IET Systems Biology最新文献

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DNA methylation plays important roles in lifestyle transition of Arthrobotrys oligospora DNA 甲基化在寡孢子节肢动物的生活方式转变中发挥着重要作用。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-05-17 DOI: 10.1049/syb2.12094
Jiajia Shi, Jiaxin Liu, Heng Li, Yao Tang, Shuqun Liu, Zhirong Sun, Zefen Yu, Xinglai Ji
{"title":"DNA methylation plays important roles in lifestyle transition of Arthrobotrys oligospora","authors":"Jiajia Shi,&nbsp;Jiaxin Liu,&nbsp;Heng Li,&nbsp;Yao Tang,&nbsp;Shuqun Liu,&nbsp;Zhirong Sun,&nbsp;Zefen Yu,&nbsp;Xinglai Ji","doi":"10.1049/syb2.12094","DOIUrl":"10.1049/syb2.12094","url":null,"abstract":"<p>Trap formation is the key indicator of carnivorous lifestyle transition of nematode-trapping fungi (NTF). Here, the DNA methylation profile was explored during trap induction of <i>Arthrobotrys oligospora</i>, a typical NTF that captures nematodes by developing adhesive networks. Whole-genome bisulfite sequencing identified 871 methylation sites and 1979 differentially methylated regions (DMRs). This first-of-its-kind investigation unveiled the widespread presence of methylation systems in NTF, and suggested potential regulation of ribosomal RNAs through DNA methylation. Functional analysis indicated DNA methylation's involvement in complex gene regulations during trap induction, impacting multiple biological processes like response to stimulus, transporter activity, cell reproduction and molecular function regulator. These findings provide a glimpse into the important roles of DNA methylation in trap induction and offer new insights for understanding the molecular mechanisms driving carnivorous lifestyle transition of NTF.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12094","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140960620","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
DNA methylation plays important roles in lifestyle transition of Arthrobotrys oligospora. DNA 甲基化在寡孢子节肢动物的生活方式转变中发挥着重要作用。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-05-17 DOI: 10.1049/syb2.12094
Jiajia Shi, Jiaxin Liu, Heng Li, Yao Tang, Shuqun Liu, Zhirong Sun, Zefen Yu, Xinglai Ji
{"title":"DNA methylation plays important roles in lifestyle transition of Arthrobotrys oligospora.","authors":"Jiajia Shi, Jiaxin Liu, Heng Li, Yao Tang, Shuqun Liu, Zhirong Sun, Zefen Yu, Xinglai Ji","doi":"10.1049/syb2.12094","DOIUrl":"https://doi.org/10.1049/syb2.12094","url":null,"abstract":"Trap formation is the key indicator of carnivorous lifestyle transition of nematode-trapping fungi (NTF). Here, the DNA methylation profile was explored during trap induction of Arthrobotrys oligospora, a typical NTF that captures nematodes by developing adhesive networks. Whole-genome bisulfite sequencing identified 871 methylation sites and 1979 differentially methylated regions (DMRs). This first-of-its-kind investigation unveiled the widespread presence of methylation systems in NTF, and suggested potential regulation of ribosomal RNAs through DNA methylation. Functional analysis indicated DNA methylation's involvement in complex gene regulations during trap induction, impacting multiple biological processes like response to stimulus, transporter activity, cell reproduction and molecular function regulator. These findings provide a glimpse into the important roles of DNA methylation in trap induction and offer new insights for understanding the molecular mechanisms driving carnivorous lifestyle transition of NTF.","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-05-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140965855","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Integrated bioinformatics analysis identified leucine rich repeat containing 15 and secreted phosphoprotein 1 as hub genes for calcific aortic valve disease and osteoarthritis 综合生物信息学分析确定了富含亮氨酸重复序列 15 和分泌型磷蛋白 1 是钙化性主动脉瓣疾病和骨关节炎的枢纽基因。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-04-02 DOI: 10.1049/syb2.12091
Shuji Gong, Kun Xiang, Le Chen, Huanwei Zhuang, Yaning Song, Jinlan Chen
{"title":"Integrated bioinformatics analysis identified leucine rich repeat containing 15 and secreted phosphoprotein 1 as hub genes for calcific aortic valve disease and osteoarthritis","authors":"Shuji Gong,&nbsp;Kun Xiang,&nbsp;Le Chen,&nbsp;Huanwei Zhuang,&nbsp;Yaning Song,&nbsp;Jinlan Chen","doi":"10.1049/syb2.12091","DOIUrl":"10.1049/syb2.12091","url":null,"abstract":"<p>Calcific aortic valve disease (CAVD) and osteoarthritis (OA) are common diseases in the ageing population and share similar pathogenesis, especially in inflammation. This study aims to discover potential diagnostic and therapeutic targets in patients with CAVD and OA. Three CAVD datasets and one OA dataset were obtained from the Gene Expression Omnibus