Current Medicinal Chemistry - Online First
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21 - 40 of 223 results
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Cassia-Derived Natural Flavonoids as Multi-Target Candidates for Lung Cancer Therapy: A Network Pharmacology and Molecular Modeling Study
Authors: Zafer Saad Al Shehri and Abdur RehmanAvailable online: 08 January 2026More LessIntroductionLung cancer remains a major global health burden with high mortality rates and limited therapeutic options. Natural flavonoids, particularly those derived from Cassia species, have shown immunomodulatory and anticancer potential. This study investigates the therapeutic promise of selected Cassia-derived flavonoids targeting key lung cancer-associated proteins: Prostaglandin-endoperoxide synthase 2 (PTGS2), Mast/stem cell growth factor receptor (KIT), and Xanthine dehydrogenase (XDH).
MethodologyEight flavonoids were selected based on literature and database-reported bioactivity. Target prediction was performed using SwissTargetPrediction and STITCH, followed by pathway enrichment via STRING and KEGG databases. Molecular docking was conducted using AutoDock Vina against PTGS2 (PDB: 5IKQ), KIT (1N5X), and XDH (4U0I). Top-ranked complexes underwent 100 ns molecular dynamics (MD) simulations with GROMACS to assess binding stability, RMSD, and conformational behavior. Drug-likeness, ADME, and toxicity profiles were evaluated using SwissADME and ProTox-II. Standard drugs (Trametinib, Nivolumab, Erlotinib) were used for comparison.
ResultsEpicatechin and Hispidulin showed the strongest binding affinities with PTGS2 (−9.04 kcal/mol) and XDH (−8.22 kcal/mol), respectively, with stable RMSD profiles. Chrysoeriol demonstrated the highest binding to KIT (−8.68 kcal/mol), outperforming Nivolumab (−6.03 kcal/mol). All selected flavonoids displayed acceptable pharmacokinetic profiles and low predicted toxicity. MD simulations confirmed the dynamic stability of key complexes.
ConclusionCassia-derived flavonoids represent promising multi-target candidates for lung cancer therapy, particularly through modulation of PTGS2, KIT, and XDH. Their favorable interaction profiles and safety predictions warrant further experimental and in vivo validation.
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Molecular Docking and Single-Cell RNA-Seq Analysis Identify PTGS2 as a Key Target of Osthole in the Oral Squamous Cell Carcinoma Microenvironment
Authors: Junyan Jing, Yichen Xu, Zhongyi Hu, Weilong Liu, Ziqian Zhou, Yuejiao Zhong and Yong LuAvailable online: 08 January 2026More LessIntroductionThis study investigates the therapeutic effects of Osthole and elucidates its mechanisms in oral squamous cell carcinoma (OSCC).
Materials and MethodsDifferential expression analysis was performed, followed by nomogram construction, gene set enrichment analysis, and immune infiltration analysis. Molecular docking was conducted to evaluate binding interactions, and single-cell analysis was performed.
ResultsPTGS2 was identified as a key candidate capable of binding with Osthole. Immune infiltration analysis revealed elevated levels of activated inflammatory cells in OSCC. Single-cell analysis further showed high PTGS2 expression in macrophages and mast cells.
DiscussionThis study demonstrates PTGS2’s involvement in OSCC, highlighting its potential as both a biomarker and a therapeutic target.
ConclusionOsthole can modulate OSCC by targeting PTGS2, providing a theoretical basis for OSCC management.
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Telmisartan Inhibits Non-Small Cell Lung Cancer by Inducing Ferroptosis through the NRF2/GPX4 Signaling Axis
Authors: Ling-Jie Wang, Peng-Fei Guo, Sai Wang, Yi-Zhao Chen, Hong-Wang Yan and Xue-Lin ZhangAvailable online: 08 January 2026More LessIntroductionNon-Small Cell Lung Cancer (NSCLC) treatment is often challenged by drug resistance. The antihypertensive drug telmisartan has shown anti-tumor potential, but its underlying mechanism remains unclear. Ferroptosis, a newly identified form of cell death, may serve as a promising therapeutic target. The objective is to investigate whether telmisartan inhibits NSCLC by inducing ferroptosis and to elucidate its underlying mechanism.
Methodsin vitro cell assays and in vivo mouse models were used, along with molecular biology techniques, to evaluate the effects of telmisartan on NSCLC and its mechanism of action.
