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CN116309336B - Extraction method of key image marker of vascular cognitive impairment - Google Patents

Extraction method of key image marker of vascular cognitive impairment Download PDF

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CN116309336B
CN116309336B CN202310098020.6A CN202310098020A CN116309336B CN 116309336 B CN116309336 B CN 116309336B CN 202310098020 A CN202310098020 A CN 202310098020A CN 116309336 B CN116309336 B CN 116309336B
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秦琪
唐毅
李春林
邢怡
屈俊达
尹筠思
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Abstract

本申请提供了一种血管认知障碍的关键影像标记物的提取方法,所述方法包括1)获取正常人和血管性认知障碍患者的静息态功能磁共振成像数据及磁共振弥散张量成像数据,分析并提取静息态功能磁共振成像数据及磁共振弥散张量成像数据以获得多模态磁共振神经影像数据的影像指标;2)多模态磁共振神经影像数据的影像指标的预处理;3)影像指标的选择和模型的构建;4)影像标记物的提取;5)影像标记物与神经认知量表的回归分析。本申请的方法使用无监督K均值聚类的方式开发了多模态神经影像标记物的提取方法,在众多的多模态神经影像数据的指标中找到关键的影像标记物;为VCI的早期精准诊治服务,为临床VCI脑机制的研究提供辅助和依据。

The present application provides a method for extracting key imaging markers of vascular cognitive impairment, the method comprising: 1) obtaining resting-state functional magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data of normal people and patients with vascular cognitive impairment, analyzing and extracting resting-state functional magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data to obtain imaging indicators of multimodal magnetic resonance neuroimaging data; 2) preprocessing of imaging indicators of multimodal magnetic resonance neuroimaging data; 3) selection of imaging indicators and construction of models; 4) extraction of imaging markers; 5) regression analysis of imaging markers and neurocognitive scales. The method of the present application uses unsupervised K-means clustering to develop a method for extracting multimodal neuroimaging markers, find key imaging markers among the indicators of numerous multimodal neuroimaging data; serve the early and accurate diagnosis and treatment of VCI, and provide assistance and basis for the study of clinical VCI brain mechanisms.

Description

一种血管认知障碍的关键影像标记物的提取方法A method for extracting key imaging markers of vascular cognitive impairment

发明领域Field of the Invention

本发明涉及神经影像标记物领域,具体地,本申请提供了一种血管认知障碍的关键影像标记物的提取方法。The present invention relates to the field of neuroimaging markers. Specifically, the present application provides a method for extracting key imaging markers of vascular cognitive impairment.

背景技术Background technique

血管性认知功能障碍(vascular cognitive impairment,VCI)是指由脑血管病危险因素和脑血管疾病引起的一类认知功能损害综合征。随着人口老龄化,我国VCI的患病率日益升高,其可严重影响患者日常生活质量,使患者家属背负沉重的精神和经济负担。Vascular cognitive impairment (VCI) refers to a type of cognitive impairment syndrome caused by cerebrovascular risk factors and cerebrovascular diseases. With the aging of the population, the prevalence of VCI in my country is increasing, which can seriously affect the daily quality of life of patients and place a heavy mental and economic burden on the patients' families.

VCI涵盖了起源于脑血管病变的轻度认知功能障碍至血管性痴呆的所有疾病阶段,根据临床表现分为三个亚型:非痴呆型血管性认知障碍(vascular cognitiveimpairment no dementia,VCIND)、血管性痴呆(vascular dementia,VaD)和混合性痴呆(mixed dementia,MD),其中VCIND是VCI最常见的亚型。根据所在团队牵头的中国认知和衰老研究表明VCIND占中国血管性认知障碍患者总数的42%,是其中最常见亚型。加拿大老年研究中心通过5年随访发现,46%的VCIND患者将进展为VaD。由此说明,对VCI患者进行早期发现、早期诊断、早期干预,VCI covers all disease stages from mild cognitive impairment originating from cerebrovascular lesions to vascular dementia. It is divided into three subtypes according to clinical manifestations: vascular cognitive impairment without dementia (VCIND), vascular dementia (VaD) and mixed dementia (MD), of which VCIND is the most common subtype of VCI. According to the Chinese Cognitive and Aging Study led by his team, VCIND accounts for 42% of the total number of patients with vascular cognitive impairment in China, making it the most common subtype. The Canadian Centre for Aging Research found through a 5-year follow-up that 46% of VCIND patients will progress to VaD. This shows that early detection, early diagnosis, and early intervention of VCI patients are necessary.

