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2013 International Workshop on Pattern Recognition in Neuroimaging最新文献

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Stability-Based Multivariate Mapping Using SCoRS 基于稳定性的多变量SCoRS映射
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.58
J. Rondina, J. Shawe-Taylor, J. Miranda
Recently we proposed a feature selection method based on stability theory (SCoRS - Survival Count on Random Subspaces) and showed that the proposed approach was able to improve classification accuracy using different datasets. In the present work we propose: (i) an extension of SCoRS using reproducibility instead of model accuracy as the parameter optimization criterion and (ii) a procedure to estimate the rate of false positive selection associated with the set of features obtained. Our results using the proposed framework showed that, as expected, the optimal parameter was more stable across the cross-validation folds, the spatial map displaying the features selected was less noisy and there was no decrease in classification accuracy. In addition, our results suggest that the estimated false positive rate for the features selected by SCoRS is under 0.05 for both optimization approaches, nevertheless lower when optimizing reproducibility in comparison with the standard optimization approach.
最近,我们提出了一种基于稳定性理论的特征选择方法(SCoRS - Survival Count on Random Subspaces),并表明该方法能够在不同的数据集上提高分类精度。在目前的工作中,我们提出:(i)使用可重复性而不是模型精度作为参数优化标准的SCoRS扩展;(ii)估计与所获得的特征集相关的假阳性选择率的程序。我们使用该框架的结果表明,正如预期的那样,最优参数在交叉验证折叠中更加稳定,显示所选特征的空间地图噪声更小,分类精度没有下降。此外,我们的结果表明,两种优化方法对SCoRS选择的特征的估计假阳性率都在0.05以下,但在优化再现性时,与标准优化方法相比,假阳性率较低。
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引用次数: 4
MVPA Permutation Schemes: Permutation Testing in the Land of Cross-Validation MVPA排列方案:交叉验证领域的排列测试
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.44
J. Etzel, T. Braver
Permutation tests are widely used for significance testing in classification-based fMRI analyses, but the precise manner of relabeling varies, and is generally non-trivial for MVPA because of the complex data structure. Here, we describe two common means of carrying out permutation tests. In the first, which we call the "dataset-wise" scheme, the examples are relabeled prior to conducting the cross-validation, while in the second, the "fold-wise" scheme, each fold of the cross-validation is relabeled independently. While the dataset-wise scheme maintains more of the true dataset's structure, additional work is needed to determine which method should be preferred in practice, since the two methods often result in different null distributions (and so p-values).
在基于分类的fMRI分析中,排列检验被广泛用于显著性检验,但重新标记的精确方式各不相同,并且由于数据结构复杂,对于MVPA来说通常是不平凡的。在这里,我们描述了进行排列检验的两种常用方法。在第一种方案中,我们称之为“数据集智能”方案,示例在进行交叉验证之前被重新标记,而在第二种方案中,“折叠智能”方案,交叉验证的每个折叠都被独立地重新标记。虽然数据集智能方案维护了更多真实数据集的结构,但需要额外的工作来确定在实践中应该首选哪种方法,因为这两种方法通常会导致不同的零分布(以及p值)。
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引用次数: 40
Identifying Predictive Regions from fMRI with TV-L1 Prior 利用TV-L1先验识别fMRI预测区域
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.14
Alexandre Gramfort, B. Thirion, G. Varoquaux
Decoding, i.e. predicting stimulus related quantities from functional brain images, is a powerful tool to demonstrate differences between brain activity across conditions. However, unlike standard brain mapping, it offers no guaranties on the localization of this information. Here, we consider decoding as a statistical estimation problem and show that injecting a spatial segmentation prior leads to unmatched performance in recovering predictive regions. Specifically, we use ℓ1-penalization to set voxels to zero and Total-Variation (TV) penalization to segment regions. Our contribution is two-fold. On the one hand, we show via extensive experiments that, amongst a large selection of decoding and brain-mapping strategies, TV+ℓ1 leads to best region recovery. On the other hand, we consider implementation issues related to this estimator. To tackle efficiently this joint prediction-segmentation problem we introduce a fast optimization algorithm based on a primal-dual approach. We also tackle automatic setting of hyper-parameters and fast computation of image operation on the irregular masks that arise in brain imaging.
