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

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Deformation-based nonlinear dimension reduction: Applications to nuclear morphometry 基于变形的非线性降维:在核形态计量学中的应用
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541042
G. Rohde, Wei Wang, Tao Peng, R. Murphy
We describe a new approach for elucidating the nonlinear degrees of freedom in a distribution of shapes depicted in digital images. By combining a deformation-based method for measuring distances between two shape configurations together with multidimensional scaling, a method for determining the number of degrees of freedom in a shape distribution is described. In addition, a method for visualizing the most representative modes of variation (underlying shape parameterization) in a nuclei shape distribution is also presented. The novel approach takes into account the nonlinear nature of shape manifolds and is related to the ISOMAP algorithm. We apply the method to the task of analyzing the shape distribution of HeLa cell nuclei and conclude that approximately three parameters are responsible for their shape variation. Excluding differences in size, translation, and orientation, these are: elongation, bending (concavity), and shifts in mass distribution. In addition, results show that, contrary to common intuition, the most likely nuclear shape configuration is not symmetric.
我们描述了一种新的方法来阐明在数字图像中描述的形状分布中的非线性自由度。通过将基于变形的测量两种形状之间距离的方法与多维尺度相结合,描述了一种确定形状分布中自由度数的方法。此外,还提出了一种可视化核形状分布中最具代表性的变化模式(底层形状参数化)的方法。该方法考虑了形状流形的非线性特性,并与ISOMAP算法相关。我们将该方法应用于海拉细胞核形状分布的分析,得出了大约三个参数对其形状变化负责的结论。排除尺寸、平移和方向的差异,这些差异是:伸长率、弯曲(凹度)和质量分布的变化。此外,结果表明,与通常的直觉相反,最可能的核形状配置是不对称的。
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引用次数: 25
Assigning statistical significance to tumor changes in patient monitoring using FDG pet 使用FDG pet监测患者的肿瘤变化具有统计学意义
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540947
P. Tylski, M. Dusart, B. Vanderlinden, I. Buvat
In PET-based patient monitoring, tumor changes can be assessed using standardized uptake values (SUV), tumor volume (V), or total lesion glycolysis (TLG). We studied the impact of the SUV, V and TLG estimation methods on the interpretation of tumor changes between 2 PET scans. We also propose a bootstrap approach to assign statistical significance to the observed tumor changes. In 17 tumor changes, the SUV variations were the least dependent on the estimation method compared to the V or TLG changes. In 16/17 cases, SUV changes were significant. In 2 out of these 16 significant cases, at least one SUV index suggested non significant change. Testing the significance of tumor feature changes might reduce errors in interpreting tumor changes.
在基于pet的患者监测中,可以使用标准化摄取值(SUV)、肿瘤体积(V)或病灶糖酵解总量(TLG)来评估肿瘤变化。我们研究了SUV, V和TLG估计方法对2次PET扫描之间肿瘤变化的解释的影响。我们还提出了一种自举方法来分配观察到的肿瘤变化的统计显著性。在17例肿瘤变化中,与V或TLG变化相比,SUV变化对估计方法的依赖性最小。在16/17的病例中,SUV变化显著。在这16例显著病例中,有2例至少有一项SUV指标显示无显著变化。检测肿瘤特征变化的显著性可以减少对肿瘤变化的错误解释。
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引用次数: 1
Anisotropy factor estimation from backscattered Q elements of stokes vectors stokes矢量后向散射Q元的各向异性因子估计
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541311
J. Falconet, R. Sablong, E. Perrin, H. Saint-Jalmes
Optical characterization of biological tissues is of real interest to improve medical diagnosis and in particular in the detection of precancerous tissues. We propose a new noninvasive method allowing the estimation of the anisotropy factor. This method is based on the image analysis of the Q- element of Stokes vector backscattered from the turbid medium. These Q-element images show specific patterns depending on g. Therefore the use of Fourier Descriptors (FD) on simulated data, to discriminate the specific geometrical features of the Q-element, enabled us to determine a linear relation between the anisotropy factor and six FD. This method was applied on experimental data obtained with calibrated solutions. The anisotropy factor was estimated with a maximum relative error of 13 %.
