Paired Differential Gene Expression and Splicing Results for 199 Comparisons

199 baseline vs. case comparisons provide paired differential gene expression and splicing results from 100 randomly curated transcriptomic datasets. Results were computed using the R package pairedGSEA, which utilized Limma and fgsea, and are stored in .RDS files containing metadata, gene-level results, and over-representation analysis. Søren Helweg Dam from the Technical University of Denmark created this dataset from a local copy of the ARCHS4 v11 database.

Use Cases

• Benchmarking differential expression analysis pipelines based on the 199 provided comparisons.
• Investigating the relationship between differential expression and splicing based on paired results.
• Performing gene-set over-representation analysis based on the included 'gene_set' results objects.
• Validating new transcriptomic analysis tools against a curated set of results from established methods like Limma.

Strengths

• Contains results for 199 distinct baseline vs. case comparisons.
• Each result file includes four structured objects: metadata, genes, gene_set, and experiment.
• Data is derived from 100 randomly curated datasets from the ARCHS4 v11 database.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Last update date is unknown; freshness unverified.
• Row count is unknown, which may limit suitability assessment.

Provenance

Source

Technical University of Denmark

Collection Method

Analyzed using the R package pairedGSEA (utilizing Limma and fgsea) on datasets from a local copy of the ARCHS4 v11 database.