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Commentary on: Isolation and Quantification of Blood Apoptotic Bodies, a Non-invasive Tool to Evaluate Apoptosis in Patients with Ischemic Stroke and Neurodegenerative Diseases. 血凋亡小体的分离和定量——一种评估缺血性卒中和神经退行性疾病患者细胞凋亡的无创工具
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-11-28 DOI: 10.1186/s12575-025-00315-z
Ehsan Soleymaninejadian
{"title":"Commentary on: Isolation and Quantification of Blood Apoptotic Bodies, a Non-invasive Tool to Evaluate Apoptosis in Patients with Ischemic Stroke and Neurodegenerative Diseases.","authors":"Ehsan Soleymaninejadian","doi":"10.1186/s12575-025-00315-z","DOIUrl":"10.1186/s12575-025-00315-z","url":null,"abstract":"<p><strong>Background: </strong>Membrane-bound vesicles called apoptotic bodies (ApoBDs) formed during apoptosis are being recognized as non-invasive biomarkers for neurological diseases like dementia and ischemic stroke. Centrifugation-based isolation of these vesicles from blood was suggested in a recent paper by Serrano-Heras et al. (2020), which asserted their use for clinical diagnosis. This initial study provides a foundational methodology for ApoBD diagnostics. Albeit, centrifugation parameters employed present technical challenges that require optimization to ensure the purity and reproducibility of ApoBD preparations for clinical utility.</p><p><strong>Results: </strong>Due to the use of improper centrifugation speeds (160×g and 700×g) not consistent with accepted norms for the separation of platelets (ideally 2,000-5,000×g), running the risk of being seriously contaminated by platelets and platelet-derived EVs (P-EVs), which make up 70-90% of EVs in circulation. Such contamination can render functional studies problematic, cloud proteomic and size-distribution analysis, and lower the specificity of ApoBDs enumeration on the basis of Annexin V/PI labeling. Even more extreme centrifugation has little chance to eliminate platelets completely, according to comparative literature data. Increased centrifugal pressure, density gradient separation, size-exclusion chromatography (SEC), and confirmation with platelet-specific markers are among some procedural changes recommended to improve sample purity in attempts to solve such problems.</p><p><strong>Conclusions: </strong>Even as the Serrano-Heras et al. study pinpoints the potential of ApoBDs as biomarkers, constraints to the procedure under consideration pose the threat of bias in future studies. Proper isolation of ApoBDs requires multimodal confirmation, optimized platelet removal protocols and clinically feasible methods like SEC are essential to enhance ApoBDs isolation for neurological disease diagnostics. Rectification of such issues enhance significantly the practicality of ApoBDs in clinical practice for the detection of neurological illnesses.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":" ","pages":"53"},"PeriodicalIF":4.3,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12752306/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145629065","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
CAR T cell therapy in type 1 diabetes: what we know and what remains to be explored. CAR - T细胞治疗1型糖尿病:我们知道什么,还有什么有待探索。
IF 4.9 3区 生物学
Biological Procedures Online Pub Date : 2025-11-28 DOI: 10.1186/s12575-025-00307-z
Sandesh Kumar Pattanaik, Diptirani Rath, Amir Mansour Moeini, Mohsen Nabi Afjadi
