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

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EEG source localization by multi-planar analytic sensing 基于多平面分析传感的脑电信号源定位
Pub Date : 2008-06-13 DOI: 10.1109/ISBI.2008.4541186
D. Kandaswamy, T. Blu, L. Spinelli, C. Michel, D. Ville
Source localization from EEG surface measurements is an important problem in neuro-imaging. We propose a new mathematical framework to estimate the parameters of a multi- dipole source model. To that aim, we perform 2-D analytic sensing in multiple planes. The estimation of the projection on each plane of the dipoles' positions, which is a non-linear problem, is reduced to polynomial root finding. The 3-D information is then recovered as a special case of tomographic reconstruction. The feasibility of the proposed approach is shown for both synthetic and experimental data.
脑电表面测量的源定位是神经成像中的一个重要问题。我们提出了一个新的数学框架来估计多偶极子源模型的参数。为此,我们在多个平面上执行二维分析传感。将偶极子位置在各平面上的投影估计问题简化为多项式求根问题。然后将三维信息作为层析重建的特殊情况进行恢复。综合数据和实验数据都证明了该方法的可行性。
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引用次数: 3
3D general lesion segmentation in CT CT三维总体病灶分割
Pub Date : 2008-05-29 DOI: 10.1109/ISBI.2008.4541116
M. Jolly, L. Grady
This paper describes a general purpose algorithm to segment any kind of lesions in CT images. The algorithm expects a click or a stroke inside the lesion from the user and learns gray level properties on the fly. It then uses the random walker algorithm and combines multiple 2D segmentation results to produce the final 3D segmentation of the lesion. Quantitative evaluation on 293 lesions demonstrates that the method is ready for clinical use.
本文描述了一种通用的CT图像病灶分割算法。该算法期望用户在病灶内部点击或笔画,并动态学习灰度属性。然后使用随机行走算法,结合多个二维分割结果,得到病灶的最终三维分割。对293个病变的定量评价表明,该方法可用于临床。
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引用次数: 48
A new evaluation of the brain parenchymal fraction: Application in multiple sclerosis longitudinal studies 脑实质分数的新评价:在多发性硬化症纵向研究中的应用
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540933
J. Souplet, C. Lebrun, N. Ayache, G. Malandain
In multiple sclerosis (MS) research, burden of disease and treatments efficacy are mainly evaluated with lesion load and atrophy. The former being poorly correlated with patient's handicap, it is of interest to evaluate accurately the latter. A lot of methods to measure the brain atrophy are available in the literature. The brain parenchymal fraction (BPF) is one of these methods. It needs a precise segmentation of the brain and of the cerebro-spinal fluid. However, artefacts like partial volume effects (PVE) can impair this classification. According to some articles, the BPF may also be less precise in longitudinal studies. To address these points, this article proposes a new method to evaluate the BPF which is based on an expectation-minimization framework taking into consideration the PVE. Modifications of the workflow are also proposed to improve its reliability in longitudinal study. Experiments have been conducted on simulated pathological images that validate the different measures.
在多发性硬化症(MS)研究中,主要以病变负荷和萎缩程度来评价疾病负担和治疗效果。前者与患者的残疾相关性较差,因此对后者的准确评估具有重要意义。文献中有很多测量脑萎缩的方法。脑实质分数(BPF)是其中一种方法。需要对大脑和脑脊液进行精确的分割。然而,像部分体积效应(PVE)这样的人为因素会损害这种分类。根据一些文章,BPF在纵向研究中也可能不太精确。为了解决这些问题,本文提出了一种新的评估BPF的方法,该方法基于考虑PVE的期望最小化框架。本文还提出了改进工作流程的建议,以提高其在纵向研究中的可靠性。在模拟病理图像上进行了实验,验证了不同的措施。
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引用次数: 2
Defining cortical sulcus patterns using partial clustering based on bootstrap and bagging 使用基于引导和套袋的部分聚类来定义皮质沟模式
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541325
Z. Sun, D. Rivière, E. Duchesnay, B. Thirion, F. Poupon, J. F. Mangin
The cortical folding patterns are very different from one individual to another. Here we try to find folding patterns automatically using large-scale datasets by non-supervised clustering analysis. The sulci of each brain are detected and identified using the brain VIS A open software. The 3D moment invariants are calculated and used as the shape descriptors of the sulci identified. A partial clustering algorithm using bootstrap sampling and bagging (PCBB) is devised for cortical pattern mining. Partial clusters are found using a modified hierarchical clustering method constrained by an objective function which looks for the most compact and dissimilar clusters. Bagging is used to increase stability. Experiments on simulated and real datasets are used to demonstrate the strength and stability of this algorithm compared to other standard approaches. Some cortical patterns are found using our method. In particular, the patterns found for the left cingulate sulcus are consistent with the patterns described in the atlas of Ono.
