Naturalistic functional magnetic resonance imaging (NfMRI) has become an effective tool to study brain functional activities in real-life context, which reduces the anxiety or boredom due to difficult or repetitive tasks and avoids the problem of unreliable collection of brain activity caused by the subjects' microsleeps during resting state. Recent studies have made efforts on characterizing the brain's hierarchical organizations from fMRI data by various deep learning models. However, most of those models have ignored the properties of group-wise consistency and inter-subject difference in brain function under naturalistic paradigm. Another critical issue is how to determine the optimal neural architecture of deep learning models, as manual design of neural architecture is time-consuming and less reliable. To tackle these problems, we proposed a two-stage deep belief network (DBN) with neural architecture search (NAS) combined framework (two-stage NAS-DBN) to model both the group-consistent and individual-specific naturalistic functional brain networks (FBNs), which reflected the hierarchical organization of brain function and the nature of brain functional activities under naturalistic paradigm. Moreover, the test-retest reliability and spatial overlap rate of the FBNs identified by our model reveal better performance than that of widely used traditional methods. In general, our model provides a promising method for characterizing hierarchical spatiotemporal features under the natural paradigm.
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http://dx.doi.org/10.3389/fnins.2021.794955 | DOI Listing |
Bioinformatics
January 2025
Guangdong Provincial Key Laboratory IRADS, Beijing Normal University-Hong Kong Baptist University United International College, Zhuhai, China.
Motivation: The increasing accessibility of large-scale protein sequences through advanced sequencing technologies has necessitated the development of efficient and accurate methods for predicting protein function. Computational prediction models have emerged as a promising solution to expedite the annotation process. However, despite making significant progress in protein research, graph neural networks face challenges in capturing long-range structural correlations and identifying critical residues in protein graphs.
View Article and Find Full Text PDFTransl Vis Sci Technol
January 2025
School of Optometry and Vision Science, University of New South Wales, Sydney, Australia.
Purpose: The purpose of this study was to develop and validate a deep-learning model for noninvasive anemia detection, hemoglobin (Hb) level estimation, and identification of anemia-related retinal features using fundus images.
Methods: The dataset included 2265 participants aged 40 years and above from a population-based study in South India. The dataset included ocular and systemic clinical parameters, dilated retinal fundus images, and hematological data such as complete blood counts and Hb concentration levels.
Proc Natl Acad Sci U S A
January 2025
Ernst Strüngmann Institute, Frankfurt am Main 60528, Germany.
The dynamics of neuronal systems are characterized by hallmark features such as oscillations and synchrony. However, it has remained unclear whether these characteristics are epiphenomena or are exploited for computation. Due to the challenge of selectively interfering with oscillatory network dynamics in neuronal systems, we simulated recurrent networks of damped harmonic oscillators in which oscillatory activity is enforced in each node, a choice well supported by experimental findings.
View Article and Find Full Text PDFEndocr Pathol
January 2025
Department of Computer Engineering, Koc University, Istanbul, Turkey.
Pancreatic neuroendocrine tumors (PanNETs) are a heterogeneous group of neoplasms that include tumors with different histomorphologic characteristics that can be correlated to sub-categories with different prognoses. In addition to the WHO grading scheme based on tumor proliferative activity, a new parameter based on the scoring of infiltration patterns at the interface of tumor and non-neoplastic parenchyma (tumor-NNP interface) has recently been proposed for PanNET categorization. Despite the known correlations, these categorizations can still be problematic due to the need for human judgment, which may involve intra- and inter-observer variability.
View Article and Find Full Text PDFiScience
January 2025
Blue Brain Project, École Polytechnique Fédérale de Lausanne (EPFL), Campus Biotech, 1202 6 Geneva, Switzerland.
We hypothesized that the heterogeneous architecture of biological neural networks provides a substrate to regulate the well-known tradeoff between robustness and efficiency, thereby allowing different subpopulations of the same network to optimize for different objectives. To distinguish between subpopulations, we developed a metric based on the mathematical theory of simplicial complexes that captures the complexity of their connectivity by contrasting its higher-order structure to a random control and confirmed its relevance in several openly available connectomes. Using a biologically detailed cortical model and an electron microscopic dataset, we showed that subpopulations with low simplicial complexity exhibit efficient activity.
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