干燥的影响。我们提出了一个概率模型,该模型结合了椎间盘外观和上下文信息,用于自动诊断腰椎间盘干燥。我们利用吉布斯分布来处理局部腰椎间盘的外观和上下文信息。我们使用55个临床t2加权MRI检查腰椎区域,在交叉验证实验中达到96%以上的准确性。
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引用次数: 26
Characterizing time-intensity curves for spectral morphometric analysis of intratumoral enhancement patterns in breast DCE-MRI: Comparison between differentiation performance of temporal model parameters based on DFT and SVD 表征乳腺DCE-MRI肿瘤内增强模式的时间-强度曲线:基于DFT和SVD的时间模型参数分化性能的比较
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5192984
Sang Ho Lee, Jong Hyo Kim, J. Park, Y. Jung, W. Moon
This study was designed to characterize the spatio-temporal properties of intratumoral enhancement patterns by using voxel-wise temporal enhancement spectra and morphometry of their spatial distributions in dynamic contrast-enhanced (DCE) breast MRI. Discrete Fourier transformation (DFT) and singular value decomposition (SVD) were used to extract the temporal enhancement features for comparison, generating 4D spectral maps. The spatial variations of DFT and SVD-based eigen spectra within tumor were captured by 3D moment descriptors, respectively. Differentiation between benign and malignant tumors was carried out using least squares support vector machine (LS-SVM) with a radial basis function (RBF) kernel and leave-one-out cross validation was used for performance evaluation. Using DFT, the sensitivity, specificity and area under ROC curve were 84.8%, 64.4% and 0.728. Using SVD, the corresponding values were 100%, 86.7% and 0.935. Combination of SVD and 3D moments yields higher performance in tumor differentiation than that of DFT and 3D moments.
本研究旨在通过动态对比增强(DCE)乳房MRI的体素方向时间增强光谱及其空间分布的形态测量来表征肿瘤内增强模式的时空特性。利用离散傅里叶变换(DFT)和奇异值分解(SVD)提取时间增强特征进行对比,生成四维光谱图。利用三维矩描述子分别捕捉肿瘤内DFT和svd特征谱的空间变化。采用径向基函数(RBF)核最小二乘支持向量机(LS-SVM)进行良恶性肿瘤鉴别,并采用留一交叉验证进行性能评价。应用DFT检测,灵敏度为84.8%,特异度为64.4%,ROC曲线下面积为0.728。采用奇异值分解法,对应值分别为100%、86.7%和0.935。与DFT和3D矩相比,SVD和3D矩结合对肿瘤的分化效果更好。
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引用次数: 5
A novel multiple particle tracking algorithm for noisy in vivo data by minimal path optimization within the spatio-temporal volume 一种基于时空体内最小路径优化的体内噪声多粒子跟踪算法
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193263
Q. Xue, M. Leake
Automated tracking of fluorescent particles in living cells is vital for subcellular stoichoimetry analysis [1, 2]. Here, a new automatic tracking algorithm is described to track multiple particles, based on minimal path optimization. After linking feature points frame-by-frame, spatio-temporal data from time-lapse microscopy are combined together to construct a transformed 3D volume. The trajectories are then generated from the minimal energy path as defined by the solution of the time-dependent partial differential equation using a gray weighted distance transform dynamic programming method. Results from simulated and experimental data demonstrate that our novel automatic method gives sub-pixel accuracy even for very noisy images.
活细胞中荧光颗粒的自动跟踪对于亚细胞化学计量分析至关重要[1,2]。本文提出了一种基于最小路径优化的多粒子自动跟踪算法。在逐帧链接特征点后,将延时显微镜的时空数据组合在一起,构建变换后的三维体。然后利用灰色加权距离变换动态规划方法,从随时间变化的偏微分方程的解定义的最小能量路径生成轨迹。仿真和实验数据的结果表明,即使对噪声很大的图像,该方法也能达到亚像素级的精度。
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引用次数: 16
Energy minimization methods for cell motion correction and intracellular analysis in live-cell fluorescence microscopy 活细胞荧光显微镜中细胞运动校正和细胞内分析的能量最小化方法
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193255
O. Dzyubachyk, W. A. Cappellen, J. Essers, W. Niessen, E. Meijering
The ultimate aim of many live-cell fluorescence microscopy imaging experiments is the quantitative analysis of the spatial structure and temporal behavior of intracellular objects. This requires finding the precise geometrical correspondence between the time frames for each individual cell and performing intracellular segmentation. In a previous paper we have developed a powerful multi-level-set based algorithm for automated cell segmentation and tracking of many cells in time-lapse images. In this paper, we propose approaches to exploit the output of this algorithm for the subsequent tasks of cell motion correction and intracellular segmentation. Both tasks are formulated as energy minimization problems and are solved efficiently and effectively by distance-transform and graph-cut based algorithms. The potential of the proposed approaches for intracellular analysis is demonstrated by successful experiments on biological image data showing PCNA-foci and nucleoli in HeLa cells.
许多活细胞荧光显微镜成像实验的最终目的是定量分析细胞内物体的空间结构和时间行为。这需要在每个细胞的时间框架之间找到精确的几何对应关系,并进行细胞内分割。在之前的一篇论文中,我们开发了一种强大的基于多水平集的算法,用于自动分割和跟踪延时图像中的许多细胞。在本文中,我们提出了将该算法的输出用于细胞运动校正和细胞内分割的后续任务的方法。这两个任务都被表述为能量最小化问题,并通过基于距离变换和图切的算法有效地解决。细胞内分析方法的潜力通过成功的生物图像数据实验证明了,这些实验显示了HeLa细胞中的pcna焦点和核仁。
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引用次数: 6
Graph wavelet applied to human brain connectivity 图小波在人脑连接中的应用
Pub Date : 2009-06-28 DOI: 10.1109/ISBI.2009.5193309
P. Besson, C. Delmaire, V. Thuc, S. Lehéricy, F. Pasquier, X. Leclerc
The graph theory is increasingly used and provides powerful tools for studying complex biological networks problems. They were able to characterize the small-worldness of the brain connectivity network and were accurate enough to observe topological differences between healthy and diseased brain graphs. However, these methods relied on topological characteristics implying that differences could be observed between two groups only if corresponding graphs topologies were different.
图论的应用日益广泛,为研究复杂的生物网络问题提供了有力的工具。他们能够描述大脑连接网络的小世界特征,并且足够准确地观察到健康和患病脑图之间的拓扑差异。然而,这些方法依赖于拓扑特征,这意味着只有当对应的图拓扑不同时才能观察到两组之间的差异。
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引用次数: 2
期刊
2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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