database. We used bioinformatics methods to search for key genes and immune infiltration, and established a ceRNA network. Immunohistochemical staining was performed to verify the expression of candidate genes in human and mice aortic valve tissues. Two key genes obtained, leucine rich repeat containing 15 (LRRC15) and secreted phosphoprotein 1 (SPP1), were further screened using machine learning and verified in human and mice aortic valve tissues. Compared to normal tissues, the infiltration of immune cells in CAVD tissues was significantly higher, and the expressions of LRRC15 and SPP1 were positively correlated with immune cells infiltration. Moreover, the ceRNA network showed extensive regulatory interactions based on LRRC15 and SPP1. The authors’ findings identified LRRC15 and SPP1 as hub genes in immunological mechanisms during CAVD and OA initiation and progression, as well as potential targets for drug development.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-04-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12091","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140750892","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Excavation of gene markers associated with pancreatic ductal adenocarcinoma based on interrelationships of gene expression. 根据基因表达的相互关系挖掘与胰腺导管腺癌相关的基因标记。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-03-26 DOI: 10.1049/syb2.12090
Zhao-Yue Zhang, Zi-Jie Sun, Dong Gao, Yu-Duo Hao, Hao Lin, Fen Liu
{"title":"Excavation of gene markers associated with pancreatic ductal adenocarcinoma based on interrelationships of gene expression.","authors":"Zhao-Yue Zhang, Zi-Jie Sun, Dong Gao, Yu-Duo Hao, Hao Lin, Fen Liu","doi":"10.1049/syb2.12090","DOIUrl":"https://doi.org/10.1049/syb2.12090","url":null,"abstract":"<p><p>Pancreatic ductal adenocarcinoma (PDAC) accounts for 95% of all pancreatic cancer cases, posing grave challenges to its diagnosis and treatment. Timely diagnosis is pivotal for improving patient survival, necessitating the discovery of precise biomarkers. An innovative approach was introduced to identify gene markers for precision PDAC detection. The core idea of our method is to discover gene pairs that display consistent opposite relative expression and differential co-expression patterns between PDAC and normal samples. Reversal gene pair analysis and differential partial correlation analysis were performed to determine reversal differential partial correlation (RDC) gene pairs. Using incremental feature selection, the authors refined the selected gene set and constructed a machine-learning model for PDAC recognition. As a result, the approach identified 10 RDC gene pairs. And the model could achieve a remarkable accuracy of 96.1% during cross-validation, surpassing gene expression-based models. The experiment on independent validation data confirmed the model's performance. Enrichment analysis revealed the involvement of these genes in essential biological processes and shed light on their potential roles in PDAC pathogenesis. Overall, the findings highlight the potential of these 10 RDC gene pairs as effective diagnostic markers for early PDAC detection, bringing hope for improving patient prognosis and survival.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140289489","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Analysis of disulfidptosis- and cuproptosis-related LncRNAs in modulating the immune microenvironment and chemosensitivity in colon adenocarcinoma 分析与二硫化硫和杯突相关的 LncRNA 在调节结肠腺癌免疫微环境和化疗敏感性中的作用
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-03-08 DOI: 10.1049/syb2.12089
Qiang Fan, Guang-Bo Wu, Min Chen, Lei Zheng, Hong-Jie Li, Lv-Zhu Xiang, Meng Luo
{"title":"Analysis of disulfidptosis- and cuproptosis-related LncRNAs in modulating the immune microenvironment and chemosensitivity in colon adenocarcinoma","authors":"Qiang Fan,&nbsp;Guang-Bo Wu,&nbsp;Min Chen,&nbsp;Lei Zheng,&nbsp;Hong-Jie Li,&nbsp;Lv-Zhu Xiang,&nbsp;Meng Luo","doi":"10.1049/syb2.12089","DOIUrl":"10.1049/syb2.12089","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <p>The main objective was to establish a prognostic model utilising long non-coding RNAs associated with disulfidptosis and cuproptosis. The data for RNA-Sequence and clinicopathological information of Colon adenocarcinoma (COAD) were acquired from The Cancer Genome Atlas. A prognostic model was constructed using Cox regression and the Least Absolute Shrinkage and Selection Operator method. The model's predictive ability was assessed through principal component analysis, Kaplan–Meier analysis, nomogram etc. The ability of identifying the rates of overall survival, infiltration of immune cells, and chemosensitivity was also explored. In vitro experiments were conducted for the validation of differential expression and function of