Supplementary file 1_Integrated transcriptomic profiling of programmed cell death patterns

A transcriptomic dataset from a study investigating programmed cell death patterns in hepatic ischemia-reperfusion injury. The data includes bulk and single-cell RNA-seq analyses from four public GEO datasets, used to identify hub genes and construct a risk prediction model. The dataset was authored by Manling Xie and last updated on 2026-05-19.

Use Cases

• Training machine learning models for HIRI risk prediction based on the five identified hub genes (THBS1, MAP1LC3B, PPP1R15A, CXCL8, ZC3H12A).
• Analyzing the heterogeneity of programmed cell death patterns in liver tissue based on the 12 distinct patterns identified via single-cell analysis.
• Investigating the role of the THBS1-CD47 signaling axis in macrophage-hepatocyte crosstalk and apoptosis.
• Validating gene expression signatures for specific cell death patterns like anoikis, immunogenic cell death, NETosis, and pyroptosis mentioned in the study.

Strengths

• Integrates data from four distinct public Gene Expression Omnibus (GEO) datasets (GSE151648, GSE14951, GSE12720, GSE171539).
• Identifies 25 consistently upregulated programmed cell death-related genes and 5 hub genes validated via machine learning.
• Provides single-cell resolution for 12 distinct programmed cell death patterns within the HIRI microenvironment.

Limitations

• The dataset is a 566.2 KB DOCX file, suggesting it is likely a supplementary document rather than the primary raw data.
• Column-level documentation and sample data are unavailable, requiring manual inspection after download.
• Row count is unknown, which may limit suitability assessment for large-scale analyses.

Provenance

Source

Gene Expression Omnibus (GEO) database, specifically datasets GSE151648, GSE14951, GSE12720, and GSE171539.

Collection Method

Bulk and single-cell transcriptomic analysis, combined with machine learning algorithms and in vivo/in vitro experimental validation.

Freshness

Last updated 2026-05-19 04:22:44; freshness should be verified.