Baochang Su, Sheng-Fu Yang, Xun-da Ye, Zhang-Xiong Huang, Yuwei Song, San-Huang Xu
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However, the function of lncRNAs in the immune microenvironment of ccRCC remains unclear\n\n\n\nLong noncoding RNAs (lncRNAs) have been identified as a class of gene expression regulators that play a critical role in the immune system.\n\n\n\nThe least absolute shrinkage and selection operator regression techniques, robust likelihoodbased survival modeling, and Cox regression analysis were used to identify potential prognostic\nlncRNAs. The relationship between the signature and the tumor's immune infiltration was analyzed\nusing gene set enrichment analysis and the subset analysis of immune cells.\n\n\n\nLINC00839, LINC01671, AC093673, and AC008760 were selected to create a risk signature.\nFor 3-, 5-, and 8-year overall survival rates, the areas under the receiver operating characteristic curves of\nthe risk signature set were 0.689, 0.721, and 0.719 in the training set and 0.683, 0.686, and 0.665 in the\nvalidation set, respectively. A model and nomogram were constructed using the risk signature and clinical characteristics. The C-index of the model was 0.78 in the training set and 0.773 in the validation set.\n\n\n\nhe relationship between the signature and the tumor's immune infiltration was analyzed using gene set enrichment analysis and the subset analysis of immune cells. A model and nomogram were constructed using the risk signature and clinical characteristics.\n\n\n\nThe risk signature reflects the tumor's current immune infiltration and is associated with\nregulatory T cell differentiation, interleukin 17 production regulation, negative regulation of inflammatory response to an antigenic stimulus, and the IL6-JAK-STAT3 signaling pathway. This study\nprovides prognostic information for ccRCC patients and may also serve as a useful clue for future\nimmunotherapies.\n\n\n\nThe study's first major strength was the use of stricter criteria (both sample and lncRNAs) to increase the precision of the findings and the model's efficiency. Simultaneously, a variety of calculation methods are used to ensure the validity of the results, including univariate/multivariate Cox regression, robust likelihood-based survival modeling, and LASSO regression analyses. Second, the immune-cell components of the samples were thoroughly analyzed (not just using immune scoring) in order to establish a more detailed relationship between tumor immune infiltration and risk signature. Thirdly, a visually recognizable nomogram of the model has been created for clinicians' ease of use.\n\n\n\nno avaiable\n","PeriodicalId":50601,"journal":{"name":"Current Proteomics","volume":"15 1","pages":""},"PeriodicalIF":0.5000,"publicationDate":"2023-03-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":"0","resultStr":"{\"title\":\"LINC00839, LINC01671, AC093673 and AC008760 are Associated with\\nthe Prognosis and Immune Infiltration of Clear-cell Renal Cell Carcinoma\",\"authors\":\"Baochang Su, Sheng-Fu Yang, Xun-da Ye, Zhang-Xiong Huang, Yuwei Song, San-Huang Xu\",\"doi\":\"10.2174/1570164620666230328120621\",\"DOIUrl\":null,\"url\":null,\"abstract\":\"\\n\\nClear cell renal cell carcinoma (ccRCC) is the most common type of kidney\\ncancer, and it is a significant global health problem causing significant morbidity and mortality. Long\\nnoncoding RNAs (lncRNAs) have been identified as a class of gene expression regulators that play a\\ncritical role in the immune system. However, the function of lncRNAs in the immune microenvironment of ccRCC remains unclear\\n\\n\\n\\nLong noncoding RNAs (lncRNAs) have been identified as a class of gene expression regulators that play a critical role in the immune system.\\n\\n\\n\\nThe least absolute shrinkage and selection operator regression techniques, robust likelihoodbased survival modeling, and Cox regression analysis were used to identify potential prognostic\\nlncRNAs. The relationship between the signature and the tumor's immune infiltration was analyzed\\nusing gene set enrichment analysis and the subset analysis of immune cells.\\n\\n\\n\\nLINC00839, LINC01671, AC093673, and AC008760 were selected to create a risk signature.\\nFor 3-, 5-, and 8-year overall survival rates, the areas under the receiver operating characteristic curves of\\nthe risk signature set were 0.689, 0.721, and 0.719 in the training set and 0.683, 0.686, and 0.665 in the\\nvalidation set, respectively. A model and nomogram were constructed using the risk signature and clinical characteristics. The C-index of the model was 0.78 in the training set and 0.773 in the validation set.\\n\\n\\n\\nhe relationship between the signature and the tumor's immune infiltration was analyzed using gene set enrichment analysis and the subset analysis of immune cells. A model and nomogram were constructed using the risk signature and clinical characteristics.\\n\\n\\n\\nThe risk signature reflects the tumor's current immune infiltration and is associated with\\nregulatory T cell differentiation, interleukin 17 production regulation, negative regulation of inflammatory response to an antigenic stimulus, and the IL6-JAK-STAT3 signaling pathway. This study\\nprovides prognostic information for ccRCC patients and may also serve as a useful clue for future\\nimmunotherapies.\\n\\n\\n\\nThe study's first major strength was the use of stricter criteria (both sample and lncRNAs) to increase the precision of the findings and the model's efficiency. Simultaneously, a variety of calculation methods are used to ensure the validity of the results, including univariate/multivariate Cox regression, robust likelihood-based survival modeling, and LASSO regression analyses. Second, the immune-cell components of the samples were thoroughly analyzed (not just using immune scoring) in order to establish a more detailed relationship between tumor immune infiltration and risk signature. 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LINC00839, LINC01671, AC093673 and AC008760 are Associated with
the Prognosis and Immune Infiltration of Clear-cell Renal Cell Carcinoma
Clear cell renal cell carcinoma (ccRCC) is the most common type of kidney
cancer, and it is a significant global health problem causing significant morbidity and mortality. Long
noncoding RNAs (lncRNAs) have been identified as a class of gene expression regulators that play a
critical role in the immune system. However, the function of lncRNAs in the immune microenvironment of ccRCC remains unclear
Long noncoding RNAs (lncRNAs) have been identified as a class of gene expression regulators that play a critical role in the immune system.
