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

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Classification of breast-tissue microarray spots using colour and local invariants 利用颜色和局部不变量对乳腺组织微阵列斑点进行分类
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541167
Telmo Amaral, S. McKenna, K. Robertson, A. Thompson
Breast tissue microarrays facilitate the survey of very large numbers of tumours but their scoring by pathologists is time consuming, typically highly quantised and not without error. Automated segmentation of cells and intra-cellular compartments in such data can be problematic for reasons that include cell overlapping, complex tissue structure, debris, and variable appearance. This paper proposes a computationally efficient approach that uses colour and differential invariants to assign class posterior probabilities to pixels and then performs probabilistic classification of TMA spots using features analogous to the Quickscore system currently used by pathologists. It does not rely on accurate segmentation of individual cells. Classification performance at both pixel and spot levels was assessed using 110 spots from the adjuvant breast cancer (ABC) chemotherapy trial. The use of differential invariants in addition to colour yielded a small improvement in accuracy. Some reasons for classification results in disagreement with pathologist-provided labels are discussed and include noise in the class labels.
乳腺组织微阵列有助于对大量肿瘤的调查,但病理学家对其进行评分是耗时的,通常是高度量化的,而且并非没有错误。由于细胞重叠、复杂的组织结构、碎片和变化的外观等原因,这种数据中的细胞和细胞内区室的自动分割可能存在问题。本文提出了一种计算效率高的方法,该方法使用颜色和微分不变量将类后验概率分配给像素,然后使用类似于病理学家目前使用的Quickscore系统的特征对TMA点进行概率分类。它不依赖于单个细胞的精确分割。使用辅助乳腺癌(ABC)化疗试验中的110个点来评估像素和点水平的分类性能。除了使用颜色外,还使用微分不变量,准确度有了小小的提高。本文讨论了与病理学家提供的标签不一致的分类结果的一些原因,包括分类标签中的噪声。
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引用次数: 16
Unsupervised segmentation of cell nuclei using geometric models 利用几何模型对细胞核进行无监督分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541099
Shaun Fitch, Trevor Jackson, Péter András, C. Robson
Fluorescent microscopy of biological samples allows non-invasive screening of specific molecular events in-situ. This approach is useful for investigating intricate signalling pathways and in the drug discovery process. The large volumes of data involved in image analysis are a limiting factor. As manual image interpretation relies on expensive manpower automated analysis is a far more appropriate solution. In this paper we discuss our approach to achieve reliable automated segmentation of individual cell nuclei from wide field images taken of prostate cancer cells. We present a novel analysis routine to accurately identify cell nuclei based upon intensity clustering and morphological validation using a data derived geometric model. This approach is shown to consistently outperform the standard analysis technique using real data.
生物样品的荧光显微镜允许非侵入性筛选特定的分子事件在现场。这种方法对于研究复杂的信号通路和药物发现过程是有用的。图像分析中涉及的大量数据是一个限制因素。由于人工图像判读依赖于昂贵的人力,自动分析是一个更合适的解决方案。在本文中,我们讨论了我们的方法,以实现可靠的自动分割单个细胞核从摄于前列腺癌细胞的宽视场图像。我们提出了一种新的分析程序,以准确地识别基于强度聚类和形态学验证的细胞核使用数据衍生的几何模型。事实证明,使用实际数据,这种方法的性能始终优于标准分析技术。
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引用次数: 0
Segmentation of the evolving left ventricle by learning the dynamics 通过动态学习对左心室进行分割
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4540974
Walter Sun, M. Çetin, R. Chan, A. Willsky
We propose a method for recursive segmentation of the left ventricle (LV) across a temporal sequence of magnetic resonance (MR) images. The approach involves a technique for learning the LV boundary dynamics together with a particle-based inference algorithm on a loopy graphical model capturing the temporal periodicity of the heart. The dynamic system state is a low-dimensional representation of the boundary, and boundary estimation involves incorporating curve evolution into state estimation. By formulating the problem as one of state estimation, the segmentation at each particular time is based not only on the data observed at that instant, but also on predictions based on past and future boundary estimates. We assess and demonstrate the effectiveness of the proposed framework on a large data set of breath-hold cardiac MR image sequences.
我们提出了一种方法递归分割左心室(LV)跨越时间序列的磁共振(MR)图像。该方法包括一种学习左心室边界动力学的技术,以及一种基于粒子的推理算法,该算法基于捕获心脏时间周期性的环形图形模型。动态系统状态是边界的低维表示,边界估计涉及到将曲线演化纳入状态估计。通过将问题表述为状态估计问题,每个特定时刻的分割不仅基于该时刻的观测数据,还基于基于过去和未来边界估计的预测。我们评估并证明了所提出的框架在憋气心脏MR图像序列的大型数据集上的有效性。
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引用次数: 3
Development of FMRI techniques for planning in functional neurosurgery for Parkinson’s disease 功能磁共振成像技术在帕金森病功能神经外科计划中的发展
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541232
M. Chakravarty, P. Rosa-Neto, S. Broadbent, Alan C. Evans, D. Collins
Pre-operative neurosurgical planning often uses data from functional magnetic resonance imaging (fMRI) to identify areas of eloquent cortex, such as the primary and secondary somatosensory cortices, to be spared during surgery. However, the in-vivo visualization of subcortical neurosurgical targets has typically involved the warping of subcortical atlases or T2- and diffusion-weighted imaging techniques to help define the anatomical borders. We propose a novel vibrotactile stimulation technique to activate the somatosensory pathway, and particularly the sensory thalamus. Experiments were executed on two MRI scanners (1.5T and 3.0T). A sensitivity analysis demonstrated that statistically significant functional activations of the sensory thalamus can be in achieved in clinically acceptable time (32 minutes at 1.5T and 12 minutes at 3.0T), thus enabling this technique to be used for pre-operative planning in patients.