生物组织的光学特性是真正感兴趣的,以提高医学诊断,特别是在检测癌前组织。我们提出了一种新的非侵入性方法,可以估计各向异性因子。该方法基于对浑浊介质中Stokes矢量反向散射的Q元图像分析。这些q元素图像显示了依赖于g的特定模式。因此,在模拟数据上使用傅立叶描述子(FD)来区分q元素的特定几何特征,使我们能够确定各向异性因子与六个FD之间的线性关系。该方法应用于标定溶液得到的实验数据。各向异性因子估计的最大相对误差为13%。
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引用次数: 0
Multi-resolution parallel integral projection for fast localization of a straight electrode in 3D ultrasound images 三维超声图像中直线电极的多分辨率平行积分投影快速定位
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540925
M. Uhercik, J. Kybic, H. Liebgott, C. Cachard
We address the problem of fast and accurate localization of miniature surgical instruments like needles or electrodes using 3D ultrasound (US). An algorithm based on maximizing a parallel integral transform (PIP) can automatically localize line-shaped objects in 3D US images with accuracy on the order of hundreds of micrometers. Here we propose to use a multi-resolution to accelerate the algorithm significantly. We use a maximum function for downsampling to preserve the high intensity voxels of a thin electrode. We integrate the multi-resolution pyramid into a hierarchical mesh-grid search of PIP. The experiments with a tissue mimicking phantom and breast biopsy data show that proposed method works well on real US images. The speed-up is threefold compared to original PIP method with the same accuracy 0.4 mm. A further speed-up up to 16 times is reached by an early stopping of the optimization, at the expense of some loss of accuracy.
我们解决了使用3D超声(US)快速准确定位针头或电极等微型手术器械的问题。一种基于最大化平行积分变换(PIP)的算法可以自动定位三维美国图像中的线形物体,精度在数百微米量级。在这里,我们提出使用多分辨率来显著加速算法。我们使用最大函数进行下采样,以保持薄电极的高强度体素。我们将多分辨率金字塔整合到PIP的分层网格搜索中。用组织模拟幻影和乳腺活检数据进行的实验表明,所提出的方法在真实的美国图像上效果良好。在相同精度0.4 mm的情况下,与原PIP法相比,速度提高了三倍。通过提前停止优化,可以进一步提高16倍的速度,但代价是准确性的一些损失。
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引用次数: 14
Mutual information based non-rigidmouse registration using a scale-space approach 使用尺度空间方法的基于互信息的非刚性鼠标注册
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541204
Sangeetha Somayajula, Anand A. Joshi, R. Leahy
We propose a scale-space based approach to non-rigid small animal image registration. Scale-space theory is based on generating a family of images by blurring an image with Gaussian kernels of increasing width. This approach can be used to extract features at varying levels of detail from an image. We define the scale-space feature vector at each voxel of an image as a vector of intensities of the scale- space images at that voxel. We generate scale-space images of the target and template images, and extract their corresponding scale- space feature vectors at each voxel. The extracted feature vectors are aligned using mutual information based non-rigid registration to simultaneously align global structure as well as detail in the images. We represent the displacement field in terms of the discrete cosine transform (DCT) basis, and use the Laplacian of the displacement field as a regularizing term. The DCT representation of the displacement field simplifies the Laplacian regularization term to a diagonal, thus reducing computational cost. We apply the scale-space registration algorithm on mouse images obtained from two time points of a longitudinal study, and compare its performance with that of a hierarchical multi-scale approach. The results indicate that scale- space based registration gives better skeletal as well as soft tissue alignment compared to the hierarchical multi-scale approach.
