Article
Biochemical Research Methods
Andres M. Cifuentes-Bernal, Vu Vh Pham, Xiaomei Li, Lin Liu, Jiuyong Li, Thuc Duy Le
Summary: By utilizing the pseudotime causality method, combined with single cell and bulk sequencing data, causal relationships between miRNAs and mRNAs during cancer metastasis were discovered. The method significantly outperformed existing approaches in identifying miRNA-mRNA interactions, indicating that using pseudotemporal information helps reveal gene regulation in biological processes more effectively.
Article
Multidisciplinary Sciences
Mehmet Emin Aktas, Thu Nguyen, Sidra Jawaid, Rakin Riza, Esra Akbas
Summary: This report presents a novel method to identify critical higher-order interactions in complex networks and compares the performances of the generalized centrality measures to demonstrate the effectiveness of higher-order interactions. Experimental results suggest that higher-order interactions play more critical roles than edges, and the proposed methods are promising in identifying critical higher-order interactions.
SCIENTIFIC REPORTS
(2021)
Article
Computer Science, Artificial Intelligence
Junzhong Ji, Xinying Xing, Yao Yao, Junwei Li, Xiaodan Zhang
Summary: This paper proposes a novel convolutional kernel CKEW to extract hierarchical topological features of brain networks, with each weight assigned to an element with a unique neuroscientific meaning. The classification framework based on CKEW can efficiently diagnose and explore brain diseases.
PATTERN RECOGNITION
(2021)
Article
Biochemical Research Methods
Yan Liu, Yuzhao Gao, Ruiling Fang, Hongyan Cao, Jian Sa, Jianrong Wang, Hongqi Liu, Tong Wang, Yuehua Cui
Summary: Genes interact to fulfill tasks; linear and nonlinear interactions can differ; developing statistical methods to capture underlying mechanisms is crucial.
BRIEFINGS IN BIOINFORMATICS
(2021)
Article
Information Science & Library Science
Morteza Namvar, Ali Intezari, Saeed Akhlaghpour, Justin P. Brienza
Summary: The introduction of machine learning models in organizations raises the need for interaction with domain experts. This study proposes a model to understand how data scientists can use wise reasoning to manage tensions when developing ML models. The study confirms that effective ML model development requires both the effective use of ML systems and wise reasoning in interactions with domain experts.
INTERNATIONAL JOURNAL OF INFORMATION MANAGEMENT
(2023)
Review
Pharmacology & Pharmacy
Jing Liu, Mengyu Guo, Chunying Chen
Summary: Controllable nano-assembly with stimuli-responsive groups is a powerful strategy for generating theranostic nanosystems in modern medicine. However, the understanding of complex interactions between nanoassemblies and biosystems is still lacking, which limits the development of this field. In this review, the authors propose a 4W1H principle to describe the dynamic biological processes, behavior, and fate of nano-assemblies, and summarize key parameters that govern effective nano-bio interactions. The effects of these parameters on ADMET processes are discussed, and challenges in evaluating nano-bio interactions of assembled nanodrugs are highlighted.
ADVANCED DRUG DELIVERY REVIEWS
(2022)
Article
Multidisciplinary Sciences
Jia Li, Zhifu Guo, Xiaowei Song
Summary: COVID-19 is a new type of viral pneumonia caused by SARS-CoV-2 that has rapidly spread and become a global pandemic. Research has found that SARS-CoV-2 infection may lead to cardiac complications, including enhanced cardiac stress biomarkers and heart failure.
Article
Environmental Studies
Deborah Strumsky, Luis Bettencourt, Jose Lobo
Summary: Agglomeration is a key characteristic of cities and urbanization, and it has been studied and measured through various disciplines and methods. The non-linear relationship between various urban quantities and city size (measured by population) is often used to express agglomeration. The choice of spatial units affects the identification and measurement of agglomeration effects, with metropolitan areas being commonly used. However, it is important to recognize that urban scaling is primarily about the measurable consequences of social and economic interactions within physical space, which exist at smaller spatial scales as well.
