Article
Clinical Neurology
Hai Duc Nguyen, Min -Sun Kim
Summary: This study identifies the molecular mechanisms underlying the anti-depressant properties of curcumin. It suggests that curcumin exerts its effects through interactions with specific genes and miRNAs, and regulates key pathways involved in depression. Further research and optimization of treatment strategies are needed before curcumin can be utilized for depression therapy.
JOURNAL OF AFFECTIVE DISORDERS
(2022)
Article
Genetics & Heredity
Wanrui Fu, Guzailinuer Kadeer, Yaqi He, Ying Feng
Summary: This study investigated the mechanism of mitochondrial dysfunction in sarcopenia using the GEO database. Key genes related to oxidative phosphorylation and mitochondrial ribosomal proteins were identified through WGCNA and ROC curve analysis. Furthermore, transcription factor-key gene and miRNA-key gene networks were constructed. The findings provide a novel insight into the pathological mechanism of sarcopenia.
FRONTIERS IN GENETICS
(2022)
Article
Nutrition & Dietetics
Marzena Jabczyk, Justyna Nowak, Bartosz Hudzik, Barbara Zubelewicz-Szkodzinska
Summary: Recent epidemiological studies suggest a connection between metabolic disorders and nutrition, indicating that a healthy diet rich in polyphenols could be beneficial in treating metabolic diseases. Curcumin, a polyphenol found in turmeric, has various health benefits, including antioxidant, anti-inflammatory, hepatoprotective, anti-atherosclerotic, and antidiabetic properties, which can help improve metabolic parameters in selected metabolic disorders.
Article
Pharmacology & Pharmacy
Minjee Kim, Hanul Choi, Young Bong Kim
Summary: This study focused on curcumin as a potential therapeutic agent for Zika virus, identifying TNF as the target with the strongest binding. In vitro experiments confirmed the anti-Zika effects of curcumin, indicating its promise for the treatment of ZIKV infections.
EUROPEAN JOURNAL OF PHARMACOLOGY
(2021)
Article
Plant Sciences
Murat Aycan, Lutfun Nahar, Marouane Baslam, Toshiaki Mitsui
Summary: Salinity is a major problem in agriculture, limiting plant yield in half the fields. The hst1 gene improves salt tolerance in rice by reducing Na+ ions and lipid peroxidation, increasing proline and antioxidant enzyme activities, and regulating transporter and transcription factor genes. These findings provide insight into the salt tolerance mechanisms in rice and the development of salt-tolerant crops for food security during climate change.
PLANT PHYSIOLOGY AND BIOCHEMISTRY
(2023)
Article
Biology
Abdullahi Dandare, Ghulam Rabia, Muhammad Jawad Khan
Summary: The study aimed to predict therapeutic targets and construct a biomarker panel for early detection of metabolic syndrome (MS) using non-coding RNAs, including circRNAs, lncRNAs, and miRNAs. Analysis revealed a strong association of multiple miRNAs with the pathogenesis of MS, affecting pathways related to glucose and lipid homeostasis, inflammatory responses, and insulin resistance. Interactions of specific miRNAs with key genes suggest the potential for designing a biomarker panel for early detection and molecular management of MS.
COMPUTERS IN BIOLOGY AND MEDICINE
(2021)
Review
Biotechnology & Applied Microbiology
Chen Deng, Yaokang Wu, Xueqin Lv, Jianghua Li, Yanfeng Liu, Guocheng Du, Jian Chen, Long Liu
Summary: This review provides an overview of transcription factors, including their categories, action principles, prediction strategies, and related databases. It also highlights the applications of global transcription machinery engineering technology and transcription factor-based biosensors and quorum sensing systems. Furthermore, the review summarizes strategies for optimizing the performance of transcriptional regulatory tools by refactoring transcription factors and discusses the current limitations and prospects of constructing various regulatory tools based on transcription factors.