目前VCI的诊断及分型仍以临床表现及神经心理量表为主,主观性较大,不利于临床早期诊断和预防。大量研究报道血管认知障碍患者的脑结构及脑功能与正常受试间存在明显差异,有益于对VCI的诊断,提取简单且客观的影像学标记物具有一定意义。磁共振成像的不同模态数据可用于客观量化脑功能及结构的变化,但脑功能及脑结构等特征繁杂冗余。机器学习方法可以很好融合分析多模态冗余的特征,通过机器学习目标函数的设定约束模型并提取具有贡献的指标。而常用方法通常为有监督方法,模型鲁棒性无法得到充分的验证。常规机器学习方法推理过程较难根据VCI的神经影像特征等指标建立人可理解的含义,其可解释性往往不强。此外,文调研表明,目前尚无针对VCI的影像标记物提取和诊疗的有效方法。因此,有必要开发一种无监督,易解释,简单客观的多模态神经影像学标记物提取的方法。At present, the diagnosis and classification of VCI are still mainly based on clinical manifestations and neuropsychological scales, which are highly subjective and not conducive to early clinical diagnosis and prevention. A large number of studies have reported that there are significant differences in brain structure and function between patients with vascular cognitive impairment and normal subjects, which is beneficial to the diagnosis of VCI. Extracting simple and objective imaging markers is of certain significance. Different modality data of magnetic resonance imaging can be used to objectively quantify changes in brain function and structure, but the characteristics of brain function and brain structure are complicated and redundant. Machine learning methods can well integrate and analyze the features of multimodal redundancy, constrain the model through the setting of machine learning objective functions, and extract contributing indicators. However, the commonly used methods are usually supervised methods, and the robustness of the model cannot be fully verified. The reasoning process of conventional machine learning methods is difficult to establish human-understandable meanings based on indicators such as VCI neuroimaging features, and its interpretability is often not strong. In addition, the research shows that there is currently no effective method for the extraction and diagnosis of imaging markers for VCI. Therefore, it is necessary to develop an unsupervised, easy-to-interpret, simple and objective method for extracting multimodal neuroimaging markers.

发明内容Summary of the invention

本发明所涉及的影像标记物提取方法仅利用患者结构核磁,弥散张量成像及静息态功能核磁影像数据。不涉及患者其他基本临床信息,如与受试的年龄、性别、职业、地域及是否合并患有基础病等,本专利只与受试者影像数据中脑结构、脑网络及脑功能的异常变化相关,因此本专利的应用不管受试者年龄、性别、地域、种族,可以在这种情境及研究中应用于不同人群进行提取。同时本发明提出的方法基于常规脑影像的结构、网络及功能的分析,结合机器学习算法分析高维特征间的相互作用,找出对VCI特异的特征。值得注意的是,这种影像标记物提取方法并非仅适合VCI一种疾病的分析。对于其他精神类疾病,其致病机制通常也是脑功能、结构及网络的异常,本影像标记物提取方法同时可以用于挖掘其他疾病的影像标记物,具有较广泛的应用且可以用于支持其他疾病的研究。The image marker extraction method involved in the present invention only uses the patient's structural nuclear magnetic resonance, diffusion tensor imaging and resting functional nuclear magnetic resonance imaging data. It does not involve other basic clinical information of the patient, such as the age, gender, occupation, region and whether the subject suffers from underlying diseases. This patent is only related to the abnormal changes in brain structure, brain network and brain function in the subject's imaging data. Therefore, the application of this patent is regardless of the subject's age, gender, region, and race. It can be applied to different populations for extraction in this context and research. At the same time, the method proposed in the present invention is based on the analysis of the structure, network and function of conventional brain images, combined with machine learning algorithms to analyze the interaction between high-dimensional features, and find out the characteristics specific to VCI. It is worth noting that this image marker extraction method is not only suitable for the analysis of VCI. For other mental illnesses, their pathogenic mechanisms are usually abnormal brain function, structure and network. This image marker extraction method can also be used to mine image markers for other diseases. It has a wide range of applications and can be used to support the research of other diseases.

为了解决目前技术的不足,本发明创新性的使用无监督K均值聚类的方式开发了一种多模态神经影像标记物的提取方法,在众多的多模态神经影像数据的指标中找到关键的影像标记物。并将提取的标记物与临床量表回归证明了所选影像标记物是否可表征脑结构及脑功能的变化,与临床实际的相关性。本发明的目的是提供一种血管性认知障碍影像标记物的提取方法,整个影像标记物的提取方法和体系为VCI的早期精准诊治服务,为临床VCI脑机制的研究提供辅助和依据。In order to address the deficiencies of current technologies, the present invention innovatively uses unsupervised K-means clustering to develop a method for extracting multimodal neuroimaging markers, and finds key imaging markers among the indicators of numerous multimodal neuroimaging data. The extracted markers are regressed with clinical scales to prove whether the selected imaging markers can characterize changes in brain structure and brain function, and their relevance to clinical practice. The purpose of the present invention is to provide a method for extracting imaging markers for vascular cognitive impairment. The entire imaging marker extraction method and system serve the early and accurate diagnosis and treatment of VCI, and provide assistance and basis for the study of clinical VCI brain mechanisms.

本发明方法的基本思路为:应用多模态神经影像的数据,首先对神经影像数据中可表征脑结构、网络及脑功能的指标的提取和预处理。整合全部的指标后输入到最小绝对值收敛和选择算子中(Least Absolute Shrinkage and Selection Operator,LASSO)为不同影像指标赋予权重,然后根据聚类算法的损失选择聚类数量和权重的阈值。将聚类数量和权重阈值输入到聚类算法中,通过分类任务的约束提取有效的影像标记物并给出标记物的最终权重,实现影像标记物的提取。将提取的影像标记物输入到相关向量回归(RelevantVector Regression,RVR)模型中预测神经量表的评分,评估其应用于临床的能力。The basic idea of the method of the present invention is: using multimodal neuroimaging data, first extract and preprocess the indicators that can characterize brain structure, network and brain function in the neuroimaging data. After integrating all the indicators, input them into the Least Absolute Shrinkage and Selection Operator (LASSO) to assign weights to different imaging indicators, and then select the threshold of the number of clusters and weights according to the loss of the clustering algorithm. The number of clusters and the weight threshold are input into the clustering algorithm, and effective imaging markers are extracted through the constraints of the classification task and the final weight of the marker is given to achieve the extraction of imaging markers. The extracted imaging markers are input into the Relevant Vector Regression (RVR) model to predict the score of the neurological scale and evaluate its ability to be applied in clinical practice.