ENVIRONMENT AND PLANNING B-URBAN ANALYTICS AND CITY SCIENCE
(2023)
Article
Computer Science, Artificial Intelligence
Ziwei Wang, Jiwen Lu, Chenxin Tao, Jie Zhou, Qi Tian
Summary: This paper proposes a channel-wise interaction based binary convolutional neural networks (CI-BCNN) approach for efficient inference. By using reinforcement learning to mine channel-wise interactions, correct inconsistent signs, and alleviate noise in channel-wise priors, the proposed approach improves inference efficiency.
IEEE TRANSACTIONS ON PATTERN ANALYSIS AND MACHINE INTELLIGENCE
(2021)
Article
Biochemical Research Methods
Jiayuan Zhong, Chongyin Han, Yangkai Wang, Pei Chen, Rui Liu
Summary: This study presents a method to detect early-warning signals of critical transitions in complex biological systems by exploring the dynamic changes in gene cooperative effects. The proposed method was validated to successfully identify critical or pre-transition states and suggested that the corresponding signaling biomarkers were involved in key biological processes.
Editorial Material
Materials Science, Multidisciplinary
Emma N. Antonio, Michael F. Toney
Summary: Correlation between electrochemical measurements and materials characterization plays a crucial role in understanding the operation and degradation mechanisms in electrochemical energy storage and other fields. Quantitative approaches are suggested to define competing mechanisms and determine their relative contributions. The consideration of experimental design and measurement effect is essential in these approaches.
ENERGY & ENVIRONMENTAL MATERIALS
(2022)
Article
Biochemistry & Molecular Biology
Demetrius DiMucci, Mark Kon, Daniel Segre
Summary: Machine learning is used to interpret biological complexity by training algorithms, and BowSaw algorithm helps identify variable combinations used for classification.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2021)
Article
Biochemical Research Methods
An-Phi Nguyen, Stefania Vasilaki, Maria Rodriguez Martinez
Summary: Interpretability is crucial for machine learning models in critical scenarios. We propose FLAN, a structurally constrained deep neural network that processes each input feature separately, allowing users to estimate the effect of each feature independently.
BRIEFINGS IN BIOINFORMATICS
(2023)
Article
Astronomy & Astrophysics
Yu-Yen Chang, Bau-Ching Hsieh, Wei-Hao Wang, Yen-Ting Lin, Chen-Fatt Lim, Yoshiki Toba, Yuxing Zhong, Siou-Yu Chang
Summary: The study investigated the performance of machine-learning techniques in classifying different types of active galactic nuclei (AGNs), finding that combining optical and near-infrared information can effectively identify AGN host galaxies.
ASTROPHYSICAL JOURNAL
(2021)
Article
Chemistry, Multidisciplinary
Ziqing Wang, Simone Pisano, Veronica Ghini, Pavel Kaderavek, Milan Zachrdla, Philippe Pelupessy, Morgan Kazmierczak, Thorsten Marquardsen, Jean-Max Tyburn, Guillaume Bouvignies, Giacomo Parigi, Claudio Luchinat, Fabien Ferrage
Summary: Metabolomics is a systematic approach to study metabolites in biological systems, providing information about metabolism and diseases. Metabolites play essential roles in biological processes, interacting with macromolecules, but methods to study these interactions systematically are currently limited.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Article
Anatomy & Morphology
Xiqin Liu, Xinqi Zhou, Yixu Zeng, Jialin Li, Weihua Zhao, Lei Xu, Xiaoxiao Zheng, Meina Fu, Shuxia Yao, Carlo Cannistraci, Keith M. Kendrick, Benjamin Becker
Summary: Studies have shown that faces with threatening expressions are more easily remembered than non-threatening faces. This study investigates whether this memory advantage persists over a period of more than 1.5 years and which neural systems are involved in this effect. The results indicate that threatening facial expressions lead to persistent recognition over periods of more than 1.5 years, and that the neural activity in the bilateral inferior occipital gyrus and ventromedial prefrontal/orbitofrontal cortex is associated with differential recognition of emotional faces.
BRAIN STRUCTURE & FUNCTION
(2022)
Article
Psychology, Clinical
Lizhu Luo, Christelle Langley, Laura Moreno-Lopez, Keith Kendrick, David K. Menon, Emmanuel A. Stamatakis, Barbara J. Sahakian
Summary: This study examined the association between depressive symptoms in traumatic brain injury (TBI) patients and altered resting-state functional connectivity (rs-fc) or voxel-based morphology in brain regions involved in emotional regulation and associated with depression. The results showed a positive association between depression scores and rs-fc between limbic regions and cognitive control regions, while there was a negative association between depression scores and rs-fc between limbic and frontal regions involved in emotion regulation. These findings contribute to a better understanding of the mechanisms underlying depression following TBI and can inform treatment decisions.
PSYCHOLOGICAL MEDICINE
(2023)
Article
Psychiatry
Juan Kou, Yingying Zhang, Feng Zhou, Zhao Gao, Shuxia Yao, Weihua Zhao, Hong Li, Yi Lei, Shan Gao, Keith M. Kendrick, Benjamin Becker
Summary: This study investigated the effects of low-dose frequency chronic intranasal oxytocin (OT) on individuals with high trait anxiety. The results showed that low-frequency chronic dosage of OT attenuated neural reactivity to threatening stimuli, suggesting a potential treatment for anxiety disorders.
PSYCHOTHERAPY AND PSYCHOSOMATICS
(2022)
Review
Pharmacology & Pharmacy
Shuxia Yao, Keith Maurice Kendrick
Summary: Intranasal administration of oxytocin and vasopressin has been widely used to modulate social cognition, but their effects are not consistent. The penetration of these neuropeptides into the brain following intranasal administration is debated. Different routes of administration and dose magnitude and frequency can lead to different functional outcomes. Understanding these factors is important for optimizing the desired effects of intranasal treatment.
Article
Behavioral Sciences
YingYing Zhang, Shuxia Yao, Helena Schmitt, Benjamin Becker, Keith M. Kendrick, Christian Montag
Summary: The study found that individuals carrying low expressing alleles (S, L-G) are more likely to exhibit higher autistic traits in both Chinese and German samples. Analysis of the positive correlation between autistic traits and IUD tendencies showed that this association is more pronounced in the German sample and can vary depending on 5-HTTLPR/rs25531 genotypes and cultural differences.
BRAIN AND BEHAVIOR
(2022)
Article
Neurosciences
Dan Xu, Qin Li, Qian Zhuang, Yingying Zhang, Shuxia Yao, Weihua Zhao, Keith M. Kendrick
Summary: This study investigated the effects of orally administered oxytocin on social attention and state anxiety. The results showed that oral oxytocin can modulate social attention and reduce anxiety, and the effects were similar to intranasal and lingual administration routes.
FRONTIERS IN NEUROSCIENCE
(2022)
Review
Endocrinology & Metabolism
Siyu Zhu, Xiaolu Zhang, Menghan Zhou, Keith M. Kendrick, Weihua Zhao
Summary: This review discusses the potential therapeutic use of non-invasive transcutaneous auricular vagus nerve stimulation (taVNS) in pediatric neurodevelopmental and psychiatric disorders, based on current literature. The review also briefly explores factors that could optimize taVNS protocols in future clinical applications.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Neurosciences
Xinqi Zhou, Ting Xu, Yixu Zeng, Ran Zhang, Ziyu Qi, Weihua Zhao, Keith M. Kendrick, Benjamin Becker
Summary: Social deficits and dysregulations in dopaminergic midbrain-striato-frontal circuits are common symptoms across psychiatric disorders. The present study investigated the effects of the AT1R antagonist losartan on social reward and punishment processing in humans. The findings suggest that losartan modulates approach-avoidance motivation and emotional salience during social punishment versus social reward by influencing the core nodes of the midbrain-striato-frontal circuits.
JOURNAL OF NEUROSCIENCE
(2023)
Article
Computer Science, Artificial Intelligence
Xi Jiang, Jiadong Yan, Yu Zhao, Mingxin Jiang, Yuzhong Chen, Jingchao Zhou, Zhenxiang Xiao, Zifan Wang, Rong Zhang, Benjamin Becker, Dajiang Zhu, Keith M. Kendrick, Tianming Liu
Summary: In this study, a novel Spatio-Temporal Attention 4D Convolutional Neural Network (STA-4DCNN) model is introduced to characterize individualized spatio-temporal patterns of functional brain networks (FBNs). The experimental results show that STA-4DCNN has superior ability in characterizing FBN patterns and can effectively distinguish abnormal patterns in brain disorders. This study provides a powerful tool for FBN characterization and clinical applications.