大脑皮层的折叠模式因人而异。在这里,我们尝试使用非监督聚类分析来自动发现大规模数据集的折叠模式。利用脑可视化开放软件对各脑沟进行检测和识别。计算了三维矩不变量,并将其作为所识别沟的形状描述符。提出了一种基于自举采样和装袋(PCBB)的局部聚类算法。在目标函数约束下,采用改进的分层聚类方法寻找最紧凑和最不相似的聚类。装袋是为了增加稳定性。在模拟和真实数据集上的实验证明了该算法与其他标准方法相比的强度和稳定性。用我们的方法发现了一些皮层模式。特别是,左扣带沟的模式与Ono图谱中描述的模式一致。
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引用次数: 7
Performance evaluation of multiresolution texture analysis of stem cell chromatin 干细胞染色质多分辨率纹理分析的性能评价
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541012
R. Mangoubi, Mukund Desai, N. Lowry, P. Sammak
We apply texture image analysis to automated classification of stem cell nuclei, based on the observation that chromatin in human embryonic stem cells becomes more granular during differentiation. Using known probability models for texture multiresolution decompositions, we derive likelihood ratio test statistics. We also derive the probability density functions of these non-Gaussian statistics and use them to evaluate the performance of the classification test. Results indicate that the test can distinguish with probability 0.95 between nuclei that are pluripotent and those with varying degrees of differentiation. The test recognizes nuclei with similar differentiation level even if prior information says the contrary. This approach should be useful for classifying genome-wide epigenetic changes and chromatin remodeling during human development. Finally, the test statistics and their density functions are applicable to a general texture classification problem.
基于观察到人类胚胎干细胞在分化过程中染色质变得更加颗粒化,我们将纹理图像分析应用于干细胞细胞核的自动分类。利用已知的纹理多分辨率分解概率模型,推导出似然比检验统计量。我们还推导了这些非高斯统计量的概率密度函数,并用它们来评估分类测试的性能。结果表明,该试验能以0.95的概率区分多能性细胞核和分化程度不同的细胞核。即使先前的信息相反,该测试也能识别出分化水平相似的细胞核。该方法将有助于对人类发育过程中全基因组表观遗传变化和染色质重塑进行分类。最后,测试统计量及其密度函数适用于一般的纹理分类问题。
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引用次数: 14
A quantification framework for post-lesion neo-vascularization in retinal angiography 视网膜血管造影中病变后新血管形成的量化框架
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541282
S. Takerkart, Romain Fenouil, Jérome Piovano, A. Reynaud, L. Hoffart, F. Chavane, T. Papadopoulo, J. Conrath, G. Masson
We describe an image processing framework designed to detect and quantify the genesis of microscopic choroidal blood vessels. We used fluorescein angiography to monitor the dynamic of neo-vascularization of the retina after inducing lesions with a calibrated laser pulse. The angiogenesis can be revealed by an increase in the overall fluorescence level and/or diffusion size of the lesion. The proposed framework allows measuring both features from mis-aligned angiograms acquired with different gains and contrasts. It consists in aligning all the images, homogenizing their intensity characteristics and segmenting the lesions. In particular, we implemented a level set segmentation algorithm to delineate the diffusion area. We show that our framework allows detecting neo-vascularization when one of these features changes by less than 10%.
我们描述了一个图像处理框架,旨在检测和量化微观脉络膜血管的起源。我们使用荧光素血管造影监测视网膜新血管形成的动态后,诱发病变与校准激光脉冲。血管新生可以通过病变的总体荧光水平和/或扩散大小的增加来显示。所提出的框架允许测量从不同增益和对比度获得的不对齐血管造影的两个特征。它包括对齐所有图像,均匀化其强度特征和分割病变。特别地,我们实现了一种水平集分割算法来描绘扩散区域。我们表明,当这些特征中的一个变化小于10%时,我们的框架允许检测新血管化。
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引用次数: 9
Tomographic image reconstruction from limited-view projections with Wiener filtered focuss algorithm 基于维纳滤波聚焦算法的有限视点投影层析图像重建
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541109
R. Zdunek, Zhaoshui He, A. Cichocki
In tomographic image reconstruction from limited-view projections the underlying inverse problem is ill-posed with the rank-deficient system matrix. The minimal-norm least squares solution may considerably differs from the true solution, and hence a priori knowledge is needed to improve the reconstruction. In our approach, we assume that the true image presents sparse features with uniform spacial smoothness. The sparsity constraints are imposed with the lscrp diversity measure that is minimized with the FOCUSS algorithm. The spacial smoothness is enforced with the adaptive Wiener noise removing implemented in each FOCUSS iterations. The simulation results demonstrate the benefits of the proposed approach.