一方面,本申请提供了一种血管认知障碍的关键影像标记物的提取方法,所述方法包括:On the one hand, the present application provides a method for extracting key imaging markers of vascular cognitive impairment, the method comprising:

1)获取血管性认知障碍患者及正常实验组的静息态功能磁共振成像数据及磁共振弥散张量成像数据,分析并提取静息态功能磁共振成像数据及磁共振弥散张量成像数据以获得多模态磁共振神经影像数据的影像指标;1) Obtain resting-state functional magnetic resonance imaging (fMRI) and magnetic resonance diffusion tensor imaging (MRI) data of patients with vascular cognitive impairment and normal experimental group, analyze and extract resting-state functional magnetic resonance imaging (fMRI) and magnetic resonance diffusion tensor imaging (MRI) data to obtain imaging indicators of multimodal MRI neuroimaging data;

2)多模态磁共振神经影像数据的影像指标的预处理;2) Preprocessing of imaging indicators of multimodal MRI neuroimaging data;

3)影像指标的选择和模型的构建;3) Selection of imaging indicators and construction of models;

4)影像标记物的提取;4) Extraction of image markers;

5)影像标记物与神经认知量表的回归分析。5) Regression analysis of imaging markers and neurocognitive scales.

进一步地,步骤1)包括:Further, step 1) comprises:

1-1)获取血管性认知障碍患者及正常实验组的磁共振成像数据1-1) Obtaining MRI data of patients with vascular cognitive impairment and normal experimental group

根据纳入排除标准纳入符合条件的血管性认知障碍患者及正常实验组。采集过程中在头部周围填入填充物防止头动,并告知所有受试者放空大脑但不要睡着。使用西门子3T磁共振成像设备,采用32通道的头部线圈采集头部的图像,获取静息态磁共振成像数据及磁共振弥散张量成像数据。Eligible patients with vascular cognitive impairment and normal experimental groups were enrolled according to the inclusion and exclusion criteria. During the acquisition process, fillers were placed around the head to prevent head movement, and all subjects were told to empty their minds but not fall asleep. Siemens 3T magnetic resonance imaging equipment was used to acquire head images using a 32-channel head coil to obtain resting state magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data.

1-2)分析和提取静息态功能像磁共振成像数据:1-2) Analysis and extraction of resting state functional magnetic resonance imaging data:

第一步,应用Matlab中的conn工具包中标准流水线对静息态功能像磁共振成像数据进行预处理,包括:功能像重新排列和展开,时间层校正,离群点识别,间接分割和标准化,功能和结构联合配准及基于6mm全宽半高的高斯核的平滑;In the first step, the standard pipeline in the conn toolkit in Matlab was used to preprocess the resting-state functional MRI data, including functional image rearrangement and expansion, time slice correction, outlier identification, indirect segmentation and normalization, functional and structural co-registration, and smoothing based on a 6 mm full-width half-maximum Gaussian kernel.

第二步,将平滑前和平滑后的数据输入到RESTPlus工具包中进一步处理,包括:去趋势,Friston 24、灰质白质及脑脊液协变量回归和滤波;In the second step, the data before and after smoothing were input into the RESTPlus toolkit for further processing, including: detrending, Friston 24, gray matter, white matter, and cerebrospinal fluid covariate regression and filtering;

第三步,基于第二步的结果,结合AAL图谱获得功能像的指标:低频振动幅度、低频波动的分数幅度、波动的百分比幅度及肯德尔区域一致性系数;In the third step, based on the results of the second step, the AAL spectrum was combined to obtain the indicators of the functional image: low-frequency vibration amplitude, fractional amplitude of low-frequency fluctuation, percentage amplitude of fluctuation and Kendall regional consistency coefficient;

第四步,基于第二步的结果,将处理后的数据输入到Gretna工具包中构建ROIs-ROIs的功能连接;基于功能连接和AAL图谱提取脑ROIs的图论影像指标:同配性、介中心度、度中心性、网络效率、节点聚类系数、节点效率、节点局部效率、节点最短路径长度、富人俱乐部及小世界指标;In the fourth step, based on the results of the second step, the processed data were input into the Gretna toolkit to construct the functional connectivity of ROIs-ROIs; based on the functional connectivity and AAL atlas, graph theory imaging indicators of brain ROIs were extracted: assortativity, betweenness centrality, degree centrality, network efficiency, node clustering coefficient, node efficiency, node local efficiency, node shortest path length, rich club and small world indicators;

1-3)分析和提取磁共振弥散张量成像数据:1-3) Analysis and extraction of magnetic resonance diffusion tensor imaging data:

第一步,Linux系统下基于Matlab中PANDA工具包的标准流水线对磁共振弥散张量成像数据进行预处理,包括:大脑掩膜的估计、图像裁剪、涡流校正及头部运动校正;In the first step, the MRI diffusion tensor imaging data were preprocessed based on the standard pipeline of the PANDA toolkit in Matlab under Linux system, including: brain mask estimation, image cropping, eddy current correction and head motion correction;

第二步,计算弥散张量参数的指标,并将扩散张量指标从个体空间配准到MNI标准空间;In the second step, the indices of diffusion tensor parameters were calculated and registered from individual space to MNI standard space;

第三步,结合PANDA工具包中提供的手动分割的白质图谱获得最终的弥散影像指标:分数各项异性、平均扩散率、轴向扩散率、径向扩散率及局部扩散均匀性;In the third step, the manually segmented white matter atlas provided in the PANDA toolkit was combined to obtain the final diffusion imaging indices: fractional anisotropy, mean diffusivity, axial diffusivity, radial diffusivity, and local diffusion uniformity;

进一步地,步骤2)包括:Further, step 2) comprises:

当某个成像指标或某个患者数据缺少超过20%以上时,该指标或患者被排除;排除数据后,对于其他的缺失值,使用该指标的整体众数进行弥补;将所有指标结合在一起,根据如下公式计算获得标准化后的影像指标,保证变量处于统一量纲;对整体的指标进行乱序处理;When a certain imaging index or a certain patient data is missing more than 20%, the index or patient is excluded; after excluding the data, the overall mode of the index is used to make up for other missing values; all the indexes are combined together and the standardized imaging index is calculated according to the following formula to ensure that the variables are in a unified dimension; the overall index is processed in a disordered manner;

公式(1)中xi为指标中第i个值,ux为指标整体的均值,stdx为指标的标准差。In formula (1), xi is the i-th value of the indicator, ux is the overall mean of the indicator, and stdx is the standard deviation of the indicator.

进一步地,步骤3)包括:Further, step 3) includes:

第一步,对所有影像指标进行特征筛选,验证每个指标是否符合方差同质性,如果方差相等,使用T检验来过滤掉有明显的差异的特征,否则使用Welch T检验;In the first step, all imaging indicators were feature screened to verify whether each indicator met the variance homogeneity. If the variances were equal, the T test was used to filter out the features with significant differences, otherwise the Welch T test was used;

第二步,在初步筛选出影像指标的前提下,应用LASSO回归算法进一步筛选出重要的特征,避免模型出现过拟合的现象;使用如下公式,获得每个影像指标的权重,即指标的贡献程度:In the second step, after the image indicators are initially screened out, the LASSO regression algorithm is used to further screen out important features to avoid overfitting of the model; the weight of each image indicator, that is, the contribution degree of the indicator, is obtained using the following formula:

公式(2)中m为样本的个数,yi为第i个样本实际标签,xi为第i个样本的影像指标,w和Wi分别为影像指标的权重和第i个样本的影像指标的权重,为正则项,||wi||1为1范数;In formula (2), m is the number of samples, yi is the actual label of the ith sample, xi is the image index of the ith sample, w and Wi are the weight of the image index and the weight of the image index of the ith sample, respectively. is the regularization term, || wi || 1 is the 1-norm;

第三步,设置聚类的数量和权重的阈值,使用网格搜索的方式来组织参数;聚类数量为1-11,权重阈值其中min和max分别为最小和最大值函数,coef为LASSO输出的指标权重值;将以上两个参数组合成网格,结合肘部法则和K均值聚类算法的损失函数定义参数,当损失曲线出现第一次拐点时,取该点的横坐标值作为指标阈值或聚类数量:The third step is to set the number of clusters and the weight threshold, and use grid search to organize the parameters; the number of clusters is 1-11, and the weight threshold is Where min and max are the minimum and maximum functions respectively, and coef is the indicator weight value output by LASSO. The above two parameters are combined into a grid, and the parameters are defined by combining the elbow rule and the loss function of the K-means clustering algorithm. When the loss curve has the first inflection point, the horizontal coordinate value of the point is taken as the indicator threshold or the number of clusters:

公式(3)中m为样本个数,xi为第i个样本的影像指标,代表第i个样本所属的簇对应的中心点;μ代表所有的簇的中心点;定义聚类数量及权重阈值后,建立最终的K均值聚类模型;In formula (3), m is the number of samples, xi is the image index of the i-th sample, Represents the center point of the cluster to which the i-th sample belongs; μ represents the center point of all clusters; after defining the number of clusters and weight threshold, the final K-means clustering model is established;

进一步地,步骤4)包括:Further, step 4) includes:

建立K均值聚类模型后,应用聚类模型可视化工具包对影像指标进行可视化,根据权重分布的不同,可视化最终有贡献的影像标记物及对应的权重值。After establishing the K-means clustering model, the clustering model visualization toolkit was used to visualize the image indicators. According to the different weight distributions, the final contributing image markers and the corresponding weight values were visualized.

进一步地,步骤5)包括:Further, step 5) comprises:

第一步,从多模态影像指标中提取有贡献的影像标记物,将特征和标签按照7:3的比例进行乱序和分配,70%作为训练集,30%作为测试集;为了防止可能存在的数据泄漏的情况,分别对训练集和测试集进行标准化处理;The first step is to extract contributing image markers from multimodal image indicators, shuffle and distribute features and labels in a ratio of 7:3, with 70% as the training set and 30% as the test set; in order to prevent possible data leakage, the training set and test set are standardized respectively;

第二步,将标准化的数据输入到RVR模型中,使用训练集进行训练,测试集进行测试;将预测的神经认知量表的评分与实际评分进行对比,通过线性回归和Pearson来验证两者之间的相关性。In the second step, the standardized data were input into the RVR model, and the training set was used for training and the test set for testing. The predicted scores of the neurocognitive scale were compared with the actual scores, and the correlation between the two was verified by linear regression and Pearson.

另一方面,本申请提供了上述方法在血管认知障碍脑机制研究中的应用。On the other hand, the present application provides application of the above method in the study of brain mechanisms of vascular cognitive impairment.

