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2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro最新文献

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Cell segmentation in microscopy imagery using a bag of local Bayesian classifiers 使用局部贝叶斯分类器的显微图像细胞分割
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490399
Zhaozheng Yin, Ryoma Bise, Mei Chen, T. Kanade
Cell segmentation in microscopy imagery is essential for many bioimage applications such as cell tracking. To segment cells from the background accurately, we present a pixel classification approach that is independent of cell type or imaging modality. We train a set of Bayesian classifiers from clustered local training image patches. Each Bayesian classifier is an expert to make decision in its specific domain. The decision from the mixture of experts determines how likely a new pixel is a cell pixel. We demonstrate the effectiveness of this approach on four cell types with diverse morphologies under different microscopy imaging modalities.
显微镜图像中的细胞分割对于许多生物图像应用(如细胞跟踪)至关重要。为了准确地从背景中分割细胞,我们提出了一种独立于细胞类型或成像方式的像素分类方法。我们从聚类的局部训练图像补丁中训练一组贝叶斯分类器。每个贝叶斯分类器都是在其特定领域做出决策的专家。专家的混合决策决定了新像素是单元像素的可能性。我们证明了这种方法在不同显微镜成像方式下具有不同形态的四种细胞类型上的有效性。
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引用次数: 81
Assessing tumour vascularity with 3D contrast-enhanced ultrasound: A new semi-automated segmentation framework 用3D增强超声评估肿瘤血管:一种新的半自动分割框架
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490351
A. Gasnier, R. Ardon, C. Ciofolo-Veit, E. Leen, J. Correas
3D contrast-enhanced ultrasound (CEUS) is a powerful imaging technique for tumour vascularity assessment, which is critical for radio-frequency ablation (RFA) planning or for the assessment of response to antiangiogenic therapies. In this paper, we propose a novel semi-automated method for the quantification of tumour vascularity in 3D CEUS data. We apply a two-step framework combining an interactive segmentation of the tumour necrosis followed by an automatic detection of the vascularity based on implicit representations. Experimental results on 3D CEUS images of renal cell carcinomas (RCC) show that our method is promising in terms of speed and quality.
3D对比增强超声(CEUS)是一种强大的肿瘤血管性评估成像技术,对于射频消融(RFA)计划或评估抗血管生成治疗的反应至关重要。在本文中,我们提出了一种新的半自动化的方法来定量肿瘤血管的三维超声造影数据。我们采用两步框架,结合肿瘤坏死的交互式分割,然后基于隐式表示的血管性自动检测。在肾细胞癌(RCC)三维超声造影图像上的实验结果表明,我们的方法在速度和质量上都是有希望的。
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引用次数: 10
Automated measurement and segmentation of abdominal adipose tissue in MRI MRI中腹部脂肪组织的自动测量和分割
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490141
D. Sussman, Jianhua Yao, R. Summers
Obesity has become widespread in America and has been identified as a risk factor for many illnesses. Measuring adipose tissue (AT) with traditional means is often unreliable and inaccurate. MRI provides a safe and minimally invasive means to measure AT accurately and segment visceral AT from subcutaneous AT. However, MRI is often corrupted by image artifacts which make manual measurements difficult and time consuming. We present a fully automated method to measure and segment abdominal AT in MRI. Our method uses non-parametric non-uniform intensity normalization (N3) to correct for image artifacts and inhomogeneities, fuzzy c-means to cluster AT regions and active contour models to separate subcutaneous and visceral AT. Our method was able to measure images with severe intensity inhomogeneities and demonstrated agreement with two manual users that was close to the agreement between the manual users.
肥胖在美国已经很普遍,并被认为是许多疾病的风险因素。用传统方法测量脂肪组织(AT)往往是不可靠和不准确的。MRI提供了安全、微创的方法来准确测量AT,并从皮下AT中分割内脏AT。然而,MRI经常被图像伪影破坏,这使得人工测量困难且耗时。我们提出了一种在MRI中测量和分割腹部AT的全自动方法。我们的方法使用非参数非均匀强度归一化(N3)来校正图像伪影和不均匀性,使用模糊c均值来聚类AT区域,使用活动轮廓模型来分离皮下和内脏AT。我们的方法能够测量具有严重强度不均匀性的图像,并证明与两个手动用户的协议接近于手动用户之间的协议。
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引用次数: 8
Static and dynamic cardiac modelling: Initial strides and results towards a quantitatively accurate mechanical heart model 静态和动态心脏建模:朝着定量准确的机械心脏模型的初步进展和结果
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490300
C. Constantinides, N. Aristokleous, G. Johnson, Dimitris Perperides
Magnetic Resonance Imaging (MRI) has exhibited significant potential for quantifying cardiac function and dysfunction in the mouse. Recent advances in high-resolution cardiac MR imaging techniques have contributed to the development of acquisition approaches that allow fast and accurate description of anatomic structures, and accurate surface and finite element (FE) mesh model constructions for study of global mechanical function in normal and transgenic mice. This study presents work in progress for construction of quantitatively accurate three-dimensional (3D) and 4D dynamic surface and FE models of murine left ventricular (LV) muscle in C57BL/6J (n=10) mice. Constructed models are subsequently imported into commercial software packages for the solution of the constitutive equations that characterize mechanical function, including computation of the stress and strain fields. They are further used with solid-free form fabrication processes to construct model-based material renditions of the human and mouse hearts.