ResultsTelmisartan significantly suppressed NSCLC cell proliferation and tumor growth. Mechanistic studies revealed that telmisartan induced ferroptosis by inhibiting the nuclear translocation of Nuclear Factor Erythroid 2-Related Factor 2 (NRF2) and downregulating Glutathione Peroxidase 4 (GPX4) expression. The anti-tumor effect of telmisartan was reversed by ferroptosis inhibitors.
DiscussionTelmisartan can inhibit the proliferation of NSCLC cells in vitro and in vivo and induce cell ferroptosis. Telmisartan can also inhibit the nuclear translocation of NRF2, thereby affecting the expression of GPX4.
ConclusionTelmisartan inhibited NSCLC by inducing ferroptosis via the NRF2/GPX4 axis, offering a new therapeutic strategy and potential clinical application for NSCLC treatment.
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Establishment of Centrosome Amplification-Correlated Model to Evaluate the Tumor Immune Microenvironment and Prognosis of Patients with Glioblastoma
Authors: Jiale Li, Zigui Chen, Chunyuan Zhang, Qisheng Luo, Jun Peng and Jiachong WangAvailable online: 08 January 2026More LessIntroductionCentrosome Amplification (CA) is a state where malignant cells contain excessive centrosomes due to cell cycle dysregulation. Altered CA has been observed in Glioblastoma (GBM). This study developed a CA-related gene model to assess the Tumor Immune Microenvironment (TIME) and prognostic outcomes for patients with GBM.
MethodsTCGA-GBM and mRNAseq_325 cohorts were obtained from the Chinese Glioma Genome Atlas (CGGA) database. CA-relevant gene modules and feature genes were identified via WGCNA analysis. Key genes were selected to develop a risk model, followed by validation of the model’s performance. We further compared the gene mutation landscape, TIME characteristics, drug sensitivity, and enriched pathways between high- and low-risk patient groups.
ResultsThe brown module, which showed the highest correlation with CA, was selected to identify CA-related key genes to develop a Riskscore model. The model can accurately categorize patients into high- and low-risk groups and predict their clinical outcomes with precision. Notably, high-risk GBM patients exhibited higher StromalScore and dendritic score, and the Riskscore was positively correlated with fibroblast infiltration. Moreover, patients with different risk levels displayed distinct enriched pathways and gene mutation landscapes. Further, the high-risk group showed an evidently higher CAF score, and the differential relation between drug sensitivity and the Riskscore was detected.
DiscussionThough CA was altered in GBM, its prognostic utility remained to be explored. The current study addressed this gap by developing a 6-gene risk model capable of predicting the prognosis and TIME of GBM patients.
ConclusionA CA-related model was constructed to assess the prognosis and TIME of GBM patients, contributing to the management of GBM in clinical practice.
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Single-cell RNA Sequencing Analysis Reveals the Molecular Mechanisms of Neutrophil Dysfunction in Chronic Bone Infection
Authors: Tiejian Li, Shaokui Nan, Hongbin Xie, Yue Song and Wei ChaiAvailable online: 28 November 2025More LessIntroductionNeutrophils play a key role in host immune defense. At present, neutrophils in chronic bone infections exhibit significant heterogeneity but functional alterations that remain poorly understood.
Materials and MethodsA rat model of chronic bone infection induced by Methicillin-Resistant Staphylococcus Aureus (MRSA) was established. Bone marrow cells were analyzed using scRNA-seq with Gene Ontology (GO) and pathway enrichment analysis. Differentially Expressed Genes (DEGs) were identified to assess neutrophil dysfunction, validated by immunofluorescence staining and ROS quantification.
ResultsMRSA-induced chronic bone infection was confirmed by Gram and H&E staining, which showed bacterial colonization and inflammation. Neutrophils from infected rats showed downregulated immune-related genes (e.g., Clec7a, Ccr5) and upregulated immunosuppressive factors (e.g., Nfkbia, IL10ra). Enrichment analysis showed that immune responses and neutrophil functions were inhibited. Immunofluorescence showed neutrophil polarization towards N2 phenotype and reduced Reactive Oxygen Species (ROS) production in the infection group.
DiscussionThis study established a rat model of MRSA-induced chronic bone infection and identified 7 neutrophil subsets via scRNA-seq analysis, with the NeuP2ry10 subset showing the most significant changes. Neutrophils displayed decreased chemotaxis, phagocytosis, and ROS production, along with elevated anti-inflammatory gene expression, suggesting functional suppression and a shift toward an immunosuppressive state.
