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Identify the signature genes for diagnose of uveal melanoma by weight gene co-expression network analysis 被引量:10
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作者 Kai Shi Zhi-Tong Bing +4 位作者 Gui-Qun Cao Ling Guo Ya-Na Cao Hai-Ou Jiang Mei-Xia Zhang 《International Journal of Ophthalmology(English edition)》 SCIE CAS 2015年第2期269-274,共6页
AIM: To identify and understand the relationship between co-expression pattern and clinic traits in uveal melanoma, weighted gene co-expression network analysis(WGCNA) is applied to investigate the gene expression lev... AIM: To identify and understand the relationship between co-expression pattern and clinic traits in uveal melanoma, weighted gene co-expression network analysis(WGCNA) is applied to investigate the gene expression levels and patient clinic features. Uveal melanoma is the most common primary eye tumor in adults. Although many studies have identified some important genes and pathways that were relevant to progress of uveal melanoma, the relationship between co-expression and clinic traits in systems level of uveal melanoma is unclear yet. We employ WGCNA to investigate the relationship underlying molecular and phenotype in this study.METHODS: Gene expression profile of uveal melanoma and patient clinic traits were collected from the Gene Expression Omnibus(GEO) database. The gene co-expression is calculated by WGCNA that is the R package software. The package is used to analyze the correlation between pairs of expression levels of genes.The function of the genes were annotated by gene ontology(GO).RESULTS: In this study, we identified four co-expression modules significantly correlated with clinictraits. Module blue positively correlated with radiotherapy treatment. Module purple positively correlates with tumor location(sclera) and negatively correlates with patient age. Module red positively correlates with sclera and negatively correlates with thickness of tumor. Module black positively correlates with the largest tumor diameter(LTD). Additionally, we identified the hug gene(top connectivity with other genes) in each module. The hub gene RPS15 A, PTGDS, CD53 and MSI2 might play a vital role in progress of uveal melanoma.CONCLUSION: From WGCNA analysis and hub gene calculation, we identified RPS15 A, PTGDS, CD53 and MSI2 might be target or diagnosis for uveal melanoma. 展开更多
关键词 weighted gene co-expression network analysis microarray data gene ontology
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MCENet: A database for maize conditional co-expression network and network characterization collaborated with multi-dimensional omics levels 被引量:5
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作者 Tian Tian Qi You +2 位作者 Hengyu Yan Wenying Xu Zhen Su 《Journal of Genetics and Genomics》 SCIE CAS CSCD 2018年第7期351-360,共10页
Maize (Zea mays) is the most widely grown grain crop in the world, playing important roles in agriculture and industry. However, the functions of maize genes remain largely unknown. High-quality genome- wide transcr... Maize (Zea mays) is the most widely grown grain crop in the world, playing important roles in agriculture and industry. However, the functions of maize genes remain largely unknown. High-quality genome- wide transcriptome datasets provide important biological knowledge which has been widely and suc- cessfully used in plants not only by measuring gene expression levels but also by enabling co-expression analysis for predicting gene functions and modules related to agronomic traits. Recently, thousands of maize transcriptomic data are available across different inbred lines, development stages, tissues, and treatments, or even across different tissue sections and cell lines. Here, we integrated 701 transcriptomic and 108 epigenomic data