MASLD GSE289173 LSEC SHIBA PSI Matrix V1: Per-Sample Splicing Data

Per-sample Percent Spliced-In (PSI) matrix for Liver Sinusoidal Endothelial Cells (LSECs) from the GSE289173 study. The dataset contains 75,924 rows and 4 columns, generated by author depinwang using SHIBA v0.8.2 on pseudobulk data from 48 samples. It compares 28 samples from patients with Metabolic Dysfunction-Associated Steatotic Liver Disease (MASLD) against 20 control samples.

Use Cases

• Analyze differential alternative splicing events between MASLD and control samples based on the PSI values.
• Identify novel or disease-associated splicing isoforms in liver endothelial cells based on the junction-level data.
• Perform downstream clustering or correlation analysis of splicing profiles across the 48 samples.
• Validate splicing quantification tools by comparing results with the SHIBA pipeline outputs mentioned in the description.

Strengths

• Focuses on a specific, biologically relevant cell type (Liver Sinusoidal Endothelial Cells).
• Provides a direct comparison between 28 disease (MASLD) and 20 control samples.
• Uses a specific, documented analysis pipeline (SHIBA v0.8.2, regtools 1.0.0, Ensembl 113 GTF).

Limitations

• Description metadata is limited; actual data quality requires manual inspection after download.
• Column-level documentation is absent; field semantics must be inferred after download.
• Dataset is described as containing no differential testing results, limiting immediate biological interpretation.

Provenance

Source

Gene Expression Omnibus (GEO) accession GSE289173, processed by author depinwang.

Collection Method

SHIBA v0.8.2 pseudobulk mode applied to 48 per-donor LSEC BAM files aligned with cellranger/STAR.

Freshness

Last updated 2026-06-03 20:46:02; freshness should be verified.