BIOTECHNOLOGY ADVANCES
(2022)
Review
Plant Sciences
Lu Zhang, Yu Xiang, Shengbo Chen, Min Shi, Xianda Jiang, Zhuoli He, Shuai Gao
Summary: This review focuses on the recent research progress in understanding miRNA biogenesis and stability control in plants, discussing the importance of miRNAs in plant growth, development, and stress responses.
FRONTIERS IN PLANT SCIENCE
(2022)
Review
Biochemistry & Molecular Biology
Paula N. Brandao-Lima, Gabrielli B. de Carvalho, Tanyara B. Payolla, Flavia M. Sarti, Marcelo M. Rogero
Summary: This systematic review examines the relationships between circulating microRNA and risk factors for Metabolic Syndrome (MetS), and identifies several microRNAs that are strongly associated with MetS risk factors. Circulating microRNA is upregulated in individuals with MetS risk factors and correlates with glycemic, lipid, and adiposity markers.
Article
Biochemistry & Molecular Biology
Lingyan Qiu, Pei Sheng, Xu Wang
Summary: Metabolic syndrome, which affects approximately one-quarter of the world's population, is closely related to the inflammatory response, glycolipid metabolism, and impaired mitochondrial function. This study analyzed the relationship between metabolic syndrome and the miRNA-mRNA regulatory network and key genes using a bioinformatics approach.
BIOCHEMICAL GENETICS
(2023)
Article
Agronomy
Miao Wang, Ao-Mei Li, Fen Liao, Cui-Xian Qin, Zhong-Liang Chen, Li Zhou, Yang-Rui Li, Xiao-Feng Li, Prakash Lakshmanan, Dong-Liang Huang
Summary: High-throughput sequencing revealed miRNA-associated gene regulation mechanisms related to sucrose accumulation in sugarcane, providing new insights for research and improvement of sugarcane sucrose content.
GLOBAL CHANGE BIOLOGY BIOENERGY
(2022)
Article
Biochemistry & Molecular Biology
Hai Duc Nguyen, Min-Sun Kim
Summary: This study identified the important role of heavy metals in the development of metabolic syndrome (MetS) and cognitive impairment. Genes involved in apoptosis, inflammation, lipid, heme, and glucose metabolism were found to be affected by heavy metal exposure. Key TFs were also implicated in the etiology of MetS and its components, as well as cognitive impairment. Additionally, mutual miRNAs linked to MetS, its components, and cognitive impairment were identified.
BIOLOGICAL TRACE ELEMENT RESEARCH
(2022)
Review
Oncology
Xiong Wang, Huijun Li, Yanjun Lu, Liming Cheng
Summary: circRNAs, as a class of closed-loop RNAs, play significant roles in various aspects of cancer progression by modulating the expression or function of their host genes. This review summarizes the latest progress in understanding the interaction between circRNAs and their host genes in human cancer.
FRONTIERS IN ONCOLOGY
(2021)
Review
Biochemistry & Molecular Biology
Adriana Fodor, Andrada Luciana Lazar, Cristina Buchman, Brandusa Tiperciuc, Olga Hilda Orasan, Angela Cozma
Summary: MetS is a complex entity that increases the risk of various diseases, including type two diabetes, cardiovascular diseases, and certain types of cancer. miRNAs play an important role in cancer genesis, progression, and metastasis, and the altered secretion of miRs in adipose tissue may explain their involvement in oncogenesis. The interaction between miRs expressed in adipose tissue, their dysregulation, and cancer pathogenesis are still intriguing, as miRNAs exhibit both carcinogenic and tumor suppressor effects.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Lili Qin, Fei Du, Ningning Yang, Chen Zhang, Zhiwen Wang, Xingwen Zheng, Jiawei Tang, Liangbo Yang, Chen Dong
Summary: Terpenoids play diverse roles in metabolism regulation, plant volatiles, and ecological communication. Through LC-MS/MS analysis, terpenes in different parts of Nelumbo nucifera Gaertn. were identified, revealing differences in terpene content among plant parts. RNA sequencing identified candidate genes involved in terpene biosynthesis pathways and highlighted a co-expression network between terpene synthase and WRKY transcription factors.