磁共振成像(MRI)在量化小鼠心功能和功能障碍方面具有重要的潜力。高分辨率心脏磁共振成像技术的最新进展促进了采集方法的发展,这些方法可以快速准确地描述解剖结构,以及精确的表面和有限元(FE)网格模型构建,用于研究正常和转基因小鼠的整体力学功能。本研究介绍了在C57BL/6J (n=10)只小鼠左心室(LV)肌肉三维(3D)和四维动态表面及有限元模型的建立工作。构建的模型随后导入商业软件包,用于求解表征力学功能的本构方程,包括计算应力场和应变场。它们进一步与无固体形式制造工艺一起用于构建人类和小鼠心脏的基于模型的材料再现。
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引用次数: 6
Inference of functional connectivity from structural brain connectivity 从脑结构连通性推断功能连通性
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490188
F. Deligianni, E. Robinson, C. Beckmann, D. Sharp, A. Edwards, D. Rueckert
Studies that examine the relationship of functional and structural connectivity are tremendously important in interpreting neurophysiological data. Although, the relationship between functional and structural connectivity has been explored with a number of statistical tools [1, 2], there is no explicit attempt to quantitatively measure how well functional data can be predicted from structural data. Here, we predict functional connectivity from structural connectivity, explicitly, by utilizing a predictive model based on PCA and CCA. The combination of these techniques allowed the reduction of dimensionality and modeling of inter-correlations, successfully. We provide both qualitative and quantitative results based on a leave-one-out validation.
检查功能和结构连接关系的研究在解释神经生理学数据方面非常重要。虽然已经用一些统计工具探讨了功能和结构连通性之间的关系[1,2],但没有明确的尝试来定量衡量从结构数据中预测功能数据的效果。在这里,我们利用基于PCA和CCA的预测模型,明确地从结构连通性预测功能连通性。这些技术的结合成功地降低了维数并建立了相互关系的模型。我们提供定性和定量结果的基础上留下一个验证。
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引用次数: 13
Correction of distance-dependent blurring in projection data for fully three-dimensional electron microscopic reconstruction 全三维电子显微镜重建中投影数据中距离相关模糊的校正
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490189
Joanna Klukowska, G. Herman, I. Kazantsev
We propose a method of correction for distance-dependent blurring, which is one of the limiting factors to achieving higher resolution in 3D reconstructions of biological specimens from 2D projections obtained by an electron microscope. Our proposed correction is based on the frequency-distance relation that has been used successfully in correction of a similar problem in single photon emission tomography and has been suggested for electron microscopy data obtained by rotating a sample around a single axis. We extend these approaches to electron microscopy data that are obtained from arbitrary directions. We develop the theoretical background for a correction method that results in an estimate of a true projection data set, which then can be used to obtain a 3D reconstruction by any currently existing algorithm.
我们提出了一种校正距离相关模糊的方法,这是电子显微镜获得的二维投影生物标本三维重建中实现更高分辨率的限制因素之一。我们提出的校正基于频率-距离关系,该关系已成功地用于校正单光子发射断层扫描中的类似问题,并已建议用于通过绕单轴旋转样品获得的电子显微镜数据。我们将这些方法扩展到从任意方向获得的电子显微镜数据。我们开发了一种校正方法的理论背景,该方法可以对真实投影数据集进行估计,然后可以使用任何现有算法来获得3D重建。
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引用次数: 1
Intraoperative ultrasonography for the correction of brainshift based on the matching of hyperechogenic structures 基于高回声结构匹配的术中超声校正脑移位
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490261
P. Coupé, P. Hellier, X. Morandi, C. Barillot
In this paper, a global approach based on 3D freehand ultrasound imaging is proposed to (a) correct the error of the neuronavigation system in image-patient registration and (b) compensate for the deformations of the cerebral structures occurring during a neurosurgical procedure. The rigid and non rigid multimodal registrations are achieved by matching the hyperechogenic structures of brain. The quantitative evaluation of the non rigid registration was performed within a framework based on synthetic deformation. Finally, experiments were carried out on real data sets of 4 patients with lesions such as cavernoma and low-grade glioma. Qualitative and quantitative results on the estimated error performed by neuronavigation system and the estimated brain deformations are given.