解码,即从功能性脑图像中预测刺激相关数量,是证明不同条件下大脑活动差异的有力工具。然而,与标准的大脑映射不同,它不能保证这些信息的定位。在这里,我们将解码视为一个统计估计问题,并表明注入空间分割先验会导致恢复预测区域的无与伦比的性能。具体来说,我们使用1-惩罚来将体素设置为零,并使用TV惩罚来分割区域。我们的贡献是双重的。一方面,我们通过大量的实验表明,在大量的解码和脑映射策略中,TV+ 1导致最佳的区域恢复。另一方面,我们考虑与此估计器相关的实现问题。为了有效地解决这种联合预测分割问题,我们引入了一种基于原始对偶方法的快速优化算法。解决了脑成像中出现的不规则掩模的超参数自动设置和图像运算的快速计算问题。
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引用次数: 88
Simitar: Simplified Searching of Statistically Significant Similarity Structure 相似:统计显著相似结构的简化搜索
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.10
Francisco Pereira, M. Botvinick
This paper describes Simitar, a toolbox for studying the similarity structure of patterns of brain activation in different experimental conditions. We focus on supporting two types of analysis, namely, the calculation of local similarity matrices for all locations in the brain and the identification of locations where similarity has a desired structure, via an intuitive interface.
本文介绍了用于研究不同实验条件下脑激活模式相似性结构的工具箱similar。我们专注于支持两种类型的分析,即计算大脑中所有位置的局部相似性矩阵,以及通过直观的界面识别相似性具有所需结构的位置。
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引用次数: 3
Latent Variable Dimensionality Reduction Using a Kullback-Leibler Criterion and Its Application to Predict Antidepressant Treatment Response 使用Kullback-Leibler标准的潜变量降维及其在预测抗抑郁药物治疗反应中的应用
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.46
A. Khodayari-Rostamabad, J. Reilly, G. Hasey
In this paper, we propose a method for dimensionality reduction of high-dimensional input data in a binary classification problem. The method is based on selecting a few latent variables that maximize the Kullback-Leibler (KL) distance between the two class distributions, under the assumption that these distributions are multivariate Gaussian. Numerical performance is demonstrated by solving the challenging problem of classifying patients with major depressive disorder (MDD) into responders vs. non-responders to an anti-depressant treatment using pre-treatment resting electroencephalography (EEG) data. The extracted feature set measures consistent connectivity and includes the magnitude coherence features among all electrode pairs in a 3Hz to 30Hz bandwidth with 1Hz resolution. An overall 86% prediction performance indicates the effectiveness of the KLDR method in this application. This performance level was found to exceed that of other dimensionality reduction methods, namely the unsupervised principal component (PCA) and the supervised Fisher discriminant analysis (FDA) methods.
本文提出了一种对二元分类问题中高维输入数据进行降维的方法。该方法基于在假设这些分布是多元高斯分布的情况下,选择一些使两类分布之间的Kullback-Leibler (KL)距离最大化的潜在变量。通过使用治疗前静息脑电图(EEG)数据解决将重度抑郁症(MDD)患者分类为抗抑郁治疗反应者和无反应者的挑战性问题,证明了数值性能。提取的特征集测量一致的连通性,包括所有电极对在3Hz至30Hz带宽和1Hz分辨率之间的幅度相干性特征。总体86%的预测性能表明KLDR方法在该应用程序中的有效性。该性能水平优于其他降维方法,即无监督主成分(PCA)和监督Fisher判别分析(FDA)方法。
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引用次数: 0
Clustering of High Dimensional Longitudinal Imaging Data 高维纵向成像数据的聚类
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.18
Seonjoo Lee, V. Zipunnikov, N. Shiee, C. Crainiceanu, B. Caffo, D. Pham
In the study of brain disease processes and aging, longitudinal imaging studies are becoming increasingly commonplace. Indeed, there are hundreds of studies collecting multi-sequence multi-modality brain images at multiple time points on hundreds of subjects over many years. A fundamental problem in this context is how to classify subjects according to their baseline and longitudinal changes in the presence of strong spatio-temporal biological and technological measurement error. We propose a fast and scalable clustering approach by defining a metric between latent trajectories of brain images. Methods were motivated by and applied to a longitudinal voxel-based morphometry study of multiple sclerosis. Results indicate that there are two distinct patterns of ventricular change that are associated with clinical outcomes.