{"title":"CAR T cell therapy in type 1 diabetes: what we know and what remains to be explored.","authors":"Sandesh Kumar Pattanaik, Diptirani Rath, Amir Mansour Moeini, Mohsen Nabi Afjadi","doi":"10.1186/s12575-025-00307-z","DOIUrl":"10.1186/s12575-025-00307-z","url":null,"abstract":"<p><p>With its increasing prevalence, diabetes continues to be a major global health concern. Insulin resistance and elevated blood glucose levels are the results of type 1 diabetes (T1D), an autoimmune disease that destroys pancreatic β cells. The underlying immune-mediated harm cannot be prevented or reversed despite a variety of therapy approaches. Recent advancements in immunotherapy are positioned as a viable option for treating T1D. A genetically modified T cell that recognizes and destroys disease-specific targets is used in chimeric antigen receptor (CAR) T-cell therapy. Its targeting of the CD19 and BCMA antigens led to a breakthrough in hematologic malignancies. The present knowledge of CAR-T treatment in T1D is expanded upon by this review. However, there are still a number of important obstacles that limit clinical application, including safety, effectiveness, and technological problems. The main achievements of CAR-T cell treatment for T1D will be discussed in this paper, along with the present challenges and potential future paths for customized CAR-T cell therapies. By combining existing knowledge with uncharted territory, this review aims to stimulate more research and innovation in the field, perhaps leading to a paradigm shift in the treatment of diabetes.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"45"},"PeriodicalIF":4.9,"publicationDate":"2025-11-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12661798/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145629019","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Long-term Storage of Diluted Antibody in Tris-buffered Saline with Tween 20. 稀释抗体在Tween - 20 tris缓冲盐水中的长期储存。
IF 4.9 3区 生物学
Biological Procedures Online Pub Date : 2025-11-26 DOI: 10.1186/s12575-025-00313-1
Sunmin Kwon, Ha-Na Park, Min Seok Song, Eunji Cho, Jeong-Hwa Lee, Mi Ri Kim, Ye Won Seo, Yeo Kyem Lim, So Yeong Lee, Gun Kim
{"title":"Long-term Storage of Diluted Antibody in Tris-buffered Saline with Tween 20.","authors":"Sunmin Kwon, Ha-Na Park, Min Seok Song, Eunji Cho, Jeong-Hwa Lee, Mi Ri Kim, Ye Won Seo, Yeo Kyem Lim, So Yeong Lee, Gun Kim","doi":"10.1186/s12575-025-00313-1","DOIUrl":"10.1186/s12575-025-00313-1","url":null,"abstract":"<p><strong>Background: </strong>Western blotting is a fundamental technique for protein detection and quantification, with critical dependence on antibody for its sensitivity and specificity. Antibody solutions are frequently reused to conserve the limited stock and compensate for their high cost. However, storing antibody solutions is often challenged by protein aggregation and loss of immunoreactivity, especially when skim milk is added. Recent advancements in Western blot include microfluidic techniques which minimize antibody consumption. To facilitate these techniques, a storage strategy is needed for diluted antibody solutions to properly preserve their immunoreactivity.</p><p><strong>Results: </strong>We found that Tris-buffered saline with 0.1% Tween 20 (TBST), an ordinary washing buffer for Western blot, provides protection to diluted antibodies for extended period of storage at 4 °C. We discovered that TBST-diluted commercial antibodies retained their immunoreactivity for 281 days at ambient temperature and 1,690 days at 4 °C. In addition, we demonstrated that Tween 20 plays a critical role in stabilizing the diluted antibody.</p><p><strong>Conclusions: </strong>We propose that TBST is an effective and practical buffer to preserve diluted antibodies, which can be utilized as an integral part of strategies to reduce antibody consumption in laboratories.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":" ","pages":"52"},"PeriodicalIF":4.9,"publicationDate":"2025-11-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12750779/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145629012","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Anti-CD133-grafted single-walled carbon nanotubes as doxorubicin carrier. 抗cd133接枝单壁碳纳米管作为阿霉素载体。
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-11-17 DOI: 10.1186/s12575-025-00306-0
Elham Momeni, Rahime Eshaghi Malekshah, Ali Khaleghian, Fahimeh Shamsi, Mohsen Nabi-Afjadi