and studied the different conditional networks with multi-dimensional omics levels. We constructed a searchable, integrative, one-stop online platform, the maize conditional co- expression network (MCENet) platform. MCENet provides 10 global/conditional co-expression net- works, 5 network accessional analysis toolkits (i.e., Network Search, Network Remodel, Module Finder, Network Comparison, and Dynamic Expression View) and multiple network functional support toolkits (e.g., motif and module enrichment analysis). We hope that our database might help plant research communities to identify maize functional genes or modules that regulate important agronomic traits. 展开更多
关键词 Conditional co-expression network Module finder Transcriptomic datasets Epigenomic datasets MAIZE
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Weighted Gene Co-expression Network Analysis of Gene Modules for the Prognosis of Esophageal Cancer 被引量:2
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作者 张丛 孙茜 《Journal of Huazhong University of Science and Technology(Medical Sciences)》 SCIE CAS 2017年第3期319-325,共7页
Esophageal cancer is a common malignant tumor, whose pathogenesis and prognosis factors are not fully understood. This study aimed to discover the gene clusters that have similar functions and can be used to predict t... Esophageal cancer is a common malignant tumor, whose pathogenesis and prognosis factors are not fully understood. This study aimed to discover the gene clusters that have similar functions and can be used to predict the prognosis of esophageal cancer. The matched microarray and RNA sequencing data of 185 patients with esophageal cancer were downloaded from The Cancer Genome Atlas(TCGA), and gene co-expression networks were built without distinguishing between squamous carcinoma and adenocarcinoma. The result showed that 12 modules were associated with one or more survival data such as recurrence status, recurrence time, vital status or vital time. Furthermore, survival analysis showed that 5 out of the 12 modules were related to progression-free survival(PFS) or overall survival(OS). As the most important module, the midnight blue module with 82 genes was related to PFS, apart from the patient age, tumor grade, primary treatment success, and duration of smoking and tumor histological type. Gene ontology enrichment analysis revealed that 'glycoprotein binding' was the top enriched function of midnight blue module genes. Additionally, the blue module was the exclusive gene clusters related to OS. Platelet activating factor receptor(PTAFR) and feline Gardner-Rasheed(FGR) were the top hub genes in both modeling datasets and the STRING protein interaction database. In conclusion, our study provides novel insights into the prognosis-associated genes and screens out candidate biomarkers for esophageal cancer. 展开更多
关键词 esophageal cancer The Cancer Genome Atlas co-expression network analysis weighted gene co-expression network analysis enrichment analysis
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Identification of a TSPY co-expression network associated with DNA hypomethylation and tumor gene expression in somatic cancers 被引量:2
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作者 Tatsuo Kido Yun-Fai Chris Lau 《Journal of Genetics and Genomics》 SCIE CAS CSCD 2016年第10期577-585,共9页