ConclusionChronic bone infection drives neutrophil polarization toward an N2 anti-inflammatory phenotype, reducing antimicrobial capacity and promoting infection persistence. Targeting neutrophil function may offer new therapeutic strategies for chronic bone infection.
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Potential Targets and Mechanism of Action of Wangwei Powder in Tic Disorder Therapy: Bioinformatics and Network Pharmacology Analyses
Authors: Haijiao Lin, Yiquan Li, Liping Sun, Zhongtian Wang and Fushuang YangAvailable online: 31 October 2025More LessIntroductionTic disorders are neuropsychiatric conditions characterized by involuntary motor or vocal tics; however, the mechanisms underlying these disorders and potential therapeutic targets remain unknown. Therefore, this study investigated the mechanisms underlying tic disorders, particularly focusing on the role of mitochondrial energy metabolism, and identified potential targets of traditional Chinese medicine for these disorders.
MethodsMitochondrial energy metabolism-related genes were retrieved from GeneCards and relevant literature. Additionally, Wangwei powder components and their potential targets were obtained from the TCMSP, HERB, and PubChem databases. Bioinformatic analysis was employed to identify key genes and mechanisms involved in tic disorders.
ResultsNotably, 210 target genes of Wangwei powder, 365 mitochondrial energy metabolism-related genes, and 2020 differentially expressed genes in the tic disorder vs. control groups were identified. Based on the intersections of the differentially expressed genes, mitochondrial energy metabolism-related genes, and target genes, aldehyde dehydrogenase 2 (Aldh2), acetyl-CoA acetyltransferase 1 (Acat1), aldehyde dehydrogenase 1a1 (Aldh1a1), and adenylate kinase 2 (Ak2) were identified as key genes in tic disorder pathophysiology. Gene ontology and Kyoto Encyclopedia of Genes and Genomes analyses showed that the key genes were mainly involved in liver development, cellular detoxification of aldehydes, pyruvate metabolism, and fatty acid degradation pathways. Additionally, immune infiltration analysis highlighted notable discrepancies in immune cell populations between the tic disorder and control groups.
DiscussionAldh2, Acat1, Aldh1a1, and Ak2 demonstrate potential as therapeutic targets for TD in WWS. The role of Acat1 in immune modulation and disease progression highlights its promise for immunotherapy. However, further experimental validation is needed to address study limitations.
ConclusionThe results indicate that the key genes (Aldh2, Acat1, Aldh1a1, and Ak2) play a crucial role in the pathogenesis of tic disorders through metabolic pathways and immune cell regulation.
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A Bi-directional Mendelian Randomization Study of Idiopathic Pulmonary Fibrosis and Six Diabetes-related Traits
Authors: Yi Nie, Hongmei Li and Haibin WangAvailable online: 31 October 2025More LessIntroductionThe objective of the present study was to explore the bi-directional causal relationship between IPF and diabetes (type 1 diabetes and type 2 diabetes)/diabetic nephropathy/glycemic traits [fasting glucose and glycated hemoglobin (HbA1c)]/fasting blood insulin through MR analysis.
MethodsA bi-directional two-sample Mendelian randomization (MR) study design was adopted to evaluate the causal relationship between IPF and diabetes (type 1 diabetes and type 2 diabetes), diabetic complications (diabetic nephropathy) and glycemic traits [fasting blood glucose, glycated hemoglobin (HbA1c), fasting insulin] in a European population. Genome-wide association study summary data was obtained. The inverse variance weighted (IVW) method with a fixed-effects model was used to estimate the primary causal effects. The causal effects are represented by reporting odds ratios (OR) and their corresponding 95% confidence intervals (CI). The robustness of results was assessed using the MR-Egger and Weighted Median methods.
ResultsIn the forward MR analysis, the IVW method revealed a significant causal effect of IPF on type 2 diabetes (OR=1.031, 95% CI: 1.011-1.052). Similar estimates were obtained through the Weighted Median method. However, no significant causal effects were observed on type 1 diabetes, diabetic nephropathy, fasting blood glucose, HbA1c, and fasting insulin, respectively (p>0.05). We performed the reverse MR analysis using similar methods to the forward MR approach. MR analysis only showed a significant causal association of fasting insulin with IPF risk, with an OR of 3.576 (95% CI: 1.958-6.531).