Article
Biochemistry & Molecular Biology
Shuxia Yao, Yuanshu Chen, Qian Zhuang, Yingying Zhang, Chunmei Lan, Siyu Zhu, Benjamin Becker, Keith M. Kendrick
Summary: In recent studies, it has been found that intranasal administration of oxytocin can enhance social motivation and cognition in both healthy and clinical populations. However, the mechanisms behind these effects are not fully understood. This study aimed to investigate the contributions of direct brain entry and peripheral increase in oxytocin concentrations to the effects of intranasal oxytocin. The results revealed that intranasal oxytocin alone had significant effects on neural responses, while vasoconstrictor pretreatment reduced both peripheral oxytocin concentrations and the effects on neural responses.
MOLECULAR PSYCHIATRY
(2023)
Article
Clinical Neurology
Yuanshu Chen, Congcong Liu, Fei Xin, Haochen Zou, Yulan Huang, Jinyu Wang, Jing Dai, Zhili Zou, Stefania Ferraro, Keith M. Kendrick, Bo Zhou, Xiaolei Xu, Benjamin Becker
Summary: Major depression (MDD) and generalized anxiety disorder (GAD) are leading causes of disability globally, with marked interpersonal and social impairments. This study used fMRI to investigate whether MDD and GAD share a neural basis during interpersonal processing. Results suggest that the dlPFC is involved in emotion-specific alteration during interpersonal processing, with depression symptom load positively associated with dlPFC reactivity to sad facial expressions. Dysregulated communication between the amygdala and salience network may be specific to depression.
PROGRESS IN NEURO-PSYCHOPHARMACOLOGY & BIOLOGICAL PSYCHIATRY
(2023)
Article
Biology
Yuanshu Chen, Haochen Zou, Xin Hou, Chuimei Lan, Jing Wang, Yanan Qing, Wangjun Chen, Shuxia Yao, Keith M. Kendrick
Summary: Oxytocin enhances the pleasantness of social touch and primarily modulates the behavioral and neural responses to gentle social touch mediated by C-touch fibers.
Article
Neurosciences
Weihua Zhao, Qi Liu, Xiaolu Zhang, Xinwei Song, Zhao Zhang, Peng Qing, Xiaolong Liu, Siyu Zhu, Wenxu Yang, Keith M. Kendrick
Summary: The mirror neuron system (MNS), which includes the inferior frontal gyrus (IFG), inferior parietal lobule (IPL), and superior temporal sulcus (STS), is important for action representation and imitation, but may be dys-functional in autism spectrum disorder (ASD). In this study, the researchers conducted a facial expression imitation task with healthy male subjects and measured the expression intensity using facial emotion recognition software (FaceReader) and MNS responses using functional near-infrared spectroscopy (fNIRS). The results showed distinct patterns of MNS responses during imitation of different facial expressions, which were also associated with autistic traits.
Article
Endocrinology & Metabolism
Chunmei Lan, Yuanshu Chen, Yingying Zhang, Juan Kou, Linghong Huang, Ting Xu, Xi Yang, Dan Xu, Wenxu Yang, Keith M. Kendrick, Weihua Zhao
Summary: In this randomized, placebo-controlled, pharmaco-imaging clinical trial, it was found that oral administration of oxytocin significantly increased the brain reward system's response to emotional faces in females, similar to what was previously observed in males. Additionally, oxytocin enhanced the coupling between reward and social cognition regions in females.
NEUROENDOCRINOLOGY
(2023)
Article
Computer Science, Artificial Intelligence
Yuzhong Chen, Jiadong Yan, Mingxin Jiang, Tuo Zhang, Zhongbo Zhao, Weihua Zhao, Jian Zheng, Dezhong Yao, Rong Zhang, Keith M. Kendrick, Xi Jiang
Summary: This study proposes an adversarial learning-based node-edge graph attention network (AL-NEGAT) for the identification of autism spectrum disorder (ASD) using multimodal MRI data. The AL-NEGAT model leverages both node and edge features to improve classification accuracy and generalizability. Experimental results demonstrate the effectiveness of the proposed framework in ASD classification.
IEEE TRANSACTIONS ON NEURAL NETWORKS AND LEARNING SYSTEMS
(2022)