Testis specific protein Y-encoded(TSPY) is a Y-located proto-oncogene predominantly expressed in normal male germ cells and various types of germ cell tumor. Significantly, TSPY is frequently expressed in somatic ca... Testis specific protein Y-encoded(TSPY) is a Y-located proto-oncogene predominantly expressed in normal male germ cells and various types of germ cell tumor. Significantly, TSPY is frequently expressed in somatic cancers including liver cancer but not in adjacent normal tissues, suggesting that ectopic TSPY expression could be associated with oncogenesis in non-germ cell cancers. Various studies demonstrated that TSPY expression promotes growth and proliferation in cancer cells; however, its relationship to other oncogenic events in TSPY-positive cancers remains unknown. The present study seeks to correlate TSPY expression with other molecular features in clinical cancer samples, by analyses of RNA-seq transcriptome and DNA methylation data in the Cancer Genome Atlas(TCGA) database. A total of 53 genes,including oncogenic lineage protein 28 homolog B(LIN28B) gene and RNA-binding motif protein Y-linked(RBMY) gene, are identified to be consistently co-expressed with TSPY, and have been collectively designated as the TSPY co-expression network(TCN). TCN genes were simultaneously activated in subsets of liver hepatocellular carcinoma(30%) and lung adenocarcinoma(10%) regardless of pathological stage, but only minimally in other cancer types. Further analysis revealed that the DNA methylation level was globally lower in the TCN-active than TCN-silent cancers. The specific expression and methylation patterns of TCN genes suggest that they could be useful as biomarkers for the diagnosis,prognosis and clinical management of cancers, especially those for liver and lung cancers, associated with TSPY co-expression network genes. 展开更多
关键词 Co-expression network DNA methylation Gene expression signature Cancer subclassification Y chromosome genes TSPY Cancer/testis antigens
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Identification of key genes underlying clinical features of hepatocellular carcinoma based on weighted gene co‑expression network analysis and bioinformatics analysis
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作者 ZHANG Kan LONG Fu‑li +3 位作者 LI Yuan SHU Fa‑ming YAO Fan WEI Ai‑Ling 《Journal of Hainan Medical University》 2023年第2期49-55,共7页
Objective: To identify module genes that are closely related to clinical features of hepatocellular carcinoma (HCC) by weighted gene co‑expression network analysis, and to provide a reference for early clinical diagno... Objective: To identify module genes that are closely related to clinical features of hepatocellular carcinoma (HCC) by weighted gene co‑expression network analysis, and to provide a reference for early clinical diagnosis and treatment. Methods: GSE84598 chip data were downloaded from the GEO database, and module genes closely related to the clinical features of HCC were extracted by comprehensive weighted gene co‑expression network analysis. Hub genes were identified through protein interaction network analysis by the maximum clique centrality (MCC) algorithm;Finally, the expression of hub genes was validated by TCGA database and the Kaplan Meier plotter online database was used to evaluate the prognostic relationship between hub genes and HCC patients. Results: By comparing the gene expression data between HCC tissue samples and normal liver tissue samples, a total of 6 262 differentially expressed genes were obtained, of which 2 207 were upregulated and 4 055 were downregulated. Weighted gene co‑expression network analysis was applied to identify 120 genes of key modules. By intersecting with the differentially expressed genes, 115 candidate hub genes were obtained. The results of enrichment analysis showed that the candidate hub genes were closely related to cell mitosis, p53 signaling pathway and so on. Further application of the MCC algorithm to the protein interaction network of 115 candidate hub genes identified five hub genes, namely NUF2, RRM2, UBE2C, CDC20 and MAD2L1. Validation of hub genes by TCGA database revealed that all five hub genes were significantly upregulated in HCC tissues compared to normal liver tissues;Moreover, survival analysis revealed that high expression of hub genes was closely associated with poor prognosis in HCC patients. Conclusions: This study identifies five hub genes by combining multiple databases, which may provide directions for the clinical diagnosis and treatment of HCC. 展开更多
