RNAseq of Human Aortic Endothelial Cells with CYB5R3 Knockdown

RNA sequencing data from Human Aortic Endothelial Cells (HAECs) transfected with non-targeting and CYB5R3-targeting siRNA. The dataset includes gene count data filtered for genes with at least one count per million per sample, and results from differential expression analysis using DESeq2. It was created by Mate Katona and last updated on 2026-04-21.

Use Cases

• Identify differentially expressed genes based on the DESeq2 analysis with an FDR < 0.05 threshold.
• Perform Gene Ontology enrichment analysis on the identified DEGs using the clusterProfiler results.
• Visualize expression patterns and pathway relationships using the chord plot methodology described.
• Re-analyze raw gene count data for alternative normalization or differential expression testing.

Strengths

• