Automated Segmentation of Mouse Brain Images Using Multi-Atlas Multi-ROI Deformation and Label Fusion

We propose an automated multi-atlas and multi-ROI based segmentation method for both skull-stripping of mouse brain and the ROI-labeling of mouse brain structures from the three dimensional (3D) magnetic resonance images (MRI). Three main steps are involved in our method. First, a region of interest (ROI) guided warping algorithm is designed to register multi-atlas images to the subject space, by considering more on the matching of image contents around the ROI boundaries which are more important for ROI labeling. Then, a multi-atlas and multi-ROI based deformable segmentation method is adopted to refine the ROI labeling result by deforming each ROI surface via boundary recognizers (i.e., SVM classifiers) trained on local surface patches. Finally, a local-mutual-information (MI) based multi-label fusion technique is proposed for allowing the atlases with better local image similarity with the subject to have more contributions in label fusion. The experimental results show that our method works better than the conventional methods on both in vitro and in vivo mouse brain datasets

SCCAM: Supervised Contrastive Convolutional Attention Mechanism for Ante-hoc Interpretable Fault Diagnosis with Limited Fault Samples

In real industrial processes, fault diagnosis methods are required to learn from limited fault samples since the procedures are mainly under normal conditions and the faults rarely occur. Although attention mechanisms have become popular in the field of fault diagnosis, the existing attention-based methods are still unsatisfying for the above practical applications. First, pure attention-based architectures like transformers need a large number of fault samples to offset the lack of inductive biases thus performing poorly under limited fault samples. Moreover, the poor fault classification dilemma further leads to the failure of the existing attention-based methods to identify the root causes. To address the aforementioned issues, we innovatively propose a supervised contrastive convolutional attention mechanism (SCCAM) with ante-hoc interpretability, which solves the root cause analysis problem under limited fault samples for the first time. The proposed SCCAM method is tested on a continuous stirred tank heater and the Tennessee Eastman industrial process benchmark. Three common fault diagnosis scenarios are covered, including a balanced scenario for additional verification and two scenarios with limited fault samples (i.e., imbalanced scenario and long-tail scenario). The comprehensive results demonstrate that the proposed SCCAM method can achieve better performance compared with the state-of-the-art methods on fault classification and root cause analysis

Development of cortical anatomical properties from early childhood to early adulthood

Human brain matures in temporal and regional heterogeneity, with some areas matured at early adulthood. In this study, the relationship of cortical structural developments between different cortical sheet regions is systematically analyzed using interregional correlation coefficient and network methods. Specifically, 951 longitudinal T1 brain MR images from 445 healthy subjects with ages from 3 to 20 years old are used. The result shows that the development of cortex reaches a turning point at around 7 years of age: a) the cortical thickness reaches its highest value and also the cortical folding becomes stable at this age; b) both global and local efficiencies of anatomical correlation networks reach the lowest and highest values at this age, respectively; and c) the change of anatomical correlation networks reach the highest level at this age, and the convergence of different anatomical correlation networks starts to decrease from this age. These results might inspire more studies on why there exists a turning point at this age from different viewpoints. For example, is there any change of synaptic pruning, or is it related to the starting of school life? And how can we benefit from this in the real life

Knowledge-Guided Robust MRI Brain Extraction for Diverse Large-Scale Neuroimaging Studies on Humans and Non-Human Primates

Accurate and robust brain extraction is a critical step in most neuroimaging analysis pipelines. In particular, for the large-scale multi-site neuroimaging studies involving a significant number of subjects with diverse age and diagnostic groups, accurate and robust extraction of the brain automatically and consistently is highly desirable. In this paper, we introduce population-specific probability maps to guide the brain extraction of diverse subject groups, including both healthy and diseased adult human populations, both developing and aging human populations, as well as non-human primates. Specifically, the proposed method combines an atlas-based approach, for coarse skull-stripping, with a deformable-surface-based approach that is guided by local intensity information and population-specific prior information learned from a set of real brain images for more localized refinement. Comprehensive quantitative evaluations were performed on the diverse large-scale populations of ADNI dataset with over 800 subjects (55 approximately 90 years of age, multi-site, various diagnosis groups), OASIS dataset with over 400 subjects (18 approximately 96 years of age, wide age range, various diagnosis groups), and NIH pediatrics dataset with 150 subjects (5 approximately 18 years of age, multi-site, wide age range as a complementary age group to the adult dataset). The results demonstrate that our method consistently yields the best overall results across almost the entire human life span, with only a single set of parameters. To demonstrate its capability to work on non-human primates, the proposed method is further evaluated using a rhesus macaque dataset with 20 subjects. Quantitative comparisons with popularly used state-of-the-art methods, including BET, Two-pass BET, BET-B, BSE, HWA, ROBEX and AFNI, demonstrate that the proposed method performs favorably with superior performance on all testing datasets, indicating its robustness and effectiveness.published_or_final_versio

Consistent reconstruction of cortical surfaces from longitudinal brain MR images

Accurate and consistent reconstruction of cortical surfaces from longitudinal human brain MR images is of great importance in studying longitudinal subtle change of the cerebral cortex. This paper presents a novel deformable surface method for consistent and accurate reconstruction of inner, central and outer cortical surfaces from longitudinal brain MR images. Specifically, the cortical surfaces of the group-mean image of all aligned longitudinal images of the same subject are first reconstructed by a deformable surface method, which is driven by a force derived from the Laplace’s equation. And then the longitudinal cortical surfaces are consistently reconstructed by jointly deforming the cortical surfaces of the group-mean image to all longitudinal images. The proposed method has been successfully applied to two sets of longitudinal human brain MR images. Both qualitative and quantitative experimental results demonstrate the accuracy and consistency of the proposed method. Furthermore, the reconstructed longitudinal cortical surfaces are used to measure the longitudinal changes of cortical thickness in both normal and diseased groups, where the overall decline trend of cortical thickness has been clearly observed. Meanwhile, the longitudinal cortical thickness also shows its potential in distinguishing different clinical groups

Meta-Network Analysis of Structural Correlation Networks Provides Insights Into Brain Network Development

Analysis of developmental brain networks is fundamentally important for basic developmental neuroscience. In this paper, we focus on the temporally-covarying connection patterns, called meta-networks, and develop a new mathematical model for meta-network decomposition. With the proposed model, we decompose the developmental structural correlation networks of cortical thickness into five meta-networks. Each meta-network exhibits a distinctive spatial connection pattern, and its covarying trajectory highlights the temporal contribution of the meta-network along development. Systematic analysis of the meta-networks and covarying trajectories provides insights into three important aspects of brain network development

Electrochemiluminescent Detection of Hydrogen Peroxide via Some Luminol Imide Derivatives with Different Substituent Groups

Some luminol imide derivatives with different substituent groups have been designed and synthesized. Their electrochemiluminescence properties have been measured with a view to developing new biosensors. The ECL response to hydrogen peroxide in the presence of these luminescent derivatives has been investigated taking into account crucial factors such as the applied potential value, injection volume of hydrogen peroxide, and the substituent groups in molecular structures. The experimental data demonstrated that the substituent groups in these imide derivatives can have a profound effect upon the ECL abilities of these studied compounds. The present research work affords new and useful exploration for the design and development of new soft matter for ECL biosensors with luminol functional groups