提出了一种基于尺度空间的非刚性小动物图像配准方法。尺度空间理论的基础是通过使用宽度增加的高斯核模糊图像来生成一系列图像。这种方法可用于从图像中提取不同细节级别的特征。我们将图像每个体素处的尺度空间特征向量定义为该体素处尺度空间图像的强度向量。我们生成目标图像和模板图像的尺度空间图像,并在每个体素处提取相应的尺度空间特征向量。提取的特征向量采用基于互信息的非刚性配准进行对齐,同时对图像的整体结构和细节进行对齐。我们用离散余弦变换(DCT)基表示位移场,并使用位移场的拉普拉斯函数作为正则项。位移场的DCT表示将拉普拉斯正则化项简化为对角线,从而减少了计算量。我们将尺度空间配准算法应用于从纵向研究的两个时间点获得的小鼠图像,并将其性能与分层多尺度方法进行比较。结果表明,与分层多尺度方法相比,基于尺度空间的配准可以更好地对骨骼和软组织进行对齐。
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引用次数: 14
Autocalibrated regularized parallel mri reconstruction in the wavelet domain 小波域的自校正正则化并行mri重构
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541106
Lotfi Chaari, J. Pesquet, A. Benazza-Benyahia, P. Ciuciu
To reduce the scanning time in some MRI applications, parallel acquisition techniques with multiple coils have been developed. Then, the full Field of View (FOV) image is reconstructed from the resulting registered subsampled k-space data. To this end, several reconstruction techniques have been proposed such as the widely-used SENSE method. However, the reconstructed image generally presents artifacts especially when perturbations occur in both the measured data and in the estimated coil sensitivity maps. In order to alleviate such shortcomings by limiting the distortions, Tikhonov regularization in the image domain has also been investigated. In this paper, we present a novel algorithm for SENSE reconstruction which proceeds with regularization in the wavelet domain, the hyperparameters being estimated from the data. Experiments carried out on real T1-weighted MRI data at 1.5 T indicate that the proposed algorithm generates reconstructed images with reduced artifacts in comparison with conventional reconstruction techniques.
为了减少一些磁共振成像应用的扫描时间,多线圈并行采集技术得到了发展。然后,从得到的配准的次采样k空间数据重建全视场(FOV)图像。为此,提出了几种重建技术,如广泛使用的SENSE方法。然而,重建图像通常会出现伪影,特别是当测量数据和估计线圈灵敏度图都发生扰动时。为了通过限制畸变来缓解这些缺点,还对图像域的吉洪诺夫正则化进行了研究。本文提出了一种新的传感器重构算法,该算法在小波域进行正则化,并从数据中估计出超参数。在1.5 T的真实t1加权MRI数据上进行的实验表明,与传统的重建技术相比,该算法生成的重建图像具有更少的伪影。
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引用次数: 17
Motion correction for augmented fluoroscopy - application to liver embolization 增强透视的运动矫正-在肝栓塞中的应用
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541306
J. Ross, N. Subramanian, S. Solomon
Hepatic embolization is a procedure designed to cut off blood supply to liver tumors, either hepatocellular carcinomas (HCC) or metastases from other parts of the body. While it often serves as a palliative treatment, it can also be indicated as a precursor to liver resection and liver transplants. The procedure itself is conducted under fluoroscopic X-ray guidance. Contrast agent is administered to opacify the vasculature and to indicate the arterial branches that feed the treatment target. These supply routes are then blocked by embolic agents, cutting off the tumor's blood supply. While methods exist to enhance fluoroscopic images and reduce the dependency on contrast agent, they are typically confounded by patient respiratory motion and are hence not effective for abdominal interventions. This paper presents an appearance based tracking algorithm that quickly and accurately compensates for the liver's bulk motion due to respiration, thereby enabling the application of fluoroscopic augmentations (i.e. image overlays) for hepatic embolization procedures. To quantify the accuracy of our algorithm, we manually identified vascular and artificial landmarks in fluoroscopy sequences acquired from three patients during free breathing. The average postmotion compensation landmark misalignment was 1.9 mm, with the maximum landmark misalignment not exceeding 5.5 mm.