在脑疾病过程和衰老的研究中,纵向成像研究变得越来越普遍。事实上,有数百项研究收集了数百名受试者多年来在多个时间点的多序列多模态脑图像。在这种情况下,一个基本问题是如何根据受试者的基线和纵向变化在存在强烈的时空生物和技术测量误差的情况下对受试者进行分类。我们通过定义脑图像潜在轨迹之间的度量,提出了一种快速可扩展的聚类方法。方法的动机和应用于纵向体素形态学研究多发性硬化症。结果表明,有两种不同的心室改变模式与临床结果相关。
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引用次数: 1
Anatomically-Constrained PCA for Image Parcellation 解剖约束的PCA图像分割
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.16
Paramveer S. Dhillon, J. Gee, L. Ungar, B. Avants
Traditionally clinicians and medical researchers have been using either totally data driven approaches like PCA/CCA/ICA or ROI based analysis for exploratory analysis of brain images. However, PCA/CCA/ICA based approaches suffer from lack of interpretability of results and on the other hand ROI based approaches are too rigid and wrongly assume that the signal lies totally within a predefined region. In this paper, we propose a novel approach which stands in stark contrast with both these approaches as it borrows strength from both these paradigms and leads to statistically refined definitions of ROIs based on information from data. Our approach, called Anatomically Constrained PCA (AC-PCA) provides a principled way of incorporating prior information in the form of probabilistic or binary ROIs while still allowing the data to softly modify the original ROI definitions. Experimental results on cortical thickness images show the superiority of AC-PCA for MCI classification compared to ROI and unconstrained PCA (a totally data based approach).
传统上,临床医生和医学研究人员一直在使用完全数据驱动的方法,如PCA/CCA/ICA或基于ROI的分析来进行脑图像的探索性分析。然而,基于PCA/CCA/ICA的方法缺乏结果的可解释性,另一方面,基于ROI的方法过于死板,错误地假设信号完全位于预定义的区域内。在本文中,我们提出了一种与这两种方法形成鲜明对比的新方法,因为它借鉴了这两种范式的优势,并基于数据信息得出了roi的统计细化定义。我们的方法,称为解剖约束PCA (AC-PCA),提供了一种原则性的方法,以概率或二进制ROI的形式合并先验信息,同时仍然允许数据温和地修改原始ROI定义。皮质厚度图像的实验结果表明,与ROI和无约束PCA(一种完全基于数据的方法)相比,AC-PCA在MCI分类中的优势。
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引用次数: 4
Hemodynamic Estimation Based on Consensus Clustering 基于一致聚类的血流动力学估计
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.61
S. Badillo, G. Varoquaux, P. Ciuciu
Modern cognitive experiments in functional Magnetic Resonance Imaging (fMRI) often aim at understanding the temporal dynamics of the brain response in regions activated by a given stimulus. The study of the variability of the hemodynamic response function (HRF) and its characteristics can provide some answers. In this context, we aim at improving the accuracy of the HRF estimation. To do so, we relied on a Joint-Detection-Estimation (JDE) framework that enables robust detection of brain activity as well as HRF estimation, in a Bayesian setting [2]. So far, the hemodynamic results provided by the JDE formalism have depended on a prior parcellation of the data performed before JDE inference. In this study, we propose a new approach to relax this prior knowledge: using consensus clustering techniques based on random parcellations of the data, we combine hemodynamics results provided by different parcellations, so as to robustify the HRF estimation.