{"title":"Anti-CD133-grafted single-walled carbon nanotubes as doxorubicin carrier.","authors":"Elham Momeni, Rahime Eshaghi Malekshah, Ali Khaleghian, Fahimeh Shamsi, Mohsen Nabi-Afjadi","doi":"10.1186/s12575-025-00306-0","DOIUrl":"10.1186/s12575-025-00306-0","url":null,"abstract":"<p><strong>Background: </strong>Advances in nanomedicine have spurred interest in antibody-conjugated carbon nanotubes for targeted cancer therapy. CD133, a marker enriched in chemoresistant cancer stem cells, presents a strategic target for precision drug delivery. This study explores functionalized single-walled carbon nanotubes (SWCNTs) as dual-action platforms for enhanced doxorubicin (DXR) delivery and CD133-specific targeting.</p><p><strong>Methods: </strong>Two nano formulations-SWCNT-Ab/DXR (antibody-functionalized) and SWCNT-PEG-Ab/DXR (pegylated antibody-functionalized)-were engineered to encapsulate DXR. Release profiles, cytotoxicity, and apoptosis were assessed in CD133<sup>+</sup> HT-29 colorectal cancer cells and CD133<sup>-</sup> CHO control cells. Computational modeling included DFT-D structural optimization, Monte Carlo adsorption simulations for DXR binding analysis, and molecular docking to evaluate carrier-receptor interactions.</p><p><strong>Results: </strong>PEGylation markedly enhanced colloidal stability and drug-loading capacity, with SWCNT-PEG-Ab/DXR achieving 92% DXR encapsulation vs. 78% for non-PEGylated counterparts. In vitro, the PEGylated system showed amplified cytotoxicity (IC50: 2.1 µM vs. 3.8 µM for SWCNT-Ab/DXR) and 1.7-fold higher apoptosis induction in HT-29 cells. Computational data aligned with experimental findings: DXR adsorption energy was strongest on PEG-NH<sub>2</sub>-modified SWCNTs (- 32.6 kcal/mol) versus carboxylated variants (- 24.8 kcal/mol), confirming PEG's role in stabilizing drug-carrier interactions.</p><p><strong>Conclusions: </strong>By integrating PEG-mediated stealth properties, charge-modified surfaces, and antibody targeting, SWCNT-PEG-Ab/DXR emerges as a multifunctional nanoplatform with enhanced tumor selectivity and therapeutic payload delivery. This dual experimental-computational approach underscores the potential of rationally engineered nanotubes to overcome limitations in conventional chemotherapy.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"44"},"PeriodicalIF":4.3,"publicationDate":"2025-11-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12625022/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145538702","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Inhalable Herbal Nano-Liposomes Co-Delivering Astragaloside IV and Polyphyllin VII Reprogram Immunosuppressive Microenvironment To Overcome Anti-PD-1 Resistance in NSCLC. 可吸入的草药纳米脂质体共递送黄芪甲苷IV和多叶黄素VII重编程免疫抑制微环境克服非小细胞肺癌抗pd -1耐药。
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-11-10 DOI: 10.1186/s12575-025-00302-4
Yao Liu, Tianqi An, Zujun Que, Bin Luo, Wenfei Shi, Yiyang Zhou, Jianhui Tian
{"title":"Inhalable Herbal Nano-Liposomes Co-Delivering Astragaloside IV and Polyphyllin VII Reprogram Immunosuppressive Microenvironment To Overcome Anti-PD-1 Resistance in NSCLC.","authors":"Yao Liu, Tianqi An, Zujun Que, Bin Luo, Wenfei Shi, Yiyang Zhou, Jianhui Tian","doi":"10.1186/s12575-025-00302-4","DOIUrl":"10.1186/s12575-025-00302-4","url":null,"abstract":"<p><p>Non-small cell lung cancer (NSCLC) frequently develops acquired resistance to immune checkpoint inhibitors (ICIs), necessitating innovative strategies to remodel the immunosuppressive tumor microenvironment (TME). This study engineered an inhalable pH-responsive nano-liposome co-delivering Astragaloside IV (AS-IV) and Polyphyllin VII (Pol VII) (AS-IV/Pol VII-Lipo) to overcome anti-PD-1 resistance via spatiotemporal-controlled dual-drug delivery. AS-IV/Pol VII-Lipo (1:1 mass ratio) exhibited optimal physicochemical properties: high drug loading and pH-triggered release. Nebulized inhalation achieved 3.4-fold higher lung accumulation than oral administration. Suppressed orthotopic LLC-Luc tumor growth by 54% and