肝栓塞是一种旨在切断肝肿瘤的血液供应的手术,无论是肝细胞癌(HCC)还是身体其他部位的转移。虽然它通常作为一种姑息性治疗,但它也可以作为肝切除术和肝移植的前兆。该过程本身是在透视x射线引导下进行的。给药造影剂是为了使脉管系统不透明,并显示输送治疗目标的动脉分支。这些供血途径随后被栓塞剂阻断,切断肿瘤的血液供应。虽然存在增强透视图像和减少对造影剂依赖的方法,但它们通常与患者呼吸运动相混淆,因此对腹部干预无效。本文提出了一种基于外观的跟踪算法,该算法可以快速准确地补偿由于呼吸引起的肝脏大块运动,从而使透视增强(即图像叠加)在肝栓塞手术中的应用成为可能。为了量化我们算法的准确性,我们在三名患者自由呼吸时获得的透视序列中手动识别血管和人工地标。运动后补偿标记偏差平均为1.9 mm,最大标记偏差不超过5.5 mm。
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引用次数: 8
Estimation of uncertainty in constrained spherical deconvolution fiber orientations 受限球面反褶积光纤方向的不确定性估计
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541144
B. Jeurissen, A. Leemans, J. Tournier, Jan Sijbers
Constrained spherical deconvolution (CSD) is a new reconstruction technique that extracts white matter fiber orientations from diffusion weighted MRI data of the brain. However, since these orientations are estimated from noisy data, they are subject to errors, which propagate during fiber tractography. Therefore, it is important to estimate the uncertainty associated with the fiber orientations. In this work, we investigate the performance of a statistical method called the bootstrap, when estimating confidence intervals for CSD fiber orientations. The bootstrap is a nonparametric statistical technique based on data resampling. We used Monte Carlo simulations to measure both its accuracy and precision when applied to CSD. Also, we evaluated an alternative method called the bootknife, which aims to increase the precision of the bootstrap.
约束球面反褶积(CSD)是一种从脑弥散加权MRI数据中提取白质纤维方向的新重建技术。然而,由于这些方向是根据有噪声的数据估计的,因此它们受到误差的影响,这些误差在光纤束束成像过程中传播。因此,估计与纤维取向有关的不确定性是很重要的。在这项工作中,我们研究了一种称为自举法的统计方法在估计CSD纤维取向的置信区间时的性能。自举是一种基于数据重采样的非参数统计技术。我们使用蒙特卡罗模拟来测量其应用于CSD时的准确性和精度。此外,我们还评估了一种称为bootknife的替代方法,该方法旨在提高bootstrap的精度。
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引用次数: 6
Double time-scale image reconstruction of the beating and developing embryonic zebrafish heart 胚胎斑马鱼心脏跳动和发育的双时间尺度图像重建
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541131
M. Liebling, J. Vermot, S. Fraser
We present a time-lapse collection and reconstruction technique that allows following embryonic heart development at any computationally halted heart contraction state. The central idea is to image at least one full heartbeat at a fast frame rate, resulting in a two-dimensional plus time (2D+T) data set, and repeat this operation every few minutes over several hours for multiple axial positions. The acquired data are five dimensional (X, Y, and Z in space, 'fast' and 'slow' dimensions in time). The (2D+T) image series are then synchronized to their neighbors in the axial and development time dimensions using a non-rigid registration algorithm (constrained such as to leave all but the fast time dimension unchanged). The algorithm proceeds recursively over the different axial positions and developmental stages. We successfully applied this procedure to image the development of the embryonic zebrafish heart between 32 and 44 hours post fertilization (hpf).
我们提出了一种延时收集和重建技术,允许在任何计算停止心脏收缩状态下跟踪胚胎心脏发育。其核心思想是以快速帧率对至少一个完整心跳进行成像,从而产生二维加时间(2D+T)数据集,并在几个小时内每隔几分钟对多个轴向位置重复此操作。获取的数据是五维的(空间上的X、Y和Z,时间上的“快”和“慢”)。然后使用非刚性配准算法将(2D+T)图像序列同步到其相邻的轴向和发展时间维度(约束例如保持除快速时间维度外的所有维度不变)。该算法在不同的轴向位置和发育阶段递归地进行。我们成功地将该方法应用于胚胎斑马鱼受精后32至44小时(hpf)的心脏发育成像。
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引用次数: 5
Imaging dynamics of organs and drugs at sub-half-mm and sub-minute resolution using focusing pinhole SPECT 聚焦针孔SPECT在亚半毫米和亚分钟分辨率下的器官和药物成像动力学
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541270
F. Beekman, F. V. D. Have, B. Vastenhouw, W. Branderhorst, A. Linden, M. Smidt
We demonstrate new technologies for SPECT imaging with unsurpassed resolution in mice and rats. Results of the imaging of living animals will be shown. In addition development of detectors for next generation systems with an even higher resolution will be shown.
我们展示了在小鼠和大鼠中具有无与伦比分辨率的SPECT成像新技术。将显示活体动物的成像结果。此外,将展示具有更高分辨率的下一代系统的探测器的发展。
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引用次数: 0
期刊
2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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