DiscussionGenetically determined IPF was linked to an elevated risk of type 2 diabetes. The inverse MR analysis indicated that there was no causal impact of genetically predicted type 2 diabetes on the IPF risk.
ConclusionGenetically predicted fasting blood insulin was found to be positively associated with IPF risk.
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Identification and Validation of NDRG2 as a Biomarker for Follicular Lymphoma
Authors: Yidong Zhu, Jun He and Rong WeiAvailable online: 29 October 2025More LessIntroductionFollicular lymphoma (FL) is the most prevalent form of indolent lymphoma, characterized by intermittent relapse and remission periods. This study aims to identify potential biomarker genes for FL and elucidate their roles in the disease.
MethodsFL-related microarray datasets were downloaded from the Gene Expression Omnibus database. Differential expression analysis and weighted gene co-expression network analysis (WGCNA) were conducted to identify potential hub genes. Various machine learning algorithms were applied to improve gene selection accuracy and predictive performance. Mendelian randomization (MR) analysis was carried out to identify genes with causal relationships to FL. Functional enrichment analysis was performed to explore the underlying mechanisms. Finally, the identified biomarker gene was validated in clinical samples using quantitative real-time PCR.
ResultsA total of 60 hub genes were identified through differential expression analysis and WGCNA. Subsequently, 11 characteristic genes were identified using machine learning algorithms. MR analysis revealed 173 genes with causal effects on FL, leading to the identification of one key co-expressed gene, N-myc downstream-regulated gene 2 (NDRG2), as a potential biomarker for FL. NDRG2 demonstrated strong predictive performance. Functional enrichment analysis revealed significant associations between NDRG2 and immune-related pathways in FL. Validation in clinical samples confirmed the relevance of NDRG2 as a biomarker.
DiscussionThe integration of machine learning and MR successfully identified NDRG2 as a promising biomarker with a causal relationship to FL. Validation in clinical samples reinforced the reliability of these findings in clinical practice.
ConclusionBy combining machine learning, MR, and experimental validation, NDRG2 was identified and validated as a promising biomarker for FL.
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Integrated Bioinformatic Analysis of the Shared Molecular Mechanisms Between Osteoporosis and Aortic Stenosis
Authors: Yue-jiao Yang, Yang He, Zhao-wei Zhu, Yi-yuan Huang, Liang Tang and Sheng-hua ZhouAvailable online: 29 October 2025More LessIntroductionOsteoporosis (OP) and aortic stenosis (AS) are highly prevalent age-related disorders that frequently coexist. Epidemiological studies suggest a pathological link between OP and AS beyond age, yet the molecular mechanisms underlying this bone-vascular axis remain poorly defined. This study aimed to identify shared genes and pathways contributing to the comorbidity of OP and AS.
MethodsPublicly available AS and OP transcriptomic datasets were retrieved from the GEO database. Weighted gene co-expression network analysis (WGCNA) and differential gene expression (DEG) analysis were conducted to identify disease-associated genes. Candidate hub genes were screened through protein-protein interaction (PPI) network analysis using twelve network topology algorithms. High-confidence genes were obtained by intersecting candidates with AS-related genes from the Comparative Toxicogenomics Database (CTD). Independent cohorts were used to validate candidate genes, and least absolute shrinkage and selection operator (LASSO) regression was performed to assess their diagnostic potential.
ResultsWGCNA revealed 665 shared genes enriched in immune and inflammatory processes, cell adhesion, and glycosaminoglycan biosynthesis. PPI network analysis identified 32 candidate hub genes, and integration with CTD yielded 15 high-confidence genes. Validation across independent datasets confirmed dysregulated expression of CD4, GZMB, and SDC1 in both AS and OP samples. ROC analysis demonstrated high diagnostic accuracy of these genes, with a combined AUC of 0.94.
DiscussionThese findings highlight immune and inflammatory pathways as convergent mechanisms driving both AS and OP. The hub genes CD4, GZMB, and SDC1 participate in immune regulation and extracellular matrix remodeling, suggesting their involvement in the shared pathogenesis of skeletal and cardiovascular degeneration.
ConclusionIntegrative bioinformatics identified CD4, GZMB, and SDC1 as key genes linking OP and AS, providing potential biomarkers and therapeutic targets for managing these age-related comorbidities.