关键词 Weighted gene co‑expression network analysis Bioinformatics Hepatocellular carcinoma Maximal clique centrality algorithm
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Theory Analysis of the Handover Challenge in Express Train Access Networks (ETAN)
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作者 HU Guoqing HUANG Anpeng +2 位作者 HE Ruisi AI Bo CHEN Zhangyuan 《China Communications》 SCIE CSCD 2014年第7期92-98,共7页
To handle the handover challenge in Express Train Access Networks(ETAN).mobility fading effects in high speed railway environments should be addressed first.Based on the investigation of fading effects in this paper,w... To handle the handover challenge in Express Train Access Networks(ETAN).mobility fading effects in high speed railway environments should be addressed first.Based on the investigation of fading effects in this paper,we obtain two theoretical bounds:HOTiming upper bound and HO-Margin lower bound,which are helpful guidelines to study the handover challenge today and in the future.Then,we apply them to analyze performance of conventional handover technologies and our proposal in ETAN.This follow-up theory analyses and simulation experiment results demonstrate that the proposed handover solution can minimize handover time up to 4ms(which is the fastest one so far),and reduce HO-Margin to 0.16 dB at a train speed of 350km/h. 展开更多
关键词 express train access network handover (HO) high speed railways HO-timing upper bound HO-margin lower bound
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Expression Pattern, Interaction Network, and Functional Analysis of the Arabidopsis Botrytis Susceptible1 Interactor
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作者 Jianzhong Huang Hongbin Zhang +4 位作者 Zhuojun Li Xiuying Guan Xiaoju Zhong Peng Jia Kai Chen 《Journal of Biomedical Science and Engineering》 2024年第10期171-178,共8页
E3 ubiquitin ligases are participated in numerous processes, regulating the response to biotic and abiotic stresses. Botrytis susceptible1 interactor (BOI) is a RING (Really Interesting New Gene)-type E3 ligase that m... E3 ubiquitin ligases are participated in numerous processes, regulating the response to biotic and abiotic stresses. Botrytis susceptible1 interactor (BOI) is a RING (Really Interesting New Gene)-type E3 ligase that mediates the ubiquitination of BOS1 (Botrytis susceptible1), a transcription factor involved in stress and pathogen responses. Although BOI is an E3 ligase, there are reports to show that BOI interacts with target proteins such as DELLAs or CONSTANS to repress gibberellin responses and flowering without the degradation of the target proteins. In this article, we utilize diversified methods to comprehensively analyze the expression pattern, interaction network and function of BOI gene. Firstly, 1800 bp upstream region of BOI gene from Arabidopsis thaliana (Arabidopsis) genome was isolated, and fused GUS reporter gene. The resulting expression cassette was introduced into wild-type Arabidopsis through Agrobacterium-mediated transformation. The result demonstrated that BOI gene was expressed predominantly in leaves, siliques, young roots, and flowering tissues, indicating that BOI gene may be involved in multiple processes in plant growth and development in Arabidopsis. Besides, eight candidate interacting proteins were obtained from the Arabidopsis cDNA library via yeast two-hybrid technology, including EXO70E2 (AT5G61010), WRKY7 (AT4G24240), WRKY11 (AT4G31550), WRKY17 (AT2G24570), UBP20 (AT4G17895), L5 (AT1G12290), SAUR9 (AT4G36110) and TCP21 (AT5G08330). Functional analysis of these candidate interacting proteins manifested that they related to multiple pathways, including biological and abiotic stress, programmed cell death, protein degradation, material metabolism and transcriptional regulation. In addition, the results of the transient assay proclaimed that BOI protein affects the protein stability of EXO70E2 and L5 through its E3 ubiquitin ligase activity. Our results provide novel clues for a better understanding of molecular mechanisms underlying BOI-mediated regulations. 展开更多