本文提出了一种基于三维手绘超声成像的全局方法,以(a)纠正神经导航系统在图像-患者配准中的误差,(b)补偿神经外科手术过程中发生的大脑结构变形。通过匹配大脑的高回声结构,实现了刚性和非刚性的多模态配准。在基于合成变形的框架内对非刚性配准进行定量评价。最后,在4例海绵状瘤、低级别胶质瘤等病变患者的真实数据集上进行实验。给出了神经导航系统估计误差和脑变形估计的定性和定量结果。
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引用次数: 7
An MRI/CT-based cardiac electroanatomical mapping system with scattered data interpolation algorithm 基于分散数据插值算法的MRI/ ct心脏电解剖制图系统
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490308
G. Gao, Phani Chinchapatnam, M. Wright, A. Arujuna, M. Ginks, C. Rinaldi, K. Rhode
In this paper we are proposing an MRI/CT-guided cardiac electroanatomical mapping system, EpreMap. EpreMap was developed as an extension to the guidance system developed at King's College London for cardiac electrophysiology procedures. This platform allows for both the registration of MRI/CT anatomical data to X-ray fluoroscopy and the determination of the catheter positions. EpreMap is a contact mapping system. By using a radial basis function (RBF) based scattered data interpolation algorithm, EpreMap can create a cardiac activation map for a whole chamber starting from five sampling points. The activation map is updated with every new measurement. Offline studies showed that cardiac activation maps created by using EpreMap were highly correlated with the maps created by using a non-contact mapping system. EpreMap was used in three clinical cases. The clinical studies proved the workflow of EpreMap was valid in the clinical environment. For one clinical case, the result of EpreMap was validated against a non-contact mapping system. Clinically significant regions identified by using the two mapping systems were strongly correlated.
在本文中,我们提出了一个MRI/ ct引导的心脏电解剖定位系统,EpreMap。EpreMap是作为伦敦国王学院为心脏电生理程序开发的引导系统的扩展而开发的。该平台允许将MRI/CT解剖数据注册到x射线透视和确定导管位置。EpreMap是一个联系人映射系统。EpreMap采用基于径向基函数(RBF)的离散数据插值算法,从5个采样点出发,绘制出整个腔室的心脏活动图。激活图会随着每次新的测量而更新。离线研究表明,使用EpreMap绘制的心脏活动图与使用非接触式制图系统绘制的地图高度相关。EpreMap应用于3例临床病例。临床研究证明EpreMap工作流程在临床环境下是有效的。对于一个临床病例,EpreMap的结果与非接触式制图系统进行了验证。通过使用两种制图系统确定的临床显著区域是强相关的。
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引用次数: 6
Detecting mutually-salient landmark pairs with MRF regularization 用MRF正则化方法检测相互显著的地标对
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490324
Yangming Ou, A. Besbes, M. Bilello, Mohamed Mansour, C. Davatzikos, N. Paragios
In this paper, we present a framework for extracting mutually-salient landmark pairs for registration. Traditional methods detect landmarks one-by-one and separately in two images. Therefore, the detected landmarks might inherit low dis-criminability and are not necessarily good for matching. In contrast, our method detects landmarks pair-by-pair across images, and those pairs are required to be mutually-salient, i.e., uniquely corresponding to each other. The second merit of our framework is that, instead of finding individually optimal correspondence, which is a local approach and could cause self-intersection of the resultant deformation, our framework adopts a Markov-random-field (MRF)-based spatial arrangement to select the globally optimal landmark pairs. In this way, the geometric consistency of the correspondences is maintained and the resultant deformations are relatively smooth and topology-preserving. Promising experimental validation through a radiologist's evaluation of the established correspondences is presented.
在本文中,我们提出了一个框架来提取相互显著的地标对进行配准。传统的方法是在两幅图像中逐个检测地标。因此,检测到的标记可能具有较低的可分辨性,并且不一定适合匹配。相比之下,我们的方法是在图像中成对地检测地标,这些对被要求是相互显著的,即彼此唯一对应。该框架的第二个优点是,我们的框架采用基于马尔可夫随机场(MRF)的空间排列来选择全局最优的地标对,而不是寻找单独的最优对应,这是一种局部方法,可能导致结果变形的自交。通过这种方式,保持了对应的几何一致性,并且生成的变形相对光滑且拓扑保持。有希望的实验验证,通过一个放射科医生的评估建立相应的提出。
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引用次数: 18
Exact and analytic bayesian inference for orientation distribution functions 方向分布函数的精确和解析贝叶斯推理
Pub Date : 2010-04-14 DOI: 10.1109/ISBI.2010.5490207
S. Sotiropoulos, David E. Jones, L. Bai, T. Kypraios
Characterizing the fibre orientation uncertainty is essential for quantitative tractography approaches, such as probabilistic tracking. We present an analytic way to perform Bayesian inference on diffusion ODFs from Q-ball imaging data. Drawing a random sample of ODFs reduces to sampling a multivariate t distribution. Assuming that the local ODF maxima provide fibre orientations, a random sample of orientations can then be directly obtained from the ODF sample. Contrary to approximate inference approaches, such as MCMC, our method samples from the exact posterior distribution. Results are illustrated on simulated and human in-vivo data.
表征纤维取向的不确定性对于定量束束成像方法(如概率跟踪)至关重要。本文提出了一种对q球成像数据的扩散odf进行贝叶斯推理的解析方法。绘制odf的随机样本可简化为对多元t分布进行抽样。假设本地ODF最大值提供了纤维的取向,那么可以直接从ODF样本中获得取向的随机样本。与近似推理方法(如MCMC)相反,我们的方法从精确的后验分布中抽样。结果用模拟数据和人体内数据说明。
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引用次数: 4
期刊
2010 IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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