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Effects of SGLT2 Inhibitors on Circulating Cyclophilin A Levels in Patients with Type 2 Diabetes
Authors: Furkan Kılıç, Fulya Odabaş, Abdulkadir İltaş, Oguz Akkus, Rabia Akıllı, Gülçin Dağlıoğlu and Gamze AkkuşAvailable online: 29 October 2025More LessObjectiveThis study aimed to evaluate cyclophilin (CypA) levels in patients with diabetes mellitus (DM) before and after treatment. Metabolic variables, such as weight, blood pressure, and plasma glucose, were assessed in these patients.
MethodsThis prospective cross-sectional study was conducted over 24 weeks. We included 38 patients with DM. After confirming the diagnosis of type 2 diabetes, SGLT2i (empagliflozin vs. dapagliflozin) therapy was prescribed to the patients. Weight, body mass index (BMI), waist circumference, body fat ratio, fasting plasma glucose, glycated hemoglobin (HbA1c, %), and CypA levels were measured at 0, 12, and 24 weeks. Patients in the drug subgroup were divided into 2 groups: Empagliflozin (Empa, n=16) and Dapagliflozin (Dapa, n=22).
ResultsWeight (p<0.001), body mass index (p<0.001), percentage of body fat (p<0.001), diastolic blood pressure (p=0.006), fasting plasma glucose (p<0.001), HbA1c (p<0.001), serum creatinine (p<0.001), and CypA (p<0.001) levels after the SGLT2i therapy were statistically decreased compared to pre-treatment values in all patients. When comparing drug subgroups, significant decreases in weight (p=0.013) and percentage body fat (p=0.01) were observed in the Empa group compared with the Dapa group at 24 weeks. Changes in FPG (p=0.399), HbA1c (p=0.102), and CypA (p=0.329) between the two groups seemed to be similar.
DiscussionIn a 24-week study, significant reductions in weight, BMI, body fat percentage, HbA1c, FPG, and diastolic blood pressure with SGLT2i have been reported in those patients. Furthermore, we also observed that cyclophilin A, an oxidative marker of atherosclerosis, plays a destructive role in cardiomyocyte levels, which are decreased during the SGLT2i therapy.
ConclusionBeyond the improvement of metabolic parameters, SGLT2 treatment reduced CypA levels in patients with DM regardless of drug subgroups. These drugs may further prevent the presence of cardiovascular diseases.
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Multi-Omics and Mendelian-Randomization Investigation of Mitochondrial Genes in Irritable Bowel Syndrome
Authors: Beibei Xu, Ji Zhang, Yi Huang, Xiuyan Wang, Miaomiao Teng, Xuejian Weng, Yingcong Yu and Endian ZhengAvailable online: 29 October 2025More LessIntroductionThis study aimed to explore potential causal relationships between mitochondria-related genes and irritable bowel syndrome (IBS) using integrative multi-omics analysis.
MethodsGenome-wide association study data for IBS (1,480 cases and 454,868 controls) were integrated with mitochondrial gene data from DNA methylation quantitative trait loci, blood expression quantitative trait loci, and protein quantitative trait loci. Molecular trait associations with IBS were assessed through summary-based Mendelian randomization and co-localization analyses. Steiger filtering analysis was applied to identify causal directions, and candidate genes were independently replicated by two-sample MR in the FinnGen R11 cohort.
ResultsThree primary genes supported by multi-omics evidence—CASP3, GATM, and PDK1—were identified. Increased CASP3 methylation, expression, and protein were positively associated with IBS risk, indicating pro-apoptotic and pro-inflammatory mechanisms, whereas elevated GATM expression and protein were negatively associated, consistent with a protective role via creatine-mediated energy homeostasis.
DiscussionAdditionally, 19 genes were classified as secondary evidence genes and 5 as tertiary evidence genes. Among these, genes such as ACAD10 and MSRA were validated using FinnGen data.
ConclusionThis study represents the first application of multi-omics techniques to elucidate the relationship between mitochondrial genes and IBS. The findings indicate multiple candidate pathogenic genes and highlight the role of mitochondrial dysfunction in IBS pathogenesis. These findings offer new opportunities for the discovery of IBS biomarkers and the development of therapeutic strategies.
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Identification of Potential Biomarkers and Drugs for Papillary Thyroid Carcinoma Using Computational Analysis and Molecular Docking
Authors: Tiantian Wang, Jiejun Tan, Zheng Bi, Limei Ma, Sihai Wang, Fuli Zhang and Zhaohui FangAvailable online: 28 October 2025More LessBackgroundPapillary thyroid carcinoma (PTC), the most common thyroid malignancy, presents with multiple variants. This study aimed to identify potential biomarkers and therapeutic candidates for PTC through computational analyses and molecular docking.