关键词 E3 Ubiquitin Ligases expression Pattern Interaction network ARABIDOPSIS
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Quantitative Expression of Heat Flow versus Tectonic Deformation in the China Continent: The Effects of Plastic-Flow Network and Stable Block 被引量:1
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作者 WANG Sheng-zu 《Acta Geologica Sinica(English Edition)》 SCIE CAS CSCD 2006年第1期97-109,共13页
Based on the heat flow data published in 1990 and 2001, a study of the factors influencing the terrestrial heat flow distribution in the China continent and its quantitative expression is carried out using the "Netli... Based on the heat flow data published in 1990 and 2001, a study of the factors influencing the terrestrial heat flow distribution in the China continent and its quantitative expression is carried out using the "Netlike Plastic-Flow" continental dynamics model and the methods of statistic analysis and optimum fitting. The result indicates that the factors influencing the heat flow distribution is classified into two groups, i.e. background and tectonic ones, in which the former mainly involves the non- uniform distribution of mantle heat flow, heat production of radioactive dements in the crust, heattransfer media and hydrothermal circulation, while the latter mainly involves plastic-flow networks and relatively-stable blocks. The plastic-flow network is a manifestation of shear localization in the netlike plastic-flow process in the lower lithosphere, which is composed of two sets of plastic-flow belts (PFBs) intersecting each other and, as one of the basic action regimes, controls the intraplate tectonic deformation. Relatively stable blocks (RSBs), which are the tectonic units with relatively-high viscosities existing in the netlike plastic-flow field, as one of the principal origins, result in the development of large-seale compressional basins. PFB and RSB, as the active and quiet states of tectonic deformation, give rise to the higher and lower heat flow values, respectivdy. The provincial average heat flow in continent can be estimated using the expression qav = q0 + a Pbt-c Pbk, where the three terms of the right side are background heat flow, PFB-positive contribution and RSB-negative contribution, Pbt and Pbk are the PFB- and RSB-coverage ratios, respectively, a is the coefficient of PFB- positive contribution depending mainly on the strain in the lower lithosphere, and c is the coefficient of RSB-negative contribution related mainly to the thickness of the lithosphere, the aseismic-area ratio and the tectonic age. For the major portion of the China continent excluding some of the southeastern region of China, the confidence interval of the provincial average background heat flow is qo=57.25±24.8 mW/m^2 and the PFB-positive- and RSB-negative-contribution coefficients are a=14.8-71.9 mW/m^2 and c=0-25.6 mW/m^2, respectively. The concepts of PFB and RSB effects and the heat flow expression suggested provide a new choice of the approach to the quantitative description of the characteristics of heat flow distribution in continent and their physical mechanisms. 展开更多
关键词 continental lithosphere terrestrial heat flow plastic-flow network relatively stable block heat-flow expression