Article
Environmental Sciences
Hai Duc Nguyen
Summary: The effects of heavy metals on sleep duration in pre-and postmenopausal women were studied, but the molecular mechanisms remain unknown. Serum lead levels were found to be positively related to sleep duration in premenopausal women, while serum lead and mercury levels were inversely related to sleep duration in postmenopausal women. Although there were no significant associations between mixed heavy metals and sleep duration, there were trends in sleeping patterns. In silico analysis identified genes, miRNAs, and transcription factors related to sleep disorders induced by combined heavy metals, along with the predominant molecular mechanisms involved. Cut off point values and miRNA sponge templates for heavy metal exposure levels relevant to sleep disorders in pre-and postmenopausal women were reported.
ENVIRONMENTAL POLLUTION
(2023)
Article
Immunology
Hai Duc Nguyen, Won Hee Jo, Ngoc Hong Minh Hoang, Min -Sun Kim
Summary: Cognitive impairment and organic solvent exposure are significant concerns in public health. This study investigated the therapeutic effects of risperidone on cognitive impairment caused by 1,2-diacetylbenzene (DAB) using in vivo and in silico methods. Risperidone was found to alleviate DAB-induced cognitive impairment through various molecular mechanisms, including inhibition of GSK-3β, amyloid-β, CDK5, BACE, and tau hyperphosphorylation. It also suppressed DAB-induced activation of inflammatory pathways and oxidative stress. In silico analyses identified the involvement of prolactin signaling, miRNA regulation, and CEBPB in the pathophysiology of DAB-induced cognitive impairment. These findings suggest the potential use of risperidone in treating cognitive impairment caused by organic solvents, particularly DAB.
INTERNATIONAL IMMUNOPHARMACOLOGY
(2023)
Article
Biology
Hai Duc Nguyen, Min-Sun Kim
Summary: In this study, quantitative structure-activity relationship (QSAR) models were developed to understand the correlation between the detailed structures of heterocyclic compounds and their biological activities. Artificial neural network (ANN) model outperformed other models in external validation. The selected compound 25 showed consistent therapeutic effects in Alzheimer's disease (AD) due to its cholinergic and non-toxic nature, non-P-glycoprotein, high gastrointestinal absorption, and capability to penetrate the blood-brain barrier.
COMPUTATIONAL BIOLOGY AND CHEMISTRY
(2023)
Article
Pharmacology & Pharmacy
Hai Duc Nguyen
Summary: This study identified 28 quercetin metabolite products, which have similar characteristics and biological activities as quercetin. The study also found that quercetin and its metabolites exhibit neurotherapeutic effects in cognitive impairment and Parkinson's disease by regulating crucial signaling pathways, genes, miRNAs, and transcription factors.
EUROPEAN JOURNAL OF DRUG METABOLISM AND PHARMACOKINETICS
(2023)
Article
Clinical Neurology
Hai Duc Nguyen, Min-Sun Kim
Summary: This study aimed to assess the interactions between mixed heavy metals, genes, and miRNAs involved in the development of depression. The findings revealed that a mixture of cadmium, lead, mercury, and arsenic was related to depression development. Moreover, oxidative stress, SOD1, and the selenium micro-nutrient network played important roles in depression pathogenesis caused by heavy metal mixtures.
JOURNAL OF AFFECTIVE DISORDERS
(2023)
Article
Neurosciences
Hai Duc Nguyen, Min-Sun Kim
Summary: This study evaluated the molecular processes and identified genes, pathways, and miRNAs associated with stroke caused by heavy metals and their combinations. The genes ALB, IL1B, F2, APOA1, IL6, and NOS2 were linked to stroke development by chemicals and combined heavy metals. The selenium micronutrient network, vitamin B12 metabolism, and folate metabolism were significant pathways related to the risk of heavy metal-induced stroke. Triflusal and andrographolide were identified as potential treatments. Further investigation is needed to validate these findings and explore the precise molecular pathways implicated in stroke pathophysiology caused by heavy metals.