MethodsGene expression data related to PTC were obtained from the TCGA-THCA and GEO datasets (GSE35570 and GSE33630) to identify differentially expressed genes (DEGs). Functional enrichment analysis was performed on the DEGs, followed by construction of a protein-protein interaction (PPI) network. Hub genes were identified using recursive feature elimination (RFE) and LASSO regression analyses. A nomogram incorporating these hub genes was developed, and its diagnostic performance was evaluated using receiver operating characteristic (ROC) curves. Furthermore, the relationship between hub genes and immune cell infiltration was investigated. Potential drug candidates targeting the hub genes were predicted and validated through molecular docking.
ResultsCommon DEGs across the three datasets were enriched in pathways such as ECM-receptor interaction, proteoglycans in cancer, and cell adhesion molecules. Significantly enriched GO terms included ‘binding,’ ‘receptor activity,’ ‘integral component of membrane,’ ‘cytoplasm,’ ‘cell adhesion,’ and ‘immune response.’ A PPI network was constructed by intersecting the common DEGs with PTC-related targets. Machine learning algorithms identified three hub genes: SRY-box transcription factor 4 (SOX4), cyclin D1 (CCND1), and lymphatic vessel endothelial hyaluronan receptor 1 (LYVE1). These hub genes exhibited differential expression in PTC and were used to construct a reliable diagnostic model. Furthermore, molecular docking revealed stable binding between CCND1 and Tipifarnib, suggesting potential therapeutic relevance.
DiscussionWhile previous studies have applied bioinformatics and molecular docking in PTC research, this study uniquely integrates both approaches to identify the hub gene CCND1 and its potential targeting drug, Tipifarnib, as promising molecular markers and therapeutic candidates for PTC.
ConclusionThe hub gene CCND1 and its targeting drug candidate Tipifarnib may contribute to PTC treatment.
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Antitumor and Immunoregulatory Effects of Curcumin Analog, (Z)-3-Hydroxy-1-(2-hydroxyphenyl)-3-phenyl prop-2-ene-1-one (DK1), on CT26-Tumor-Bearing BALB/c Mice
Available online: 24 October 2025More LessIntroductionCurcuma longa, commonly known as turmeric, contains curcumin, which is its main compound and has been reported to possess a wide variety of pharmacological activities, such as anti-carcinogenic, anti-malarial, antioxidant, antibacterial, anti-mutagenic, anti-inflammatory, and immunomodulatory effects. Even though it has many strong biological properties, curcumin lacks solubility, which affects its clinical efficacy. DK1 is a curcumin analogue that has been found to possess selective cytotoxicity on breast cancer cells compared to normal breast cells; however, its effectiveness in colon cancer has yet to be validated. This study was performed to investigate the effects of DK1 on colon cancer using an in vivo model in terms of its anti-apoptotic, immunoregulatory, and antioxidant potential. The pathways affected by the DK1 treatment were also evaluated.
MethodsIn this study, male BALB/c mice induced with colon cancer were utilized, and the resulting tumours and spleen were subjected to TUNEL, immunophenotyping, and several antioxidant assays, such as nitric oxide, malondialdehyde, and superoxide dismutase, as well as gene and protein expression analyses.
ResultsK1 treatment led to tumor shrinkage, an increase in apoptotic tumor cells, and elevated populations of helper and cytotoxic T cells by 5% and 3%, respectively. Besides that, the NO and MDA levels were also significantly reduced. This study also observed dysregulations in several oncogenes in the VEGF pathway, such as CMYC, iNOS, and IL-1β genes, which are involved in angiogenesis and inflammation.
DiscussionThe effects of DK1 treatment included antitumor and anti-inflammatory properties against the inoculated CT26 tumour. DK1 showed potential in regulating the inflammation via the VEGF pathway by the significant downregulation of TNF-α and IL-1β pro-inflammatory genes, as well as PTX3, OPN, and serpin-E1 pro-angiogenic proteins.
ConclusionThe results suggested that DK1 may potentially function as an immunoregulator and anti-cancer agent for colon cancer therapy.