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HMM-Based Photo-Realistic Talking Face Synthesis Using Facial Expression Parameter Mapping with Deep Neural Networks
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作者 Kazuki Sato Takashi Nose Akinori Ito 《Journal of Computer and Communications》 2017年第10期50-65,共16页
This paper proposes a technique for synthesizing a pixel-based photo-realistic talking face animation using two-step synthesis with HMMs and DNNs. We introduce facial expression parameters as an intermediate represent... This paper proposes a technique for synthesizing a pixel-based photo-realistic talking face animation using two-step synthesis with HMMs and DNNs. We introduce facial expression parameters as an intermediate representation that has a good correspondence with both of the input contexts and the output pixel data of face images. The sequences of the facial expression parameters are modeled using context-dependent HMMs with static and dynamic features. The mapping from the expression parameters to the target pixel images are trained using DNNs. We examine the required amount of the training data for HMMs and DNNs and compare the performance of the proposed technique with the conventional PCA-based technique through objective and subjective evaluation experiments. 展开更多
关键词 Visual-Speech SYNTHESIS TALKING Head Hidden MARKOV Models (HMMs) Deep Neural networks (DNNs) FACIAL expression Parameter
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肿瘤组织基本特征与肿瘤诊治策略
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作者 莫显明 《四川大学学报(自然科学版)》 北大核心 2026年第1期1-10,共10页
在实验与临床实践中,肿瘤组织是评估肿瘤起源、发展、进展、诊断、治疗方案及预后的研究对象。本文旨在通过总结肿瘤组织解析结果,揭示人肿瘤细胞的基本特征。对人类肿瘤组织细胞中基因表达的分析显示,肿瘤细胞表达的基因数量不仅反映了... 在实验与临床实践中,肿瘤组织是评估肿瘤起源、发展、进展、诊断、治疗方案及预后的研究对象。本文旨在通过总结肿瘤组织解析结果,揭示人肿瘤细胞的基本特征。对人类肿瘤组织细胞中基因表达的分析显示,肿瘤细胞表达的基因数量不仅反映了mRNA拷贝数,还揭示了癌基因与抑癌基因的表达情况,这表明肿瘤细胞的基因表达并非受到严格调控。肿瘤细胞的基因表达包含预置基因表达谱和随机基因表达谱。最具特征的预置基因表达谱是肿瘤细胞沿来源细胞分化路径的分化基因表达谱;随机基因表达谱为肿瘤细胞提供了多种细胞状态、特性、行为及细胞反应性状,表现为多种性状如增殖、凋亡、自噬、静息等共存于一个肿瘤细胞,促使肿瘤细胞具备形成组织的能力,包括神经形成、血管形成、纤维组织形成和重塑、炎性反应与免疫逃逸等能力。基于肿瘤组织的这些特征,为未来肿瘤的诊断和治疗提供了一种新的模型:诊断需明确肿瘤良恶性及肿瘤细胞来源、分化状态与谱系;依据肿瘤细胞来源、分化状态及谱系,胁迫肿瘤细胞沿来源细胞分化路径分化为良性组织,变成错构瘤,可通过手术去除错构瘤,达到治愈肿瘤的目的。肿瘤组织的解析结果证明肿瘤是一类能被治愈的疾病。 展开更多
关键词 肿瘤组织 肿瘤细胞 预置基因表达谱 随机基因表达谱 胁迫分化
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基于复杂网络理论的铁路快捷货物运输网络社团特征及脆弱性研究
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作者 王宇航 周凌云 +1 位作者 梁川 吴昊 《铁道运输与经济》 北大核心 2026年第2期205-216,共12页
探究铁路快捷货物运输网络内部交互特征与服务稳定性,以支撑网络布局优化与抗风险能力提升。基于复杂网络理论,构建“通道设施-运输组织-运行径路”网络模型;结合模块度优化准则,提出一种基于改进粒子群优化算法的社团划分方法;并考虑... 探究铁路快捷货物运输网络内部交互特征与服务稳定性,以支撑网络布局优化与抗风险能力提升。基于复杂网络理论,构建“通道设施-运输组织-运行径路”网络模型;结合模块度优化准则,提出一种基于改进粒子群优化算法的社团划分方法;并考虑货物价值属性,构建以运输时效与成本为核心的网络性能函数,通过多场景仿真评估网络脆弱性。以中国铁路快捷货物运输网络为例进行研究,结果表明:网络可划分为7个社团,社团分布呈现以区域集聚为主导、跨区域衔接为补充的空间特征。网络整体呈现较高的脆弱性,高脆弱性站点主要分布在东部沿海区域,如乔司站、江村站;高脆弱性区段多为连接东部沿海与内陆的主要铁路干线,如京广线江村—舵落口段。研究成果可为推动铁路快捷货物运输网络规模化发展、支撑铁路监测维护工作提供理论依据。 展开更多
关键词 铁路运输网络 铁路快捷货物 复杂网络理论 社团划分 网络脆弱性
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加权基因共表达网络分析结合机器学习筛选及验证骨关节炎生物标记物
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作者 张倩 黄东锋 《中国组织工程研究》 北大核心 2026年第5期1096-1105,共10页
背景:脂质代谢异常影响软骨细胞代谢,在骨关节炎的发生和进展中有着重要的作用,但目前其机制尚不明确。目的:采用加权基因共表达网络分析结合机器学习算法鉴定骨关节炎软骨细胞脂质代谢特征基因,并进行初步验证。方法:采用加权基因共表... 背景:脂质代谢异常影响软骨细胞代谢,在骨关节炎的发生和进展中有着重要的作用,但目前其机制尚不明确。目的:采用加权基因共表达网络分析结合机器学习算法鉴定骨关节炎软骨细胞脂质代谢特征基因,并进行初步验证。方法:采用加权基因共表达网络分析和微阵列数据的线性模型获得差异共表达基因,结合机器学习方法,最终筛选得到脂质代谢相关的特征基因。通过蛋白质互作网络分析,探究差异共表达基因的蛋白质互作网络关系;采用基因本体论和京都基因与基因组百科全书富集分析探索差异共表达基因所在信号通路;运用免疫相关性分析鉴定特征基因与免疫细胞浸润模式;体外分子实验验证特征基因的mRNA和蛋白表达水平。结果与结论:①经数据标准化处理和主成分分析、加权基因共表达网络分析和微阵列数据的线性模型获得高/低表达的差异共表达基因123和110个;②运用逻辑回归、随机森林和支持向量机3种机器学习算法筛选得到特征基因37个,最终得到2个脂质代谢相关的特征基因SMPD3和CYP4F3;③蛋白质互作网络分析显示SMPD3和CYP4F3蛋白相互作用均较低;④基因本体论结果显示差异共表达基因主要富集在中性粒细胞脱颗粒、中性粒细胞免疫反应和应答、中性粒细胞激活和白细胞脱颗粒等;而京都基因与基因组百科全书富集分析提示差异共表达基因主要涉及细胞外基质受体的作用和黏附等关键通路;⑤基于基因表达数据的细胞类型亚型鉴定分析显示8种免疫细胞在骨关节炎中具有显著差异;相关性分析显示SMPD3与静息态树突状细胞显著正相关(r=0.44,P=3.6×10^(-3)),与中性粒细胞显著负相关(r=-0.48,P=1.7×10^(-3));而CYP4F3与单核细胞和中性粒细胞显著正相关(r=0.76,P=7.6×10^(-9);r=0.73,P=6.0×10^(-8)),与T细胞滤泡辅助细胞和静息态树突状细胞显著负相关(r=-0.38,P=0.01;r=-0.38,P=0.01);⑥体外分子实验证明,在骨关节炎组SMPD3 mRNA和蛋白水平显著增高,而CYP4F3降低;⑦结果显示,骨关节炎软骨细胞脂质代谢特征基因SMPD3和CYP4F3可作为骨关节炎靶向治疗及软骨修复或退变的潜在生物标记物,为深入探究国人群体中脂质代谢异常与骨关节炎的关系及临床靶向治疗提供新策略。 展开更多