术前神经外科计划通常使用功能磁共振成像(fMRI)的数据来确定在手术中要保留的功能皮层区域,如初级和次级体感皮层。然而,皮质下神经外科靶点的体内可视化通常涉及皮质下地图集的翘曲或T2和弥散加权成像技术,以帮助确定解剖边界。我们提出了一种新的振动触觉刺激技术来激活体感觉通路,特别是感觉丘脑。实验在两台1.5T和3.0T的MRI扫描仪上进行。敏感性分析表明,在临床可接受的时间内(1.5T时32分钟,3.0T时12分钟),可以实现具有统计学意义的感觉丘脑功能激活,从而使该技术可用于患者的术前计划。
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引用次数: 4
On the registrability of two CT volumes 关于两个CT卷的可注册性
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541187
D. Fiorin, M. Jolly, Charles Florin
This paper describes a method to determine whether two CT volumes overlap in anatomy or not. This is an important problem because radiologists have to manually select which series should be registered together for follow-up exams. This task is becoming more and more tedious as the number of studies and series for each patient increases in large hospital settings, and meta-data is often erroneous, incomplete, or inconsistent, and therefore unreliable. We demonstrate on 40 patients and 100 possible matches that our tool is successful in identifying the overlapping (or registrable) cases automatically. We also show that this is not possible using the residual error after registration.
本文介绍了一种确定两个CT容积在解剖上是否重叠的方法。这是一个重要的问题,因为放射科医生必须手动选择哪些系列应该一起注册以进行后续检查。随着大型医院中针对每位患者的研究和系列数量的增加,这项任务变得越来越乏味,而且元数据往往是错误的、不完整的或不一致的,因此是不可靠的。我们在40名患者和100个可能的匹配中证明,我们的工具可以成功地自动识别重叠(或可注册)的病例。我们还表明,使用配准后的残差是不可能的。
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引用次数: 2
Branching medial models for cardiac shape representation 心脏形状表征的分支内侧模型
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541289
Hui Sun, B. Avants, Alejandro F Frangi, S. Ordas, J. Gee, Paul Yushkevich
The cm-rep (continuous medial representation) is a powerful shape representation method that models a 3D object by describing its medial axis (skeleton) and boundary as continuous parametric manifolds. It provides parametrization of the entire interior of the object, which can be used for combined statistical analysis of shape and appearance. This paper extends the cm-rep to more complex shapes with multi-figures, i.e., shapes whose skeletons have branches. Along the branching curves, the equality constraints enforced by the medial geometry are implemented as soft penalties in the deformable model. The remaining small violations are corrected by local adjustments. As a proof of concept, the branching continuous medial representation is applied to a 2-chamber heart model data set consisting of 428 cardiac shapes from 90 subjects. The results show that our model can capture the heart shape accurately.
cm-rep(连续内侧表示)是一种强大的形状表示方法,它通过将物体的内侧轴(骨架)和边界描述为连续参数流形来建模三维物体。它提供了整个物体内部的参数化,可用于形状和外观的组合统计分析。本文将cm-rep扩展到更复杂的多图形形状,即骨架有分支的形状。在可变形模型中,沿分支曲线,由中间几何施加的等式约束作为软惩罚实现。其余的小违例通过局部调整加以纠正。作为概念证明,分支连续的内侧表示被应用于由来自90个受试者的428个心脏形状组成的2室心脏模型数据集。结果表明,该模型能够准确地捕捉到心脏的形状。
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引用次数: 9
Sampling strategies in multiple-image radiography 多图像放射照相中的采样策略
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541089
K. Majidi, J. Brankov, M. Wernick
Multiple-Image Radiography (MIR) is an analyzer-based phase-sensitive x-ray imaging method, which is a potential alternative to conventional radiography. MIR simultaneously generates three planar images containing information about scattering, refraction and absorption properties of the object. These parametric images are acquired by sampling the angular intensity profile of the beam passing through the object at different positions of the analyzer crystal. Like many of the modern imaging techniques, MIR is a computing imaging method and the noise in MIR, in addition to the imaging conditions, depends also on the estimation of the parameters. In this work, we use Cramer-Rao lower bound to quantify the noise in MIR estimated images and investigate the effect of different sampling strategies at the analyzer on this bound. We also evaluate the performance of an estimator with respect to this bound.