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Using Disease Models for Mechanistic Studies: Special Focus on Gene Editing
Available online: 24 October 2025More Less
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Neutrophil-Related Gene Signatures for Ischemic Stroke Diagnosis
Authors: Rongxing Qin, Xiaojun Liang, Wei Xu, Qingchun Qin, Xinyu Lai, Minshan Xie and Li ChenAvailable online: 20 October 2025More LessIntroductionIschemic stroke (IS) is a major cause of death and disability worldwide. The transcriptional mechanism of neutrophil extracellular trap-related genes (NRGs) and their diagnostic potential remain unknown. This study aims to explore the mechanism of NRGs in IS through machine learning and single-cell RNA sequencing (scRNA-seq).
MethodsWe conducted differential analysis and functional enrichment analysis on the GEO dataset. Machine learning algorithms were used to identify NRGs related to IS. ScRNA-seq analysis was employed to verify the expression of NRGs in different cell types, and cellchat was used to explore the interactions between cell types in the IS. The expression of Eno1 was also verified in the mouse model of middle cerebral artery occlusion (MCAO).
ResultsWe identified 26 differentially expressed NRGs (DE-NRGs). The diagnostic models constructed from five DE-NRGs (ENO1, HMGB1, ILK, ORAI1, SUCNR1) demonstrated high predictive ability. Single-cell analysis revealed that NRGs were highly expressed in the IS group. The experiment verified the significant upregulation of Eno1.
DiscussionThis study employed machine learning and scRNA-seq to identify the DE-NRGs-related diagnostic model, providing a certain theoretical basis for IS risk stratification. More experiments are needed to verify the role of DE-NRGs in IS in the future.
ConclusionThis study identified DE-NRGs with diagnostic capabilities in IS and verified their high expression through scRNA and experimental methods. DE-NRGs may be potential therapeutic targets for IS.
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Addressing Unmet Needs in Clostridium difficile Infection: Advances in Diagnosis, Treatment, and Prevention
Available online: 17 October 2025More LessIntroductionClostridium difficile infection (CDI) is a serious global health concern characterized by toxin-induced colonic damage, ranging from diarrhea to life-threatening conditions. Despite improved diagnostics and treatments, recurrence rates of up to 30% underscore persistent gaps in effective disease management.
MethodsCDI pathogenesis is driven by the disruption of the gut microbiota, often due to broad-spectrum antibiotic use. Risk factors such as advanced age, hospitalization, IBD, and immunosuppression increase the severity and recurrence of the infection. The hypervirulent ribotype 027 strain has been associated with increased mortality and treatment resistance, necessitating targeted therapies.
ResultsEmerging treatments such as FMT and monoclonal antibodies show promise for CDI management, with FDA approvals marking progress in microbiome restoration. However, hurdles remain in safety, regulation, and donor screening. Advances in diagnostic and scoring tools have aided in the detection and treatment, but differentiating between colonization and infection remains a challenge. Preventive measures and novel agents such as bacteriocins and bacteriophages offer targeted, microbiome-sparing strategies.
DiscussionDespite recent advances, CDI management remains challenging because of diagnostic uncertainty and frequent recurrences. Innovative treatments such as FMT and monoclonal antibodies are promising but face limitations in safety, access, and cost. Preventive strategies and decision tools help, yet distinguishing colonization from infection remains difficult, underscoring the need for ongoing and multidisciplinary innovation.
ConclusionThis review highlights current approaches to CDI diagnosis, treatment, and prevention, stressing the urgent need for innovative strategies to reduce recurrence. Targeted research and policy efforts are vital to improving outcomes and quality of life for those affected.
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RTK AXL and its Isoforms: Regulation and Implications in Cancer
Authors: Ilona Malikova, Aizhan Syzdykova, Nazia Islam, Marina Kriajevska and Eugene TulchinskyAvailable online: 16 October 2025More LessAs a member of the TAM family of receptor kinases, the AXL protein plays an essential role in biological processes that maintain tissue homeostasis. Deregulated AXL signalling in tumour cells is linked to cancer progression, poor prognosis, metastasis, and reduced sensitivity to anti-cancer therapies. The underlying mechanisms are the activation of downstream signalling routes that promote cell survival, invasion and epithelial-mesenchymal transition. Two major AXL isoforms are expressed in human and rodent cells due to alternative splicing. Despite extensive research on AXL in cancer, little is known regarding the functional differences between these isoforms and whether they contribute to cancer differently. This review paper first outlines the structural and functional aspects of TAM biology with a particular focus on AXL. Next, we discuss the different levels of AXL regulation in tumour cells, including proteolytic cleavage, which leads to the formation of both extracellular and nuclear forms of AXL. Finally, we review articles investigating the variations in the function of AXL isoforms and report their associations with cancer. Notably, the formation of isoform 1 is likely to determine the presence of soluble AXL, elevated levels of which have been correlated with cancer progression in several tumour types. The review identifies areas deserving further investigation, such as how changes in isoform expression impact levels of soluble AXL in cancer. Additionally, isoform-specific downstream signalling effects and their impact on metastasis and drug resistance warrant more in-depth investigation.