lncRNAs. A disulfidptosis and cuproptosis-related lncRNA prognostic model was constructed. The prognostic model exhibits excellent independent predictive capability for patient outcomes. Based on the authors’ model, the high-risk group exhibited higher tumour mutation burdened worse survival. Besides, differences in immune cell infiltration and responsiveness to chemotherapeutic medications exist among patients with different risk scores. Furthermore, aberrant expressions in certain lncRNAs have been validated in HCT116 cells. In particular, FENDRR and SNHG7 could affect the proliferation and migration of colorectal cancer cells. Our study developed a novel prognostic signature, providing valuable insights into prognosis, immune infiltration, and chemosensitivity in COAD patients.</p>\u0000 </section>\u0000 </div>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-03-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12089","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140066164","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Anoikis-related genes as potential prognostic biomarkers in gastric cancer: A multilevel integrative analysis and predictive therapeutic value 作为胃癌潜在预后生物标志物的Anoikis相关基因:多层次综合分析和预测治疗价值。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-02-20 DOI: 10.1049/syb2.12088
Yongjian Lin, Jinlu Liu
{"title":"Anoikis-related genes as potential prognostic biomarkers in gastric cancer: A multilevel integrative analysis and predictive therapeutic value","authors":"Yongjian Lin,&nbsp;Jinlu Liu","doi":"10.1049/syb2.12088","DOIUrl":"10.1049/syb2.12088","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <h3> Background</h3>\u0000 \u0000 <p>Gastric cancer (GC) is a frequent malignancy of the gastrointestinal tract. Exploring the potential anoikis mechanisms and pathways might facilitate GC research.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Purpose</h3>\u0000 \u0000 <p>The authors aim to determine the significance of anoikis-related genes (ARGs) in GC prognosis and explore the regulatory mechanisms in epigenetics.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Methods</h3>\u0000 \u0000 <p>After describing the genetic and transcriptional alterations of ARGs, we searched differentially expressed genes (DEGs) from the cancer genome atlas and gene expression omnibus databases to identify major cancer marker pathways. The non-negative matrix factorisation algorithm, Lasso, and Cox regression analysis were used to construct a risk model, and we validated and assessed the nomogram. Based on multiple levels and online platforms, this research evaluated the regulatory relationship of ARGs with GC.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Results</h3>\u0000 \u0000 <p>Overexpression of ARGs is associated with poor prognosis, which modulates immune signalling and promotes anti-anoikis. The consistency of the DEGs clustering with weighted gene co-expression network analysis results and the nomogram containing 10 variable genes improved the clinical applicability of ARGs. In anti-anoikis mode, cytology, histology, and epigenetics could facilitate the analysis of immunophenotypes, tumour immune microenvironment (TIME), and treatment prognosis.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Conclusion</h3>\u0000 \u0000 <p>A novel anoikis-related prognostic model for GC is constructed, and the significance of anoikis-related prognostic genes in the TIME and the metabolic pathways of tumours is initially explored.</p>\u0000 </section>\u0000 </div>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-02-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12088","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139913983","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
The ‘Other’ subfamily of HECT E3 ubiquitin ligases evaluate the tumour immune microenvironment and prognosis in patients with hepatocellular carcinoma HECT E3 泛素连接酶 "其他 "亚家族评估肝细胞癌患者的肿瘤免疫微环境和预后。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-02-06 DOI: 10.1049/syb2.12086
Runyu Dong, Zhixiong Wang, Danping Cao, Yanna Li, Yao Fei, Peng Gao, Menglin Zhu, Zhiqiang Chen, Juan Cai, Xueliang Zuo