功能磁共振成像(fMRI)的现代认知实验通常旨在了解在给定刺激激活区域的大脑反应的时间动态。血液动力学反应函数(HRF)的变异性及其特征的研究可以提供一些答案。在这种情况下,我们的目标是提高HRF估计的准确性。为此,我们依赖于联合检测-估计(JDE)框架,该框架能够在贝叶斯设置下对大脑活动进行鲁棒检测以及HRF估计。到目前为止,由JDE形式化提供的血流动力学结果依赖于在JDE推断之前执行的数据的预先分割。在这项研究中,我们提出了一种新的方法来放松这种先验知识:使用基于数据随机分组的共识聚类技术,我们将不同分组提供的血流动力学结果结合起来,从而增强HRF估计。
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引用次数: 12
Discovering Regional Pathological Patterns in Brain MRI 发现脑MRI的区域病理模式
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.47
Andrea Pulido, A. Rueda, E. Romero, N. Malpica
Complex pathological brain patterns generally are found in neurodegenerative diseases which can be correlated with different clinical onsets of a particular pathology. Currently, an objective method that aids to determine such signs, in terms of global and local changes, is not available in clinical practice and the whole interpretation is dependent on the radiologist's skills. In this paper, we propose a fully automatic method that analyzes the brain structure under a multidimensional frame and highlights relevant brain patterns. An association of such patterns with the disease is herein evaluated in three classification tasks, involving probable Alzheimer's disease (AD) patients, Mild Cognitive Impairment (MCI) patients and normal subjects (NC). A set of 75 brain MR images from NC subjects (25), MCI (25) and probable AD (25) patients, split into training (15 subjects) and testing (60 subjects) sets, was used to evaluate the performance of the proposed approach. Preliminary results show that the proposed method reaches a maximum classification accuracy of 80% when discriminating AD patients from NC, of 75% for classification of MCI patients from NC.
复杂的病理脑模式通常在神经退行性疾病中发现,这可能与特定病理的不同临床发病有关。目前,在临床实践中还没有一种客观的方法来帮助确定这些体征,从全局和局部变化的角度来看,整个解释取决于放射科医生的技能。在本文中,我们提出了一种在多维框架下分析大脑结构并突出相关大脑模式的全自动方法。本文通过三种分类任务评估了这种模式与疾病的关联,包括可能的阿尔茨海默病(AD)患者、轻度认知障碍(MCI)患者和正常受试者(NC)。一组来自NC(25)、MCI(25)和疑似AD(25)患者的75张脑MR图像,分为训练(15)组和测试(60)组,用于评估所提出方法的性能。初步结果表明,该方法在区分AD患者和NC患者时准确率最高可达80%,在区分MCI患者和NC患者时准确率最高可达75%。
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引用次数: 3
Predicting Treatment Response from Resting State fMRI Data: Comparison of Parcellation Approaches 从静息状态fMRI数据预测治疗反应:分割方法的比较
Pub Date : 2013-06-22 DOI: 10.1109/PRNI.2013.64
Satrajit S. Ghosh, A. Keshavan, G. Langs
Resting state fMRI reveals intrinsic network characteristics present in the brain. They are correlated with behavioral measures, and have made surprising insights in the brains' connectivity structure possible. At the core of many of those studies is the correlation of behavioral measures, and the characteristics of networks among a set of brain regions. In this paper we evaluate methods that identify functional networks in resting state fMRI in light of predicting treatment response of patients suffering from social anxiety disorder. Results illustrate differences in prediction when obtaining network labelings by population-wide-clustering, subject-specific parcellation, transferring anatomical region labels, or mapping networks from a previous large scale resting state study.
静息状态功能磁共振成像揭示了大脑中存在的内在网络特征。它们与行为测量相关联,并使对大脑连接结构的惊人见解成为可能。这些研究的核心是行为测量的相关性,以及一组大脑区域之间网络的特征。在本文中,我们评估了在静息状态fMRI中识别功能网络的方法,以预测患有社交焦虑障碍的患者的治疗反应。结果表明,当通过全人群聚类、特定主题分组、转移解剖区域标签或从先前的大规模静息状态研究中绘制网络时,获得网络标记的预测差异。
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引用次数: 3
期刊
2013 International Workshop on Pattern Recognition in Neuroimaging
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