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Innate Immunity Disorders in Non-Infectious Inflammatory Diseases
Available online: 14 October 2025More Less
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Investigating the Mechanisms of Mitochondrial Dysfunction in Ischemic Stroke and Predicting Therapeutics Through Machine Learning and Integrated Bioinformatics
Available online: 10 October 2025More LessIntroductionIschemic Stroke (IS) represents the most prevalent subtype of cerebrovascular disease, characterized by complex pathophysiological mechanisms that remain inadequately characterized, particularly concerning mitochondrial dysfunctions. These mitochondrial impairments are increasingly recognized as contributory factors in IS pathogenesis, emphasizing the need for further investigation into the underlying molecular mechanisms involved.
MethodsIn this study, we integrated transcriptomic datasets from the Gene Expression Omnibus (GEO) with the comprehensive MitoCarta3.0 mitochondrial proteome inventory to elucidate the role of dysregulated Mitochondrial-Related Genes (MRGs) in IS. We employed an advanced bioinformatics and machine learning pipeline, incorporating differential expression profiling alongside network-based prioritization using CytoHubba. Rigorous feature selection was conducted through LASSO regression, Support Vector Machine (SVM), and Random Forest (RF) algorithms to derive a robust core MRG signature. Our methodology included training and validation cohorts to construct diagnostic models, which were critically evaluated via Receiver Operating Characteristic (ROC) curves, nomograms, and calibration analyses.
ResultsOur analysis identified a seven-gene signature comprising DNAJA3, ACSL1, HSDL2, ECHDC2, ECHDC3, ALDH2, and PDK4, which demonstrated significant correlation with activated CD8+ T-cell and natural killer cell infiltration. Furthermore, integrative network analyses revealed intricate regulatory interactions among MRGs, microRNAs, and transcription factors. Notably, drug-target predictions indicated Bezafibrate as a promising therapeutic agent for modulating mitochondrial homeostasis in the context of IS.
DiscussionThese findings offer a novel framework for ischemic stroke diagnosis and therapy, yet their computational derivation underscores the need for thorough experimental validation of MRGs and drug candidates, along with the integration of diverse clinical data to confirm their real-world applicability.
ConclusionOur findings underscore mitochondrial dysfunction not only as a critical factor in IS pathogenesis but also as a viable therapeutic target. The identified MRG signature presents potential for clinical application in diagnostic and pharmacological strategies aimed at ameliorating ischemic injury. This study highlights the translational significance of systems biology approaches within cerebrovascular medicine, warranting further mechanistic exploration of mitochondrial-immune interactions in stroke pathology.
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Diabetes and Skin Health: Insights into Autoimmunity, Metals, and AGE-Mediated Disorders
Authors: Geir Bjørklund, Monica Butnariu, Leonard Gurgas and Tony HanganAvailable online: 09 October 2025More LessDiabetes mellitus (DM) significantly impacts systemic and skin health, with advanced glycation end-products (AGEs), metal imbalances, and immune dysfunction emerging as central drivers of skin-related complications. Furthermore, dysregulation of essential metals like zinc, copper, and iron exacerbates oxidative damage and immune dysfunction, fostering a detrimental skin environment. Autoimmune processes, increasingly recognized in both type 1 and type 2 DM, contributes towards dermatological conditions such as bullous pemphigoid and vitiligo. Emerging therapeutic strategies, including AGE inhibitors, chelation therapies, antioxidants, RAGE antagonists, and immune modulators, offers promising avenues for intervention. Advances in diagnostic tools, such as LC-MS/MS and ICP-MS, facilitate precise detection of AGEs and metal imbalances, paving the way for innovative therapies. This review underscores the importance of multidisciplinary approaches to address the rising burden of DM-related skin disorders and improve the quality of life of affected individuals.
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