关键词 骨关节炎 脂质代谢 加权基因共表达网络分析 机器学习 靶向治疗 软骨修复或退变
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基于局部相关性和多尺度空间注意力的人脸表情识别
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作者 胡黄水 曹禹 +1 位作者 刘名扬 康琪儿 《吉林大学学报(理学版)》 北大核心 2026年第1期104-112,共9页
针对遮挡、姿势变化和光照等因素对人脸表情识别的影响,提出一种基于局部相关性和多尺度空间注意力的人脸表情识别方法.首先,通过局部相关性模块,将局部特征与全局特征相结合,并增强局部特征之间的联系,从而提高模型在复杂环境下的识别... 针对遮挡、姿势变化和光照等因素对人脸表情识别的影响,提出一种基于局部相关性和多尺度空间注意力的人脸表情识别方法.首先,通过局部相关性模块,将局部特征与全局特征相结合,并增强局部特征之间的联系,从而提高模型在复杂环境下的识别性能.其次,采用多尺度空间注意力机制,提取并融合不同层次的空间结构信息,提升模型的鲁棒性.实验结果表明,该方法在数据集RAF-DB和AffectNet上展现了优越的人脸表情识别效果,从而验证了该方法的有效性和泛化能力. 展开更多
关键词 人脸表情识别 空间注意力 多尺度网络 局部相关性
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《诗经》君子之乐的人际属性及意象表达
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作者 贾学鸿 《河北民族师范学院学报》 2026年第1期13-21,共9页
在中国最早的抒情歌集“诗三百”中,描写贵族君子朝会、狩猎、婚嫁、歌舞、宴饮等欢乐场面的篇目众多,家族兴旺持久、婚恋和乐多福、君臣和谐融洽等伦理理想蕴涵其中,使周族先人的欢乐意识附着上鲜明的人际属性和外在性、群体性、道德... 在中国最早的抒情歌集“诗三百”中,描写贵族君子朝会、狩猎、婚嫁、歌舞、宴饮等欢乐场面的篇目众多,家族兴旺持久、婚恋和乐多福、君臣和谐融洽等伦理理想蕴涵其中,使周族先人的欢乐意识附着上鲜明的人际属性和外在性、群体性、道德性等特征。诗歌将欢乐情绪与各种物类事象相关联,运用起兴、隐喻、象征等艺术手法,细腻而含蓄地把生命之自然性与伦理道德之社会性统一起来,使周代君子本能的欢乐之情与尊礼崇德、人格修养、家国责任、生命延续、亲情关爱融为一体,彰显出情感与理性、人伦与政治、自然与社会分而不分的民族特性。本文运用文本细读法,从家族同脉、婚恋同心、君臣同德三个角度,揭示《诗经》“乐而不淫”的温和之乐和理性之光,探讨周代礼乐文明兴盛时期的文化理想与古老诗歌的艺术魅力。 展开更多
关键词 诗三百 贵族君子 欢乐意识 人际网络 意象表达
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自然越冬过程不同种源天竺桂激素信号转导及转录组分析
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作者 崔罗敏 殷云龙 +3 位作者 於朝广 喻方圆 陶承友 芦治国 《植物资源与环境学报》 北大核心 2026年第1期25-35,47,共12页
以栽培于江苏南京的安徽、河南和浙江3个种源的天竺桂(Cinnamomum japonicum Siebold)为研究材料,对自然越冬过程其叶片中激素含量和转录组进行分析。结果表明:自然越冬过程河南种源的天竺桂叶片中吲哚乙酸含量显著高于(p<0.05)安徽... 以栽培于江苏南京的安徽、河南和浙江3个种源的天竺桂(Cinnamomum japonicum Siebold)为研究材料,对自然越冬过程其叶片中激素含量和转录组进行分析。结果表明:自然越冬过程河南种源的天竺桂叶片中吲哚乙酸含量显著高于(p<0.05)安徽和浙江种源,安徽种源的天竺桂叶片中脱落酸、水杨酸和赤霉素A1含量总体显著高于河南和浙江种源。转录组测序共获得192466个unigene,进行Nr、Nt、KO、Swiss-Prot、KOG、GO和PFAM 7大数据库的基因功能注释,注释率为54.4%。差异表达基因筛选、k-means聚类分析和加权基因共表达网络分析(WGCNA)结果表明:植物-病原体互作、淀粉和蔗糖代谢以及植物激素信号转导3个关键KEGG通路显著富集。脱落酸和水杨酸信号通路是天竺桂应对自然越冬的重要代谢通路,其中脱落酸受体基因(PYR/PYL)、蔗糖非发酵激酶基因(SnRK 2)、脱落酸应答元件结合因子基因(ABF)、病程相关基因非表达子1(NPR1)、TGACG结合模体(TGA)转录因子基因和病程相关基因(PR-1)具有重要作用。随机挑选6个差异表达基因的实时荧光定量PCR相对表达量与转录组表达量的变化趋势一致。综上所述,3个种源天竺桂通过特异的激素动态平衡与激素信号通路协同调控适应自然越冬,其中河南种源表现出更强的抗寒代谢调控能力。 展开更多
关键词 天竺桂 自然越冬 植物激素 抗寒性 转录组 加权基因共表达网络分析(WGCNA)
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基于WGCNA的辣椒抗疫病关键基因的挖掘
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作者 石凤岩 魏美君 +2 位作者 王秀雪 张曦 邹春蕾 《园艺学报》 北大核心 2026年第1期257-274,共18页
辣椒疫病是由辣椒疫霉菌侵染引起的一种极具破坏性的土传病害,严重制约辣椒生产。目前辣椒抗疫病的分子机制尚不清楚,抗性基因的挖掘和功能分析是抗病育种的基础和前提。通过前期筛选,获得了对辣椒疫霉菌1、2和3号生理小种均表现免疫性... 辣椒疫病是由辣椒疫霉菌侵染引起的一种极具破坏性的土传病害,严重制约辣椒生产。目前辣椒抗疫病的分子机制尚不清楚,抗性基因的挖掘和功能分析是抗病育种的基础和前提。通过前期筛选,获得了对辣椒疫霉菌1、2和3号生理小种均表现免疫性的辣椒高代自交系ZCM334,该品系在接菌后,所有植株没有任何感病症状。在接菌后不同时间点(0、12、24和48 h)采集ZCM334和感病材料Early Calwonder的根部样本,并进行转录组测序和加权基因共表达网络分析(weighted gene co-expression network analysis,WGCNA)。共鉴定到17个共表达模块,其中4个与ZCM334抗疫病性呈显著正相关。功能富集分析结果显示,上述4个模块中的基因主要富集在植物激素信号转导、糖酵解、葡萄糖生成以及脂肪酸降解等代谢通路。对这4个模块作相关性分析,预测出12个可能与辣椒抗疫病相关的核心基因,其中包括6个已知功能基因(CA06g02420、CA06g08970、CA01g15560、CA09g14900、CA09g14910和CA09g15310)和6个新基因(novel.5608、novel.2732、novel.3300、novel.752、novel.2181和novel.12038),并构建了基因调控网络。qRT-PCR分析发现,这12个核心基因在ZCM334中显著高表达,且在接菌后24或48 h表达量最高。 展开更多
关键词 辣椒 辣椒疫霉菌 抗病性 基因共表达网络 基因挖掘 核心基因 代谢通路
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藜麦GRAS基因家族的鉴定及其在生殖发育中的调控功能
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作者 杨炀 张帅 +3 位作者 董陈文华 曾孟琼 林春 毛自朝 《浙江农业学报》 北大核心 2026年第1期35-53,共19页