多图像放射照相(MIR)是一种基于分析仪的相敏x射线成像方法,是传统放射照相的潜在替代方法。MIR同时生成三个平面图像,其中包含物体的散射、折射和吸收特性信息。这些参数图像是通过在分析仪晶体的不同位置采样穿过物体的光束的角强度分布来获得的。像许多现代成像技术一样,MIR是一种计算成像方法,MIR中的噪声除了成像条件外,还取决于参数的估计。在这项工作中,我们使用Cramer-Rao下界来量化MIR估计图像中的噪声,并研究了分析仪上不同采样策略对该下界的影响。我们也评估了关于这个界的估计量的性能。
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引用次数: 7
MRI inter-packet movement correction for images acquired with non-complementary data 非互补数据获取图像的MRI包间运动校正
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541021
E. Gedamu, Abraham Gedamu, D. Arnold, D. Collins
Movement during the acquisition of magnetic resonance images can cause artifacts that interfere with subsequent image analysis. In this paper we address the problem of inter-packet motion and provide a method to minimize errors associated with this artifact. The procedure is based on an iterative packet-to-volume registration process and does not require complementary information such as multimodal acquisitions or protocols that provide redundant volume data. A Kaiser-Bessel function is used to interpolate missing data. Experiments with simulated data demonstrate that the packet-to-volume registration improves greatly after a single iteration and maintains improvement for the following iterations, while experiments with real data demonstrate a substantial reduction in associated artifacts and improvement in quality. In both cases anatomical integrity is preserved after reconstruction.
在磁共振图像采集过程中的运动可能导致干扰后续图像分析的伪影。在本文中,我们解决了包间运动的问题,并提供了一种方法来最小化与该工件相关的错误。该程序基于迭代的包到卷注册过程,不需要补充信息,如多模式采集或提供冗余卷数据的协议。使用Kaiser-Bessel函数来插值缺失的数据。用模拟数据进行的实验表明,在一次迭代之后,包到卷的注册得到了极大的改进,并在随后的迭代中保持了改进,而用真实数据进行的实验表明,相关的工件大大减少,质量得到了提高。在这两种情况下,重建后都保持了解剖的完整性。
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引用次数: 5
Classification of dementia from FDG-PET parametric images using data mining 基于数据挖掘的FDG-PET参数图像痴呆分类
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541020
L. Wen, M. Bewley, S. Eberl, M. Fulham, D. Feng
It remains a challenge to identify the different types of dementia and separate these from various subtypes from the normal effects of ageing. In this paper the potential of parametric images from FDG-PET studies to aid the classification of dementia using data mining techniques was investigated. Scalar, joint, histogram and voxel-level features were used in the investigation with principal component analysis (PCA) for dimensionality reduction. The logistic regression model and the additive logistic regression model were applied in the classification. The results show that cerebral metabolic rate of glucose consumption (CMRGlc) was efficient in the classification of dementia and data mining using voxel-level features with PCA and the logistic regression model method achieving the best classification.
识别不同类型的痴呆症,并将其与衰老正常影响的各种亚型区分开来,仍然是一项挑战。本文研究了FDG-PET研究中参数化图像的潜力,以帮助使用数据挖掘技术对痴呆症进行分类。在调查中使用了标量、联合、直方图和体素级特征,并使用主成分分析(PCA)进行降维。采用逻辑回归模型和加性逻辑回归模型进行分类。结果表明,脑葡萄糖消耗代谢率(CMRGlc)对痴呆的分类是有效的,采用体素级特征的数据挖掘与主成分分析和逻辑回归模型方法的分类效果最好。
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引用次数: 10
Image-based simulation of brain arteriovenous malformation hemodynamics 基于图像的脑动静脉畸形血流动力学模拟
Pub Date : 2008-05-14 DOI: 10.1109/ISBI.2008.4541086
P. Orlowski, J. Noble, Y. Ventikos, J. Byrne, P. Summers
A novel image-based patient-specific simulation method has been developed incorporating computational fluid dynamics (CFD) and porous media principles which presents, for the first time, patient-specific blood flow through an arteriovenous malformation of the brain (BAVM). The new approach constructs an image-based geometric model of a malformation where the BAVM nidus is modelled as a porous medium. The method has been applied to a brain BAVM case with two feeding and four draining vessels. A qualitative comparison of the simulation results with blood flow imaging data shows the promise of the approach and suggests that the method may find application in planning for BAVM treatment.
结合计算流体动力学(CFD)和多孔介质原理,开发了一种新的基于图像的患者特异性模拟方法,首次展示了通过脑动静脉畸形(BAVM)的患者特异性血液流动。新方法构建了一个基于图像的畸形几何模型,其中BAVM中心被建模为多孔介质。该方法已应用于2条进、4条引流血管的脑脊髓损伤病例。仿真结果与血流成像数据的定性比较显示了该方法的前景,并表明该方法可能在BAVM治疗计划中得到应用。
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引用次数: 4
期刊
2008 5th IEEE International Symposium on Biomedical Imaging: From Nano to Macro
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