reduced exhausted CD8⁺ T cells while increasing cytotoxic CD8⁺Granzyme B⁺ T cells. Combination therapy further inhibited tumor metastasis and elevated survival. Transcriptomics (RNA-seq) identified suppression of IL-2/STAT5/BLIMP1 pathway and T-cell exhaustion genes. AS-IV/Pol VII-Lipo reprograms the immunosuppressive TME through three synergistic mechanisms: (1) enhanced lung-targeted drug delivery via inhalation; (2) reversal T-cell exhaustion through IL-2/STAT5/BLIMP1 pathway inhibition; (3) synergizing with αPD-1 therapy to overcome ICI resistance. This inhalable nanoplatform presents a promising clinical strategy for NSCLC patients with acquired immunotherapyresistance.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"43"},"PeriodicalIF":4.3,"publicationDate":"2025-11-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12604339/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145487547","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Pan-Cancer Landscape of Magnesium Homeostasis: Bulk Omics Research and Single-Cell Sequencing Validation. 镁稳态的泛癌症景观:大量组学研究和单细胞测序验证。
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-10-31 DOI: 10.1186/s12575-025-00294-1
Yan Qin, Zhuo-Er Yuan, De Yin, Sheng-Yue Zhang, Yu-Cao Sun, Wei Li
{"title":"Pan-Cancer Landscape of Magnesium Homeostasis: Bulk Omics Research and Single-Cell Sequencing Validation.","authors":"Yan Qin, Zhuo-Er Yuan, De Yin, Sheng-Yue Zhang, Yu-Cao Sun, Wei Li","doi":"10.1186/s12575-025-00294-1","DOIUrl":"10.1186/s12575-025-00294-1","url":null,"abstract":"<p><strong>Introduction: </strong>Magnesium homeostasis is critical for cellular growth and metabolism, yet its pan-cancer implications remain poorly characterized. This study aims to comprehensively analyze magnesium homeostasis across 33 cancer types, exploring its role in tumorigenesis, immune regulation, and therapeutic potential. Key magnesium homeostasis-related genes (e.g., ANK3, CNNM2) were significantly downregulated in most tumors, correlating with improved prognosis. Magnesium homeostasis scores (MHS) were reduced in cancers and linked to lower tumor mutational burden (TMB), microsatellite instability (MSI), immune dysfunction, and checkpoint gene expression. Single-cell sequencing revealed elevated MHS in CD8 + T cells, suggesting immune modulation roles.</p><p><strong>Conclusion: </strong>These findings highlight magnesium homeostasis as a regulator of tumor progression and immunity, with MHS serving as a prognostic biomarker. Targeting magnesium pathways may offer novel therapeutic strategies, warranting further clinical validation to advance personalized cancer therapies.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"42"},"PeriodicalIF":4.3,"publicationDate":"2025-10-31","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12576994/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145421012","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Unraveling the Gut Microbiota-mediated Anti-tumor Mechanisms of ShenXia KuanZhong Decoction in Gastric Cancer: a Systems Biology and Dose-weighted Network Pharmacology Approach. 胃肠菌群介导的参泻宽中汤对胃癌的抗肿瘤机制:系统生物学和剂量加权网络药理学方法
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-10-17 DOI: 10.1186/s12575-025-00304-2
Ziyi Zhou, Yuan Fang, Lijie Song, Yuli Wang, Zhihong Fang
{"title":"Unraveling the Gut Microbiota-mediated Anti-tumor Mechanisms of ShenXia KuanZhong Decoction in Gastric Cancer: a Systems Biology and Dose-weighted Network Pharmacology Approach.","authors":"Ziyi Zhou, Yuan Fang, Lijie Song, Yuli Wang, Zhihong Fang","doi":"10.1186/s12575-025-00304-2","DOIUrl":"10.1186/s12575-025-00304-2","url":null,"abstract":"<p><strong>Introduction: </strong>Gastric cancer (GC) remains a formidable global health issue with limited therapeutic options. ShenXia KuanZhong Decoction (SXKZD), a classical traditional Chinese medicine (TCM) formula, is used to manage GC; however, its anti-tumor mechanisms remain poorly understood.