GRAS基因家族在植物生长发育与逆境响应中具有重要调控功能,但目前尚未见其在藜麦(Chenopodium quinoa)生殖发育中的相关报道。本研究基于最新藜麦基因组数据,系统鉴定并分析藜麦GRAS家族(CqGRAS)成员,重点解析其基因结构、启动子顺式... GRAS基因家族在植物生长发育与逆境响应中具有重要调控功能,但目前尚未见其在藜麦(Chenopodium quinoa)生殖发育中的相关报道。本研究基于最新藜麦基因组数据,系统鉴定并分析藜麦GRAS家族(CqGRAS)成员,重点解析其基因结构、启动子顺式作用元件,以及在营养与生殖生长阶段的表达模式与调控机制。同时,将CqGRAS成员与拟南芥、藜麦二倍体祖先Chenopodium watsonii(A基因组)和Chenopodium suecicum(B基因组)的GRAS基因进行对比分析。结果共鉴定到51个CqGRAS基因,这些基因普遍内含子数量较少,且与拟南芥及二倍体藜属物种GRAS基因具有较高同源性。启动子分析表明,该家族基因富含响应植物激素(如赤霉素、脱落酸、乙烯和茉莉酸)、生长发育与逆境胁迫的顺式作用元件。系统进化分析将CqGRAS家族划分为10个亚家族,其中HAM(CqHAM01)、PAT1(CqPAT1-06/07/08)、DELLA(CqDELLA01/02)、DLT(CqDLT01/02)和SHR(CqSHR05/06)在花序和发育种子中表达水平较高。加权基因共表达网络分析提示,这些与生殖发育相关的CqGRAS基因可能通过整合光信号与激素信号通路,调控藜麦花和种子的生长发育。本研究为阐明GRAS家族在藜麦生殖发育中的功能提供了新见解,并为深入解析其分子机制与育种应用奠定了基础。 展开更多
关键词 藜麦 GRAS基因家族 生殖调控 加权基因共表达网络分析 生殖发育
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转录组学测序解析难治性高血压基因表达特征及核心差异基因
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作者 姜彤 彭世靖 +3 位作者 王姗姗 王昱琪 赵文杰 杨雯晴 《遗传》 北大核心 2026年第1期76-86,共11页
难治性高血压(resistant hypertension,RH)是高血压疾病谱中危险类型之一,发病机制复杂。为探寻该病相关核心差异基因,本研究对2022年收集自山东中医药大学附属医院及山东大学第五人民医院的30份血液样本(10例高血压患者、10例RH患者、10... 难治性高血压(resistant hypertension,RH)是高血压疾病谱中危险类型之一,发病机制复杂。为探寻该病相关核心差异基因,本研究对2022年收集自山东中医药大学附属医院及山东大学第五人民医院的30份血液样本(10例高血压患者、10例RH患者、10名健康对照者)进行了转录组测序。利用DESeq2分析筛选出731个差异表达基因(differentially expressed genes,DEGs),并通过加权基因共表达网络分析(weighted gene co-expression network analysis,WGCNA)鉴定出2个与RH显著相关的模块(含1,944个基因)。将模块基因与DEGs取交集获得229个关键DEGs。基因本体(Gene Ontology,GO)分析显示,这些关键DEGs显著富集于药物分解代谢过程、血红蛋白复合体、过氧化物酶活性等条目;京都基因与基因组百科全书(Kyoto Encyclopedia of Genes and Genomes,KEGG)通路分析表明,这些DEGs与VEGF信号通路和线粒体自噬等通路相关。进一步构建蛋白质-蛋白质互作(protein-protein interaction,PPI)网络,并运用Cytoscape软件的cytohubba插件整合12种算法筛选核心基因(取各算法前20名基因交集),初步确定GATA1、EPB42、ANK1、SNCA为核心差异基因。qRT-PCR验证结果证实GATA1与EPB42的表达变化与测序结果一致。该研究表明,RH的发生涉及多基因协同作用,核心基因(如GATA1、EPB42)及相关通路(如VEGF信号通路、线粒体自噬)的扰动可能在疾病进程中发挥重要作用,这为深入理解RH的病理机制提供了新线索。 展开更多
关键词 难治性高血压 转录组学 加权基因共表达网络分析
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FGF信号途径介导鹿角杯形珊瑚水螅体高温脱离的分子机制探究
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作者 王艺 余秋玉 +2 位作者 曾赛男 刘兆群 周智 《海洋学报》 北大核心 2026年第1期42-55,共14页
本研究从鹿角杯形珊瑚(Pocillopora damicornis)中鉴定并克隆了2个成纤维细胞生长因子(fibroblast growth factor,FGF)基因,命名为PdFGF1和PdFGF17。序列分析结果表明,PdFGF1与Pd-FGF17分别编码195个和149个氨基酸,均含有信号肽和典型的... 本研究从鹿角杯形珊瑚(Pocillopora damicornis)中鉴定并克隆了2个成纤维细胞生长因子(fibroblast growth factor,FGF)基因,命名为PdFGF1和PdFGF17。序列分析结果表明,PdFGF1与Pd-FGF17分别编码195个和149个氨基酸,均含有信号肽和典型的FGF结构域,并具有β-折叠、η-环等拓扑结构。高等动物FGF家族分为FGF1、FGF4、FGF7、FGF8、FGF9、FGF11、FGF19等7个亚家族。多序列比对和系统进化树分析结果表明,PdFGF1属于FGF1亚家族,与人(Homo sapiens)FGF1的序列一致性为30.15%;PdFGF17属于FGF8亚家族,与人FGF1的序列一致性为29.36%。为进一步揭示Pd-FGF1和PdFGF17的生物学功能,本研究分析了高温诱导鹿角杯形珊瑚水螅体脱离的转录组数据,发现在水螅体高温脱离过程中FGF家族基因(PdFGF1、PdFGF2、PdFGF9、PdFGF17、PdFGF18、PdFGFR1、PdFGFR2、PdFGFR3及PdFGFR4)的表达水平显著上升,且FGF信号途径能够激活下游Ras/MAPK级联反应,驱动细胞骨架重构与细胞黏附调节;Cytoscape基因共表达网络分析还揭示FGF与珊瑚共肉(coenosarc)胞外基质(extracellular matrix,ECM)降解相关基因(ADAMTSs、COL21A1、CTSZ、P4HA等)存在显著共表达关系。综上,本研究发现高温激活了鹿角杯形珊瑚的FGF信号途径,促进了共肉组织ECM的降解,进而介导共肉裂解和水螅体脱离。 展开更多
关键词 成纤维细胞生长因子 水螅体脱离 热胁迫 加权基因共表达网络分析 基因克隆
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基于加权基因共表达网络分析和分子对接的川乌-黄柏配伍治疗复发性阿弗他溃疡的网络药理学研究及实验验证
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作者 曹铭晨 荆凡波 +6 位作者 王文晓 张泽南 李文静 程绍远 邵延琳 于红霞 孟凡刚 《山东科学》 2026年第1期31-42,共12页
基于加权基因共表达网络分析(WGCNA)和网络药理学探讨川乌-黄柏配伍外用治疗复发性阿弗他溃疡的分子作用机制。检索整理川乌-黄柏的主要活性成分301个共涉及靶点3273个;WGCNA分析复发性阿弗他溃疡相关基因,R软件VennDiagram包分析药物... 基于加权基因共表达网络分析(WGCNA)和网络药理学探讨川乌-黄柏配伍外用治疗复发性阿弗他溃疡的分子作用机制。检索整理川乌-黄柏的主要活性成分301个共涉及靶点3273个;WGCNA分析复发性阿弗他溃疡相关基因,R软件VennDiagram包分析药物相关靶点与不同模块的交集,并基于KEGG、GO、Reactome Gene Sets来源进行通路和过程富集分析和分层聚类,主要涉及细胞凋亡调节和信号传导、谷胱甘肽代谢、PI3K异常的信号传导、表皮生长因子受体酪氨酸激酶抑制剂耐药性、免疫系统中的细胞因子信号传导、PPAR alpha通路等,分别对应免疫-代谢-修复三个层面;Cytoscape_v3.7.2软件Mcode插件鉴定关键模块的hub基因包括ERBB2、CD44、NFKB1、MMP2,分子对接提示ERBB2与大部分活性成分结合度较高,而双酯型乌头碱与黄柏黄酮类成分主要作用于CD44,黄柏生物碱主要作用于MMP2,川乌单酯型、双酯型生物碱主要作用于NFKB1,两者相辅相成相须为用发挥抗复发性阿弗他溃疡作用。核心成分苯甲酰中乌头胺显著降低L-脂多糖诱导的巨噬细胞活性氧浓度升高,提示川乌作为君药主要通过新陈代谢途径发挥调控作用。 展开更多
关键词 加权基因共表达网络分析(WGCNA) 复发性阿弗他溃疡 系统药理学 川乌 黄柏
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