{"title":"The ‘Other’ subfamily of HECT E3 ubiquitin ligases evaluate the tumour immune microenvironment and prognosis in patients with hepatocellular carcinoma","authors":"Runyu Dong,&nbsp;Zhixiong Wang,&nbsp;Danping Cao,&nbsp;Yanna Li,&nbsp;Yao Fei,&nbsp;Peng Gao,&nbsp;Menglin Zhu,&nbsp;Zhiqiang Chen,&nbsp;Juan Cai,&nbsp;Xueliang Zuo","doi":"10.1049/syb2.12086","DOIUrl":"10.1049/syb2.12086","url":null,"abstract":"<p>Primary liver cancer is the sixth most common cancer and the third leading cause of cancer-related death worldwide. The role of the ‘Other’ subfamily of HECT E3 ligases (E3s) in hepatocellular carcinoma (HCC) remains unknown. The expression of the ‘Other’ HECT E3s was performed using The Cancer Genome Atlas (TCGA) data, and the authors found that the ‘Other’ HECT E3s were differentially expressed in HCC. Prognostic values were assessed using the Kaplan–Meier method and indicated that the high expressions of HECTD2, HECTD3, and HACE1 were associated with a worse clinical prognosis of HCC patients. The expression of HECTD2 was significantly correlated with the infiltration of CD4<sup>+</sup>T cells and neutrophils. The levels of HECTD3 and HACE1 were notably related to the dendritic cells and memory B cells infiltrated in HCC. In addition, the three previously mentioned genes have shown to be associated with immune checkpoint genes, such as FOXP3, CCR8, STAT5B, TGFB1 and TIM-3. Moreover, HECTD2 could promote the proliferative activity, cell migration and invasive ability of HCC cells. Collectively, the authors’ study demonstrated that HECTD2 was a novel immune-related prognostic biomarker for HCC, providing new insight into the treatment and prognosis of HCC.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-02-06","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12086","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139693430","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Machine learning unveils RNA polymerase II binding as a predictor for SMAD2-dependent transcription dynamics in response to Actvin signalling 机器学习揭示了 RNA 聚合酶 II 结合是 SMAD2 依赖性转录动态响应 Actvin 信号的预测因子。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2024-01-09 DOI: 10.1049/syb2.12085
Dan Shi, Weihua Feng, Zhike Zi
{"title":"Machine learning unveils RNA polymerase II binding as a predictor for SMAD2-dependent transcription dynamics in response to Actvin signalling","authors":"Dan Shi,&nbsp;Weihua Feng,&nbsp;Zhike Zi","doi":"10.1049/syb2.12085","DOIUrl":"10.1049/syb2.12085","url":null,"abstract":"<p>The transforming growth factor-β (TGF-β) superfamily, including Nodal and Activin, plays a critical role in various cellular processes. Understanding the intricate regulation and gene expression dynamics of TGF-β signalling is of interest due to its diverse biological roles. A machine learning approach is used to predict gene expression patterns induced by Activin using features, such as histone modifications, RNA polymerase II binding, SMAD2-binding, and mRNA half-life. RNA sequencing and ChIP sequencing datasets were analysed and differentially expressed SMAD2-binding genes were identified. These genes were classified into activated and repressed categories based on their expression patterns. The predictive power of different features and combinations was evaluated using logistic regression models and their performances were assessed. Results showed that RNA polymerase II binding was the most informative feature for predicting the expression patterns of SMAD2-binding genes. The authors provide insights into the interplay between transcriptional regulation and Activin signalling and offers a computational framework for predicting gene expression patterns in response to cell signalling.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2024-01-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12085","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"139405035","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Research on symptoms composition, time series evolution, and network visualisation of interstitial cystitis based on complex network community discovery algorithm 基于复杂网络社区发现算法的间质性膀胱炎症状组成、时间序列演化及网络可视化研究
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2023-11-13 DOI: 10.1049/syb2.12083
Lei Pang, Zijun Ding, Xiaodong Bian, Weibing Shuang
{"title":"Research on symptoms composition, time series evolution, and network visualisation of interstitial cystitis based on complex network community discovery algorithm","authors":"Lei Pang,&nbsp;Zijun Ding,&nbsp;Xiaodong Bian,&nbsp;Weibing Shuang","doi":"10.1049/syb2.12083","DOIUrl":"10.1049/syb2.12083","url":null,"abstract":"<p>We analyzed the symptoms composition of Interstitial Cystitis (IC), the regularity of the evolution of symptoms before and after treatment, and the visualization of the community network, to provide a reference for clinical diagnosis and treatment of Interstitial Cystitis. Based on the outpatient electronic case data of 552 patients with Interstitial Cystitis, we used a complex network community discovery algorithm, directed weighted complex network, and Sankey map to mine the data of the symptoms composition of Interstitial Cystitis, the evolution of symptoms before and after treatment and the visualization of the community network, to analyze the epidemiological characteristics of interstitial cystitis symptoms in the real world. By the community division of the complex network of interstitial cystitis