</p><p><strong>Material and methods: </strong>The anti-GC effects of SXKZD were investigated in a GC model using dose-weighted network pharmacology, molecular docking, molecular dynamics (MD) simulations, and pharmacokinetic profiling. Its impacts on tumor metabolism, immunity, and gut microbiota were assessed. A gut microbiota-substrate-metabolite (GM-S-M) network was constructed, and key targets and pathways were analyzed using computational and experimental methods.</p><p><strong>Results: </strong>SXKZD treatment significantly alleviated tumor progression in GC models. Network analysis revealed upregulated TNF and IL6 expression in GC, which SXKZD reduced, alongside enrichment in IL-17 and TNF signaling pathways. Molecular docking and MD simulations confirmed stable binding of Ginsenoside Rh2 and 3-Indolepropionic acid to TNF, with binding energies of -147.63 kJ/mol and - 98.63 kJ/mol, respectively. Pharmacokinetic profiling showed 3-Indolepropionic acid's high bioavailability, while GM-S-M analysis identified key microbial taxa (e.g., Lactobacillus plantarum, Akkermansia muciniphila) modulated by SXKZD, enhancing anti-tumor immunity and metabolism.To further confirm these computational predictions, in vitro CCK-8 assays revealed that GRh2 and IPA inhibited AGS cell growth in a concentration-dependent manner, with IC<sub>50</sub> values of 68.74 ± 1.27 µg/mL and 780.60 ± 24.40 µg/mL at 24 hours, respectively. Western blot analysis demonstrated that GRh2 more effectively suppressed TNFα expression, whereas CETSA showed that IPA provided superior thermal stabilization of TNFα.</p><p><strong>Conclusions: </strong>SXKZD mitigates GC by modulating gut microbiota and inhibiting TNF signaling, offering a mechanistic basis for its therapeutic potential in GC management.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"41"},"PeriodicalIF":4.3,"publicationDate":"2025-10-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12533430/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145311966","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Uncovering Novel Susceptible Genes and Therapeutic Targets of Prostate Cancer: a Multi-omics Study Integrating Summary-based Mendelian Randomization Analysis and Molecular Docking. 揭示前列腺癌新的易感基因和治疗靶点:基于孟德尔随机化分析和分子对接的多组学研究。
IF 4.9 3区 生物学
Biological Procedures Online Pub Date : 2025-10-16 DOI: 10.1186/s12575-025-00298-x
Xuemeng Qiu, Yifei Zhang, Jiyue Wu, Zihao Gao, Xinyi Chai, Xihao Shen, Zejia Sun, Wei Wang
{"title":"Uncovering Novel Susceptible Genes and Therapeutic Targets of Prostate Cancer: a Multi-omics Study Integrating Summary-based Mendelian Randomization Analysis and Molecular Docking.","authors":"Xuemeng Qiu, Yifei Zhang, Jiyue Wu, Zihao Gao, Xinyi Chai, Xihao Shen, Zejia Sun, Wei Wang","doi":"10.1186/s12575-025-00298-x","DOIUrl":"10.1186/s12575-025-00298-x","url":null,"abstract":"<p><strong>Background: </strong>Understanding the role of causal genes of prostate cancer (PrCa) can reveal key biological pathways and identify potential targets for treatment.</p><p><strong>Methods: </strong>We investigated associations between genetically predicted gene expression levels and PrCa risk using cis-eQTL summary-based Mendelian randomization (SMR) and colocalization analysis. Findings were replicated using two independent PrCa GWAS. We then intersected the identified genes with differentially expressed genes (DEGs) identified from TCGA-PRAD dataset to obtain key genes. Furthermore, enrichment, protein-molecule network, immune infiltration, and epigenetic analyses were conducted to explore their biological pathways. Lastly, phenome-wide association study (PheWAS), drug prediction, and molecular docking simulation analysis were utilized to identify potential drugs.