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CARARIME: Interactive web server for comprehensive analysis of renal allograft rejection in immune microenvironment
Xiaoyou Liu1, Ding Liu2, Song Zhou2
1Department of Organ Transplantation, The First Affiliated Hospital of Guangzhou Medical University, Guangzhou, China.
Background:
Renal transplantation is a very effective treatment for renal failure patients following kidney transplant. However, the clinical benefit is restricted by the high incidence of organ rejection. Therefore, there exists a wealth of literature regarding the mechanism of renal transplant rejection, including a large library of expression data. In recent years, research has shown the immune microenvironment to play an important role in renal transplant rejection. Nephrology web analysis tools currently exist to address chronic nephropathy, renal tumors and children's kidneys, but no such tool exists that analyses the impact of immune microenvironment in renal transplantation rejection.
Methods:
To fill this gap, we have developed a web page analysis tool called Comprehensive Analysis of Renal Allograft Rerejction in Immune Microenvironment (CARARIME).
Results:
CARARIME analyzes the gene expression and immune microenvironment of published renal transplant rejection cohorts, including differential analysis (gene expression and immune cells), prognosis analysis (logistics regression, Univariable Cox Regression and Kaplan Meier), correlation analysis, enrichment analysis (GSEA and ssGSEA), and ROC analysis.
Conclusions:
Using this tool, researchers can easily analyze the immune microenvironment in the context of renal transplant rejection by clicking on the available options, helping to further the development of approaches to renal transplant rejection in the immune microenvironment field. CARARIME can be found in http://www.cararime.com.
Insights
A new tool, CARARIME, analyzes the immune microenvironment in renal transplant rejection. This aids researchers in understanding gene expression and immune cell impacts to improve kidney transplant outcomes.
Area of Science:
- Immunology
- Transplantation Science
- Bioinformatics
Background:
- Renal transplantation is vital for end-stage renal disease but limited by organ rejection.
- The immune microenvironment significantly influences renal transplant rejection.
- Existing nephrology tools do not analyze the immune microenvironment's role in renal transplant rejection.
Purpose of the Study:
- To develop a web-based analysis tool for the immune microenvironment in renal transplant rejection.
- To address the gap in specialized bioinformatics tools for renal transplant research.
Main Methods:
- Development of the Comprehensive Analysis of Renal Allograft Rejection in Immune Microenvironment (CARARIME) tool.
- CARARIME integrates analysis of gene expression and immune microenvironment data from published cohorts.
Main Results:
- CARARIME offers differential analysis of gene expression and immune cells.
- The tool provides prognosis analysis (logistic regression, Cox regression, Kaplan-Meier), correlation, enrichment (GSEA, ssGSEA), and ROC analyses.
- Facilitates easy exploration of immune microenvironment data for renal transplant rejection.
Conclusions:
- CARARIME empowers researchers to analyze the immune microenvironment in renal transplant rejection.
- The tool supports the advancement of strategies targeting the immune microenvironment to mitigate transplant rejection.
- CARARIME is accessible at http://www.cararime.com.
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