symptoms, We finally obtained three core symptom communities. Among them, symptom community A (bladder-related symptoms) is the symptom community with the highest proportion of nodes (60.00%) in the complex network of Interstitial Cystitis, symptom community B (non-bladder-related symptoms 1) ranks second (32.00%) in a complex network of Interstitial Cystitis, and symptom community C (non-bladder-related symptoms 2) has the lowest proportion (8.00%). There is a complex evolutionary relationship between the symptoms of Interstitial Cystitis before and after treatment. Among the single symptoms before and after treatment, the decreased rate of Day frequency is 93.22%, and the reduced urgency rate is 93.07%. The decline rate of Nocturia was 82.33%. From the perspective of different communities, the overall symptoms of symptom community A decreased by 34.39% after treatment, the general symptoms of symptom community B decreased by 35.37%, and the prevalent symptoms of symptom community C decreased by 71.43%. In the case of using diet regulation treatment to treat bladder pain, the cure rate of bladder pain can reach 22.67%. The cure rate of burning in bladders can get 15.38% with Percutaneous Sacral neuromodulation, 96.95% with diet regulation treatment, and 100% with Percutaneous Sacral neuromodulation. When using behavioral physiotherapy to treat bladder pain, 3.57% of the patient's symptoms change to bladder discomfort; 4% of the patient's symptoms change to bladder discomfort when using oral medicine to treat bladder pain.Symptom research methods based on community findings can effectively explore the rule of symptom outcome of Interstitial Cystitis before and after treatment, and the results are highly interpretable by professionals.</p><p>The cover image is based on the Original Article <i>Research on symptoms composition, time series evolution, and network visualisation of interstitial cystitis based on complex network community discovery algorithm</i> by Lei Pang et al., https://doi.org/10.1049/syb2.12083</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2023-11-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12083","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"92157178","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
Kinetic modelling of β-cell metabolism reveals control points in the insulin-regulating pyruvate cycling pathways β细胞代谢的动力学模型揭示了胰岛素调节丙酮酸循环途径中的控制点。
IF 2.3 4区 生物学
IET Systems Biology Pub Date : 2023-11-08 DOI: 10.1049/syb2.12077
Rahul Rahul, Adam R. Stinchcombe, Jamie W. Joseph, Brian Ingalls
{"title":"Kinetic modelling of β-cell metabolism reveals control points in the insulin-regulating pyruvate cycling pathways","authors":"Rahul Rahul,&nbsp;Adam R. Stinchcombe,&nbsp;Jamie W. Joseph,&nbsp;Brian Ingalls","doi":"10.1049/syb2.12077","DOIUrl":"10.1049/syb2.12077","url":null,"abstract":"<p>Insulin, a key hormone in the regulation of glucose homoeostasis, is secreted by pancreatic <i>β</i>-cells in response to elevated glucose levels. Insulin is released in a biphasic manner in response to glucose metabolism in <i>β</i>-cells. The first phase of insulin secretion is triggered by an increase in the ATP:ADP ratio; the second phase occurs in response to both a rise in ATP:ADP and other key metabolic signals, including a rise in the NADPH:NADP<sup>+</sup> ratio. Experimental evidence indicates that pyruvate-cycling pathways play an important role in the elevation of the NADPH:NADP<sup>+</sup> ratio in response to glucose. The authors developed a kinetic model for the tricarboxylic acid cycle and pyruvate cycling pathways. The authors successfully validated the model against experimental observations and performed a sensitivity analysis to identify key regulatory interactions in the system. The model predicts that the dicarboxylate carrier and the pyruvate transporter are the most important regulators of pyruvate cycling and NADPH production. In contrast, the analysis showed that variation in the pyruvate carboxylase flux was compensated by a response in the activity of mitochondrial isocitrate dehydrogenase (ICD<sub>m</sub>) resulting in minimal effect on overall pyruvate cycling flux. The model predictions suggest starting points for further experimental investigation, as well as potential drug targets for the treatment of type 2 diabetes.</p>","PeriodicalId":50379,"journal":{"name":"IET Systems Biology","volume":null,"pages":null},"PeriodicalIF":2.3,"publicationDate":"2023-11-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://ietresearch.onlinelibrary.wiley.com/doi/epdf/10.1049/syb2.12077","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"71523257","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"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
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