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SC2sepsis: sepsis single-cell whole gene expression database
Yinjiaozhi Li1, Ruoming Tan1, Yang Chen1
1Department of Critical Care Medicine, Ruijin Hospital, Shanghai Jiaotong University School of Medicine, No.197 Ruijin Er Road, Shanghai CN 200025, China.
Database : the Journal of Biological Databases and Curation
|August 18, 2022
Summary
A new database, SC2sepsis, offers insights into sepsis by analyzing immune cell gene expression. It integrates single-cell RNA sequencing data from septic patients and healthy controls to identify key molecular changes in sepsis.
Area of Science:
- Immunology
- Genomics
- Bioinformatics
Background:
- Sepsis presents complex immune challenges in intensive care units.
- Understanding immune cell changes and molecular drivers is crucial for sepsis pathogenesis.
- Single-cell RNA sequencing (scRNA-seq) reveals gene expression at a single-cell level, aiding disease mechanism studies.
Purpose of the Study:
- To develop a comprehensive database of scRNA-seq data for sepsis research.
- To provide researchers with a resource for investigating sepsis immunopathology.
- To facilitate the discovery of sepsis-related gene expression signatures.
Main Methods:
- Integrated scRNA-seq datasets from 45 septic patients and 26 healthy controls.
- Compiled a total of 232,226 peripheral blood mononuclear cells.
- Developed a website (SC2sepsis) for database access and analysis.
Main Results:
- Identified 1988 differentially expressed genes between septic and healthy conditions.
- Implemented automatic cell-type annotation for data interpretation.
- Created a centralized resource for sepsis scRNA-seq data.
Conclusions:
- SC2sepsis serves as a valuable resource for sepsis research.
- The database aids in understanding immune dysregulation during sepsis.
- Facilitates deeper insights into sepsis pathogenesis through gene expression analysis.
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