另一方面,本申请提供了上述方法在人群健康状态宏观统计或研究中的应用,所述应用不包含诊断目的。On the other hand, the present application provides the application of the above method in macro statistics or research on the health status of a population, and the application does not include diagnostic purposes.

上述应用的例子包括但不限于,对于特定人群血管性认知功能障碍发病可能性的研究,对于血管性认知功能障碍与其他疾病关联的研究等。Examples of the above applications include, but are not limited to, research on the likelihood of developing vascular cognitive dysfunction in a specific population, research on the association between vascular cognitive dysfunction and other diseases, etc.

本申请第一次在血管认知障碍的影像标记物探索中应用无监督聚类模型来提取多模态影像中的神经影像标记物,发现fMRI与DTI结合的方法具有最高的敏感度和特异度,提取影像标记物与临床筛查中的神经量表具有较高的相关性,揭示了所提取的影像标记物的灵敏度和敏感性。所提取的影像标记物及提取方法可以为早期精准诊治服务,为临床VCI脑机制的研究提供辅助和依据,有一定推广意义及价值。This application is the first to apply an unsupervised clustering model to extract neural imaging markers from multimodal images in the exploration of imaging markers for vascular cognitive impairment. It is found that the method combining fMRI and DTI has the highest sensitivity and specificity. The extracted imaging markers have a high correlation with the neural scales in clinical screening, revealing the sensitivity and sensitivity of the extracted imaging markers. The extracted imaging markers and extraction methods can serve early and accurate diagnosis and treatment, provide assistance and basis for the study of clinical VCI brain mechanisms, and have certain promotion significance and value.

附图说明BRIEF DESCRIPTION OF THE DRAWINGS

图1聚类模型中具有影响力的影像标记物及其重要性:A.聚类认为是正常实验组所对应的权重情况;B.聚类认为是VCI所对应的权重情况。;Figure 1 Influential imaging markers and their importance in the clustering model: A. The weight corresponding to the normal experimental group considered by the clustering; B. The weight corresponding to the VCI considered by the clustering. ;

图2;静息态功能像和弥散张量成像模态下,影像标记物的脑区可视化:A.静息态功能像下影像标记物所在脑区可视化;B.弥散张量成像下影像标记物所在脑区可视化。Figure 2; Visualization of brain regions where image markers are located under resting-state functional imaging and diffusion tensor imaging modalities: A. Visualization of brain regions where image markers are located under resting-state functional imaging; B. Visualization of brain regions where image markers are located under diffusion tensor imaging.

图3基于影像标记物预测神经认知量表的结果(A-G为不同预测结果);Fig. 3 The results of predicting neurocognitive scale based on imaging markers (A-G are different prediction results);

图4本申请方法的技术路线图。FIG4 is a technical roadmap of the method of the present application.

具体实施方式Detailed ways

本发明所涉及的影像标记物提取方法与年龄、性别、职业、地域及是否合并患有基础病等情况均无关,只与影像数据中脑结构、网络及功能的异常变化相关。同时本设计提出的方法基于常规脑影像的结构、网络及功能的分析,结合机器学习算法分析高维特征间的相互作用,找出对VCI特异的特征。值得注意的是,这种影像标记物提取方法并非仅适合VCI一种疾病的分析。对于其他精神类疾病,其致病机制通常也是脑功能、结构及网络的异常,本影像标记物提取方法同时可以用于挖掘其他疾病的影像标记物,具有较广泛的应用且可以用于支持其他疾病的研究。The image marker extraction method involved in the present invention has nothing to do with age, gender, occupation, region, and whether or not the patient suffers from underlying diseases, but is only related to abnormal changes in brain structure, network, and function in the image data. At the same time, the method proposed in this design is based on the analysis of the structure, network, and function of conventional brain images, combined with a machine learning algorithm to analyze the interaction between high-dimensional features, and find out the characteristics specific to VCI. It is worth noting that this image marker extraction method is not only suitable for the analysis of VCI. For other mental illnesses, their pathogenic mechanisms are usually abnormalities in brain function, structure, and network. This image marker extraction method can also be used to mine image markers for other diseases, has a wider range of applications, and can be used to support the research of other diseases.

实施例1 VCI的神经影像标记物提取方法的具体流程:Example 1 Specific process of the method for extracting neuroimaging markers of VCI:

本申请VCI的神经影像标记物提取方法的基本流程如图4所示:The basic process of the VCI neuroimaging marker extraction method of this application is shown in Figure 4:

1)获取血管性认知障碍患者及正常实验组的静息态功能磁共振成像数据及磁共振弥散张量成像数据,分析并提取静息态功能磁共振成像数据及磁共振弥散张量成像数据以获得多模态磁共振神经影像数据的影像指标;1) Obtain resting-state functional magnetic resonance imaging (fMRI) and magnetic resonance diffusion tensor imaging (MRI) data of patients with vascular cognitive impairment and normal experimental group, analyze and extract resting-state functional magnetic resonance imaging (fMRI) and magnetic resonance diffusion tensor imaging (MRI) data to obtain imaging indicators of multimodal MRI neuroimaging data;

1-1)获取血管性认知障碍患者及正常实验组的磁共振成像数据1-1) Obtaining MRI data of patients with vascular cognitive impairment and normal experimental group

根据纳入排除标准纳入符合条件的血管性认知障碍患者及正常实验组。采集过程中在头部周围填入填充物防止头动,并告知所有受试者放空大脑但不要睡着。使用西门子3T磁共振成像设备,采用32通道的头部线圈采集头部的图像,获取静息态磁共振成像数据及磁共振弥散张量成像数据。Eligible patients with vascular cognitive impairment and normal experimental groups were enrolled according to the inclusion and exclusion criteria. During the acquisition process, fillers were placed around the head to prevent head movement, and all subjects were told to empty their minds but not fall asleep. Siemens 3T magnetic resonance imaging equipment was used to acquire head images using a 32-channel head coil to obtain resting state magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data.

1-2)分析和提取静息态功能像磁共振成像数据:1-2) Analysis and extraction of resting state functional magnetic resonance imaging data:

第一步,应用Matlab中的conn工具包中标准流水线对静息态功能像磁共振成像数据进行预处理,包括:功能像重新排列和展开、时间层校正、离群点识别、间接分割和标准化、功能和结构联合配准及基于6mm全宽半高的高斯核的平滑。In the first step, the standard pipeline in the conn toolkit in Matlab was used to preprocess the resting-state functional magnetic resonance imaging data, including functional image rearrangement and expansion, time layer correction, outlier identification, indirect segmentation and normalization, functional and structural co-registration, and smoothing based on a Gaussian kernel with a full width at half maximum of 6 mm.

第二步,不同的静息态磁共振影像指标的预处理存在一定的差异,需要根据指标选择平滑前后的数据来进一步处理。将平滑前/后数据输入到RESTPlus工具包中进一步处理,主要包括:去趋势、协变量回归(Friston 24,灰质白质及脑脊液)和滤波。In the second step, the preprocessing of different resting MRI indicators is different, and it is necessary to select the data before and after smoothing for further processing according to the indicator. The smoothed data are input into the RESTPlus toolkit for further processing, mainly including: detrending, covariate regression (Friston 24, gray matter, white matter and cerebrospinal fluid) and filtering.

第三步,基于第二步的处理,结合AAL图谱获得功能像的指标:低频振动幅度(去趋势前平滑但不滤波)、低频波动的分数幅度(去趋势前平滑但不滤波)、波动的百分比幅度(去趋势前平滑并滤波)及肯德尔区域一致性系数(最后滤波和平滑)。In the third step, based on the processing in the second step and combined with the AAL spectrum, the indicators of the functional image are obtained: low-frequency vibration amplitude (smoothed but not filtered before detrending), fractional amplitude of low-frequency fluctuation (smoothed but not filtered before detrending), percentage amplitude of fluctuation (smoothed and filtered before detrending) and Kendall area consistency coefficient (finally filtered and smoothed).

第四步,对预处理中平滑后的数据进行去趋势、协变量回归及滤波操作后,将处理后的数据输入到Gretna工具包中构建ROIs-ROIs的功能连接。基于功能连接和AAL图谱可以提取脑ROIs的图论影像指标:同配性、介中心度、度中心性、网络效率、节点聚类系数、节点效率、节点局部效率、节点最短路径长度、富人俱乐部(Rich Club)及小世界指标。In the fourth step, after detrending, covariate regression and filtering operations on the smoothed data in the preprocessing, the processed data were input into the Gretna toolkit to construct the functional connectivity of ROIs-ROIs. Based on the functional connectivity and AAL atlas, graph theory imaging indicators of brain ROIs can be extracted: assortativity, betweenness centrality, degree centrality, network efficiency, node clustering coefficient, node efficiency, node local efficiency, node shortest path length, rich club and small world indicators.

1-3)分析和提取磁共振弥散张量成像数据:1-3) Analysis and extraction of magnetic resonance diffusion tensor imaging data:

第一步,Linux系统下基于Matlab中PANDA工具包的标准流水线对磁共振弥散张量成像数据进行预处理,包括:大脑掩膜的估计、图像裁剪、涡流校正及头部运动校正。In the first step, the MRI diffusion tensor imaging data were preprocessed based on the standard pipeline of the PANDA toolkit in Matlab under Linux system, including: brain mask estimation, image cropping, eddy current correction and head motion correction.

第二步,计算弥散张量参数的指标,并将扩散张量指标从个体空间配准到MNI标准空间。In the second step, the indices of diffusion tensor parameters were calculated and registered from the individual space to the MNI standard space.

第三步,结合PANDA工具包中提供的手动分割的白质图谱获得最终的弥散影像指标:分数各项异性、平均扩散率、轴向扩散率、径向扩散率及局部扩散均匀性。In the third step, the manually segmented white matter atlas provided in the PANDA toolkit was combined to obtain the final diffusion imaging indices: fractional anisotropy, mean diffusivity, axial diffusivity, radial diffusivity, and local diffusion uniformity.

2)多模态磁共振神经影像数据的影像指标的预处理:2) Preprocessing of imaging indicators of multimodal MRI neuroimaging data:

直接将多模态成像指标输入到模型中很难达到良好的效果,预处理是建模前必要的步骤。当某个成像指标或某个患者数据缺少超过20%以上时,该指标或患者将被排除。删除数据后,对于其他的缺失值,使用该指标的整体众数进行弥补。然后,将所有指标结合在一起,根据如下公式计算获得标准化后的影像指标,保证变量处于统一量纲。It is difficult to achieve good results by directly inputting multimodal imaging indicators into the model. Preprocessing is a necessary step before modeling. When a certain imaging indicator or a patient's data is missing more than 20%, the indicator or patient will be excluded. After deleting the data, for other missing values, the overall mode of the indicator is used to make up for it. Then, all indicators are combined together and the standardized imaging indicators are calculated according to the following formula to ensure that the variables are in a unified dimension.

其中xi为指标中第i个值,ux为指标整体的均值,stdx为指标的标准差。最后,对整体的指标进行乱序处理。Among them, xi is the i-th value in the indicator, ux is the overall mean of the indicator, and stdx is the standard deviation of the indicator. Finally, the overall indicators are shuffled.

3)影像指标的选择和模型的构建:3) Selection of image indicators and construction of models:

第一步,对所有影像指标进行特征筛选,首先验证每个指标是否符合方差同质性,如果方差相等,使用T检验来过滤掉有明显的差异的特征,否则使用Welch T检验。In the first step, feature screening was performed on all imaging indicators. First, each indicator was verified to be consistent with variance homogeneity. If the variances were equal, the T test was used to filter out features with significant differences, otherwise the Welch T test was used.

第二步,在初步筛选出影像指标的前提下,应用LASSO回归算法进一步筛选出重要的特征,避免模型出现过拟合的现象。优化如下公式,获得每个影像指标的权重,即指标的贡献程度。In the second step, after the initial screening of image indicators, the LASSO regression algorithm is used to further screen out important features to avoid overfitting of the model. The following formula is optimized to obtain the weight of each image indicator, that is, the contribution degree of the indicator.

其中m为样本的个数,yi为第i个样本实际标签,xi为第i个样本的影像指标,w和Wi分别为影像指标的权重和第i个样本的影像指标的权重,为正则项,||wi||1为1范数。Where m is the number of samples, yi is the actual label of the ith sample, xi is the image index of the ith sample, w and Wi are the weights of the image index and the weight of the image index of the ith sample, respectively. is the regularization term, and || wi || 1 is the 1-norm.

第三步,模型参数调整和建立。需要设置的参数主要为聚类的数量和权重的阈值,使用网格搜索的方式来组织参数。具体参数选择范围:聚类数量1-11,权重阈值The third step is to adjust and establish model parameters. The parameters that need to be set are mainly the number of clusters and the weight threshold. The parameters are organized using a grid search method. The specific parameter selection range is: the number of clusters is 1-11, the weight threshold is

其中min和max分别为最小和最大值函数,coef为LASSO输出的指标权重值。将以上两个参数组合成网格,结合肘部法则和K均值聚类算法的损失函数来定义参数,当损失曲线出现第一次较大的拐点时,取该点的横坐标值作为指标阈值或聚类数量。 Among them, min and max are the minimum and maximum functions respectively, and coef is the indicator weight value output by LASSO. The above two parameters are combined into a grid, and the parameters are defined by combining the elbow rule and the loss function of the K-means clustering algorithm. When the loss curve has the first large inflection point, the horizontal coordinate value of the point is taken as the indicator threshold or the number of clusters.

其中中m为样本个数,xi为第i个样本的影像指标,代表第i个样本所属的簇对应的中心点;μ代表所有的簇的中心点;定义聚类数量及权重阈值后,建立最终的K均值聚类模型。Where m is the number of samples, xi is the image index of the i-th sample, Represents the center point of the cluster to which the i-th sample belongs; μ represents the center point of all clusters; after defining the number of clusters and weight threshold, the final K-means clustering model is established.

4)影像标记物的提取:4) Extraction of image markers:

建立K均值聚类模型后,应用聚类模型可视化工具包(https://github.com/YousefGh/kmeans-feature-importance)对影像指标进行可视化,根据权重分布的不同,可视化最终有贡献的影像标记物及对应的权重值。权重值的分布情况见图1。进一步对影像标记物所处的脑区进行可视化,可视化结果见图2。After the K-means clustering model was established, the clustering model visualization toolkit (https://github.com/YousefGh/kmeans-feature-importance) was used to visualize the image indicators. According to the different weight distributions, the image markers that ultimately contributed and the corresponding weight values were visualized. The distribution of weight values is shown in Figure 1. The brain regions where the image markers were located were further visualized, and the visualization results are shown in Figure 2.

5)影像标记物与神经认知量表的回归分析:5) Regression analysis of imaging markers and neurocognitive scales:

第一步,从多模态影像指标中提取有贡献的影像标记物,将特征和标签按照7:3的比例进行乱序和分配,70%作为训练集,30%作为测试集。为了防止可能存在的数据泄漏的情况,分别对训练集和测试集进行标准化处理。In the first step, we extract contributing image markers from the multimodal image indicators, shuffle and distribute the features and labels in a ratio of 7:3, with 70% as the training set and 30% as the test set. In order to prevent possible data leakage, the training set and the test set are standardized.

第二步,将标准化的数据输入到RVR模型中,使用训练集进行训练,测试集进行测试。将预测的神经认知量表的评分与实际评分进行对比,通过线性回归和Pearson来验证两者之间的相关性,结果见图3。In the second step, the standardized data was input into the RVR model, and the training set was used for training and the test set was used for testing. The predicted scores of the neurocognitive scale were compared with the actual scores, and the correlation between the two was verified by linear regression and Pearson, and the results are shown in Figure 3.

Claims (3)

1. A method of extracting a key image marker of a vascular cognitive disorder, the method comprising:
1) Acquiring resting state functional magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data of a patient with vascular cognitive impairment and a normal experiment group, and analyzing and extracting the resting state functional magnetic resonance imaging data and the magnetic resonance diffusion tensor imaging data to obtain image indexes of multi-mode magnetic resonance neural image data;
2) Preprocessing image indexes of multi-mode magnetic resonance neural image data;
3) Selecting an image index and constructing a model;
4) Extracting an image marker;
5) Regression analysis of image markers and neurocognitive scale;
Wherein step 1) comprises:
1-1) acquiring magnetic resonance imaging data of a patient with vascular cognitive impairment and a normal experimental group
Inclusion of eligible vascular cognitive impairment patients and normal experimental groups according to inclusion exclusion criteria; filling filler around the head during the collection process to prevent head movement and inform all subjects to empty the brain but not to sleep; acquiring images of the head by using Siemens 3T magnetic resonance imaging equipment and adopting a 32-channel head coil to acquire resting-state functional magnetic resonance imaging data and magnetic resonance diffusion tensor imaging data;
1-2) analyzing and extracting resting state functional magnetic resonance imaging data:
the first step, preprocessing the resting state functional magnetic resonance imaging data by using a standard pipeline in a CONN toolkit in Matlab, and comprises the following steps: rearranging and expanding functional images, correcting a time layer, identifying outliers, indirectly segmenting and standardizing, jointly registering functions and structures and smoothing based on Gaussian kernels with the full width and half height of 6 mm;
Second, the data before and after smoothing is input into RESTPlus tool package for further processing, including: detrending, friston 24, gray matter, white matter, and cerebrospinal fluid covariates regression and filtering;
thirdly, based on the result of the second step, combining with the AAL map to obtain the index of the functional image: low frequency vibration amplitude, fractional amplitude of low frequency fluctuation, percent amplitude of fluctuation and Kendell region consistency coefficient;
Fourth, based on the result of the second step, inputting the processed data into Gretna tool kit to construct the function connection of the ROIs-ROIs; extracting graph theory image indexes of brain ROIs based on functional connection and AAL (analog to digital) atlas: homography, mesocenter, isocenter, network efficiency, node clustering coefficients, node efficiency, node local efficiency, node shortest path length, rich club and small world indexes;
1-3) analyzing and extracting magnetic resonance diffusion tensor imaging data:
The first step, preprocessing magnetic resonance diffusion tensor imaging data based on a standard pipeline of a PANDA kit in Matlab in a Linux system, wherein the preprocessing comprises the following steps: estimating brain mask, image clipping, eddy current correction and head movement correction;
Secondly, calculating indexes of diffusion tensor parameters, and registering the diffusion tensor indexes from an individual space to an MNI standard space;
thirdly, combining the manually segmented white matter atlas provided in the PANDA kit to obtain a final diffuse image index: fractional anisotropy, average diffusivity, axial diffusivity, radial diffusivity, and local diffusion uniformity;
wherein step 2) comprises:
when a certain image index or a certain patient data is lack by more than 20%, the index or the patient is excluded; after the data are removed, the overall mode of the index is used for making up for other missing values; combining all indexes together, calculating and obtaining standardized image indexes according to a formula (1), and ensuring that variables are in a unified dimension; carrying out disorder treatment on the integral index;
X i in the formula (1) is the ith value in the index, u x is the overall mean value of the index, and std x is the standard deviation of the index; wherein step 3) comprises:
Firstly, screening the characteristics of all image indexes, verifying whether each index accords with variance homogeneity, if the variances are equal, filtering out the characteristics with obvious differences by using T test, otherwise, using Welch T test;
secondly, on the premise of preliminarily screening out image indexes, further screening out important features by using a LASSO regression algorithm, and avoiding the phenomenon of over-fitting of the model; using formula (2), a weight of each image index, that is, a contribution degree of the index, is obtained:
in the formula (2), m is the number of samples, y i is the actual label of the ith sample, x i is the image index of the ith sample, w and Wi are the weight of the image index and the weight of the image index of the ith sample respectively, Is a regular term, ||w i||1 is a 1-norm;
Thirdly, setting threshold values of the number and the weight of clusters, and organizing parameters by using a grid search mode; the clustering number is 1-11, and the weight threshold value Wherein min and max are minimum and maximum functions respectively, and coef is an index weight value output by LASSO; combining the number of clusters and the weight threshold value into a grid, defining parameters by combining an elbow rule and a loss function of a K-means clustering algorithm, and taking an abscissa value of a loss curve as the weight threshold value or the number of clusters when the loss curve has a first inflection point:
In the formula (3), m is the number of samples, x i is the image index of the ith sample, Representing the center point corresponding to the cluster to which the ith sample belongs; μ represents the center point of all clusters; after defining the clustering quantity and the weight threshold, establishing a final K-means clustering model;
wherein step 4) comprises:
After a K-means clustering model is established, a clustering model visualization tool package is applied to visualize the image indexes, and finally the contributed image markers and the corresponding weight values are visualized according to different weight distributions;
wherein step 5) comprises:
Firstly, extracting contributed image markers from multi-mode image indexes, and carrying out disorder and distribution on the image markers and the labels according to the proportion of 7:3, wherein 70% is used as a training set, and 30% is used as a test set; in order to prevent possible data leakage, respectively carrying out standardized processing on the training set and the testing set;
Secondly, inputting standardized data into a related vector regression model, training by using a training set, and testing by using a testing set; the scores of the predicted neurocognitive scale are compared to the actual scores and the correlation between the two is verified by linear regression and Pearson.
2. Use of the method according to claim 1 in research of brain mechanisms of vascular cognitive impairment.
3. Use of the method according to claim 1 in macroscopic statistics or research of the health status of a population, said use not comprising diagnostic purposes.
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