The least absolute shrinkage and selection operator regression techniques, robust likelihoodbased survival modeling, and Cox regression analysis were used to identify potential prognostic
lncRNAs. The relationship between the signature and the tumor's immune infiltration was analyzed
using gene set enrichment analysis and the subset analysis of immune cells.
LINC00839, LINC01671, AC093673, and AC008760 were selected to create a risk signature.
For 3-, 5-, and 8-year overall survival rates, the areas under the receiver operating characteristic curves of
the risk signature set were 0.689, 0.721, and 0.719 in the training set and 0.683, 0.686, and 0.665 in the
validation set, respectively. A model and nomogram were constructed using the risk signature and clinical characteristics. The C-index of the model was 0.78 in the training set and 0.773 in the validation set.
he relationship between the signature and the tumor's immune infiltration was analyzed using gene set enrichment analysis and the subset analysis of immune cells. A model and nomogram were constructed using the risk signature and clinical characteristics.
The risk signature reflects the tumor's current immune infiltration and is associated with
regulatory T cell differentiation, interleukin 17 production regulation, negative regulation of inflammatory response to an antigenic stimulus, and the IL6-JAK-STAT3 signaling pathway. This study
provides prognostic information for ccRCC patients and may also serve as a useful clue for future
immunotherapies.
The study's first major strength was the use of stricter criteria (both sample and lncRNAs) to increase the precision of the findings and the model's efficiency. Simultaneously, a variety of calculation methods are used to ensure the validity of the results, including univariate/multivariate Cox regression, robust likelihood-based survival modeling, and LASSO regression analyses. Second, the immune-cell components of the samples were thoroughly analyzed (not just using immune scoring) in order to establish a more detailed relationship between tumor immune infiltration and risk signature. Thirdly, a visually recognizable nomogram of the model has been created for clinicians' ease of use.
no avaiable
Current ProteomicsBIOCHEMICAL RESEARCH METHODS-BIOCHEMISTRY & MOLECULAR BIOLOGY
CiteScore
1.60
自引率
0.00%
发文量
25
审稿时长
>0 weeks
期刊介绍:
Research in the emerging field of proteomics is growing at an extremely rapid rate. The principal aim of Current Proteomics is to publish well-timed in-depth/mini review articles in this fast-expanding area on topics relevant and significant to the development of proteomics. Current Proteomics is an essential journal for everyone involved in proteomics and related fields in both academia and industry.
Current Proteomics publishes in-depth/mini review articles in all aspects of the fast-expanding field of proteomics. All areas of proteomics are covered together with the methodology, software, databases, technological advances and applications of proteomics, including functional proteomics. Diverse technologies covered include but are not limited to:
Protein separation and characterization techniques
2-D gel electrophoresis and image analysis
Techniques for protein expression profiling including mass spectrometry-based methods and algorithms for correlative database searching
Determination of co-translational and post- translational modification of proteins
Protein/peptide microarrays
Biomolecular interaction analysis
Analysis of protein complexes
Yeast two-hybrid projects
Protein-protein interaction (protein interactome) pathways and cell signaling networks
Systems biology
Proteome informatics (bioinformatics)
Knowledge integration and management tools
High-throughput protein structural studies (using mass spectrometry, nuclear magnetic resonance and X-ray crystallography)
High-throughput computational methods for protein 3-D structure as well as function determination
Robotics, nanotechnology, and microfluidics.