Article
Computer Science, Information Systems
Huy Nguyen, Fabio Di Troia, Genya Ishigaki, Mark Stamp
Summary: Malware family classification is crucial for efficient malware removal, threat level determination, and damage estimation. This paper focuses on extracting features from malware executable files and representing them as images using various techniques. Generative adversarial networks (GAN), support vector machine (SVM), XGBoost, and restricted Boltzmann machines (RBM) are compared for multiclass classification. The study finds that the AC-GAN discriminator is competitive with other machine learning techniques, but GAN generated images are easily distinguishable in adversarial attacks.
JOURNAL OF COMPUTER VIROLOGY AND HACKING TECHNIQUES
(2023)
Article
Environmental Sciences
Hai Duc Nguyen, Won Hee Jo, Ngoc Hong Minh Hoang, Byung Pal Yu, Hae Young Chung, Min-Sun Kim
Summary: This study assessed the expression patterns and molecular activities of miRNAs in rats exposed to 1,2-Diacetylbenzene (DAB). The results showed differential expression of miRNAs in young and old DAB-treated rats compared to non-treated rats. The elevated expression of miR-200a family and miR-196a may play an important role in the development of glioma-induced memory and motor deficits.
TOXICOLOGY AND ENVIRONMENTAL HEALTH SCIENCES
(2023)
Article
Immunology
Hai Duc Nguyen, Won Hee Jo, Ngoc Hong Minh Hoang, Min-Sun Kim
Summary: This study aimed to evaluate the hepatoprotective effects of risperidone on DAB-induced liver dysfunction. The results showed that risperidone was able to alleviate liver damage caused by DAB, with the higher dose appearing to be more effective. In addition, in vivo and in silico analysis identified key molecular processes involved in the pathogenesis of DAB-induced liver damage and targeted by risperidone. Overall, this study demonstrates the therapeutic effects of risperidone on DAB-induced liver dysfunction after 1 week and 2 weeks of exposure to DAB and risperidone, respectively.
INTERNATIONAL IMMUNOPHARMACOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Hai Duc Nguyen, Min-Sun Kim
Summary: This study aimed to explore the relationship between heterocyclic molecules and their biological activities for AChE and BChE enzymes. A dataset of 36 heterocycles was used to predict the activity of AChE and BChE inhibitors. Four different models were generated for quantitative structure-activity relationship (QSAR) analysis, and four models were statistically acceptable. Five selected molecules showed high pIC50 values for AChE and BChE enzymes. Docking scores between the receptors and candidates were within a specific range. The selected compounds exhibited pharmacokinetics, biological activities, and physicochemical properties that supported their potential as AD protective agents.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Biochemistry & Molecular Biology
Hai Duc Nguyen
Summary: There is increasing evidence to suggest that heterocyclic molecules have inhibitory effects on butyrylcholinesterase (BChE), which is a potential target for Alzheimer's disease (AD) treatment. This study aimed to evaluate the relationship between heterocyclic molecules and their biological activities. By constructing quantitative structure-activity relationship (QSAR) models, it was found that the artificial neural network (ANN) model outperformed other models in predicting the inhibitory activity of the compounds against BChE. Three selected molecules exhibited drug-like properties and showed good binding scores with the BChE receptor.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2023)
Article
Biochemistry & Molecular Biology
Yuri Nagaoka, Kotone Oshiro, Yuta Yoshino, Toshiyuki Matsunaga, Satoshi Endo, Akira Ikari
Summary: This study investigated the effect of intercellular adhesion molecule CLDN1 on the anticancer drug sensitivity of small-cell lung cancer (SCLC) cells. It was found that overexpression of CLDN1 decreased the sensitivity of SCLC cells to anticancer drugs and enhanced their migratory capacity through the activation of the TGF-81/EMT signaling pathway. Treatment with EMT inhibitors showed potential in overcoming the reduced sensitivity to anticancer drugs in CLDN1-overexpressing SCLC cells.
ARCHIVES OF BIOCHEMISTRY AND BIOPHYSICS
(2024)