</p><p><strong>Results: </strong>We identified 15 genes in blood whose expression levels are putatively associated with PrCa, validated in at least one replication GWAS dataset. Using open-access mRNA-sequencing data, we found that ZNF217 and BNIP2 were key genes potentially important in PrCa pathogenesis. Single-cell RNA-sequencing analysis revealed that BNIP2 was predominantly expressed in a subset of endothelial cells, whereas ZNF217 was mainly enriched in epithelial cells. Downstream analysis revealed their involvement in epigenetic modulation-related pathways, while upstream analysis showed that upregulation of ZNF217 notably correlated with increased CpG methylation. Molecular docking simulation suggested doxorubicin, alsterpaullone, and camptothecin as potential drugs targeting these key genes.</p><p><strong>Conclusions: </strong>These findings provide robust leads for understanding pathogenic mechanisms and developing therapeutic interventions for PrCa.</p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"40"},"PeriodicalIF":4.9,"publicationDate":"2025-10-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12532825/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145306764","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Rap2B-mediated reprogramming of the PI3K/AKT signaling axis drives resistance to cetuximab-targeted therapy in colorectal carcinoma. rap2b介导的PI3K/AKT信号轴重编程驱动结直肠癌西妥昔单抗靶向治疗的耐药。
IF 4.9 3区 生物学
Biological Procedures Online Pub Date : 2025-10-15 DOI: 10.1186/s12575-025-00303-3
Shanshan Zhang, Ying Wei, Tingting Liu, Chenhao Sun, Xiuzhen Ge, Yang Ni, Xiaonan Tang, Mridul Roy, Tingmin Chang, Xiaohong Kang
{"title":"Rap2B-mediated reprogramming of the PI3K/AKT signaling axis drives resistance to cetuximab-targeted therapy in colorectal carcinoma.","authors":"Shanshan Zhang, Ying Wei, Tingting Liu, Chenhao Sun, Xiuzhen Ge, Yang Ni, Xiaonan Tang, Mridul Roy, Tingmin Chang, Xiaohong Kang","doi":"10.1186/s12575-025-00303-3","DOIUrl":"10.1186/s12575-025-00303-3","url":null,"abstract":"<p><p>BACKGROUND: Targeted therapy resistance represents a significant clinical challenge in cancer treatment. Rap2B, a member of the Ras superfamily of small GTPases, is frequently overexpressed in various cancers and has been implicated in promoting tumor progression and therapy resistance. However, the role and underlying mechanisms of Rap2B in cetuximab resistance in colorectal cancer (CRC) remain to be elucidated. This study aims to investigate Rap2B expression patterns in CRC models and explore the mechanisms by which Rap2B mediates cetuximab resistance. RESULTS: The expression level of Rap2B in CRC cell lines exhibits a significant negative correlation with sensitivity to cetuximab. In vivo experiments demonstrated that Rap2B downregulation significantly reduced tumor growth and enhanced cetuximab efficacy. Knockdown of Rap2B increases cetuximab sensitivity by inhibiting the PI3K/AKT signaling pathway, resulting in reduced cell proliferation and enhanced apoptosis. Conversely, overexpression of Rap2B induces cetuximab resistance by activating the PI3K/AKT pathway. CONCLUSION: This study highlights a close association between Rap2B overexpression and cetuximab resistance in CRC. The enhanced expression of Rap2B plays a pivotal role in conferring resistance, by activating the PI3K/AKT signaling pathway. Targeting Rap2B or its downstream pathways has the potential to provide novel therapeutic strategies for overcoming cetuximab resistance in colorectal cancer. </p>","PeriodicalId":8960,"journal":{"name":"Biological Procedures Online","volume":"27 1","pages":"39"},"PeriodicalIF":4.9,"publicationDate":"2025-10-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC12522668/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"145298370","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Impact of different mating and surgical protocols on the establishment of a mouse model for fetal scarless skin healing. 不同交配方式和手术方式对建立小鼠胎儿无瘢痕皮肤愈合模型的影响。
IF 4.3 3区 生物学
Biological Procedures Online Pub Date : 2025-09-26 DOI: 10.1186/s12575-025-00290-5
Lu Huang, Xinran Ye, Yifan Zhang, Chia-Kang Ho, Qingfeng Li
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