在有限视投影层析图像重建中,存在秩不足系统矩阵的不适定问题。最小范数最小二乘解可能与真实解相差很大,因此需要先验知识来改进重建。在我们的方法中,我们假设真实图像具有均匀空间平滑的稀疏特征。稀疏性约束由lscrp分集度量施加,该分集度量通过focus算法最小化。通过在每次focus迭代中实现自适应维纳噪声去除来增强空间平滑性。仿真结果表明了该方法的有效性。
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引用次数: 5
Adaptive mean-shift registration of white matter tractographies 白质束状图的自适应平均偏移配准
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541090
Orly Zvitia, Arnaldo Mayer, H. Greenspan
In this paper we present a robust approach to the registration of white matter tractographies extracted from DT-MRI scans. The fibers are projected into a high dimensional feature space defined by the sequence of their 3D coordinates. Adaptive mean-shift (AMS) clustering is applied to extract a compact set of representative fiber-modes (FM). Each FM is assigned to a multivariate Gaussian distribution according to its population thereby leading to a Mixture of Gaussians (MoG) representation for the entire set of fibers. The registration between two fiber sets is treated as the alignment of two MoGs and is performed by maximizing their correlation ratio. A 9 parameter affine transform is recovered and eventually refined to a 12 parameters affine transform using an innovative mean-shift (MS) based registration refinement scheme presented in this paper. The validation of the algorithm on intra-subject data demonstrates its robustness against two main tractography artifacts: interrupted and deviating fiber tracts.
在本文中,我们提出了一种强大的方法来注册从DT-MRI扫描中提取的白质束图。这些纤维被投射到由其三维坐标序列定义的高维特征空间中。采用自适应均值移聚类方法提取具有代表性的光纤模式。每个调频被分配到一个多元高斯分布根据其人口,从而导致一个混合高斯(MoG)表示整个光纤集。两个光纤组之间的配准被视为两个mog的对准,并通过最大化它们的相关比来实现。本文提出了一种新颖的基于mean-shift (MS)的配准细化方案,将9参数仿射变换恢复并最终细化为12参数仿射变换。对受试者内部数据的验证表明,该算法对两种主要的纤维束伪影:中断和偏离纤维束具有鲁棒性。
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引用次数: 11
Toward automatic zonal segmentation of prostate by combining a deformable model and a probabilistic framework 结合可变形模型和概率框架实现前列腺的自动分区分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540934
N. Makni, P. Puech, Renaud Lopes, A. Dewalle-Vignion, O. Colot, N. Betrouni
This paper introduces an original method for automatic 3D segmentation of the prostate gland from Magnetic Resonance Imaging data. A statistical geometric model is used as a priori knowledge. Prostate boundaries are then optimized by a Bayesian classification based on Markov fields modelling. We compared the accuracy of this algorithm, free from any manual correction, with contours outlined by an expert radiologist. In 3 random cases, including prostates with cancer and benign prostatic hypertrophy (BPH), mean Hausdorff s distance (HD) and overlap ration (OR) were 8.07 mm and 0.82, respectively. Despite fast computing times, this new method showed satisfying results, even at prostate base and apex. Also, we believe that this approach may allow delineating the peripheral zone (PZ) and the transition zone (TZ) within the gland in a near future.
介绍了一种基于磁共振成像数据的前列腺自动三维分割方法。统计几何模型被用作先验知识。然后通过基于马尔可夫场建模的贝叶斯分类优化前列腺边界。我们比较了该算法的准确性,没有任何人工校正,轮廓轮廓由放射科专家勾画。随机3例前列腺癌和良性前列腺肥大(BPH)患者,平均Hausdorff距离(HD)为8.07 mm,重叠比(OR)为0.82。尽管计算速度快,但这种新方法即使在前列腺基部和尖端也显示出令人满意的结果。此外,我们相信这种方法可以在不久的将来划定腺体内的外周区(PZ)和过渡区(TZ)。
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引用次数: 5
Spatial normalisation of three-dimensional neuroanatomical models using shape registration, averaging, and warping 使用形状配准、平均和翘曲的三维神经解剖模型的空间归一化
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541213
P. Andrey, E. Maschino, Y. Maurin
In neuroanatomical studies, the specimens are generally cut into serial sections that are processed to reveal the elements of interest. The third dimension lost during sectioning can be recovered by reconstructing three-dimensional graphical models of the studied structures. To reach statistical significance and to compare results from distinct experiments, data from different models must be combined into common representations. Due to biological and experimental variability, this requires a non-linear spatial normalisation step. In this paper, an algorithm is presented to normalise and map data into average models. The usefulness of the approach for elucidating spatial organisations in the nervous system is illustrated on rat neuroanatomical data.
在神经解剖学研究中,标本通常被切成连续的部分,经过处理以揭示感兴趣的元素。通过重建所研究结构的三维图形模型,可以恢复切片过程中丢失的第三维。为了达到统计显著性和比较不同实验的结果,必须将来自不同模型的数据组合成共同的表示。由于生物和实验的可变性,这需要非线性空间归一化步骤。本文提出了一种将数据归一化并映射为平均模型的算法。该方法对阐明神经系统空间组织的有用性在大鼠神经解剖学数据上得到了说明。
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引用次数: 8
期刊
2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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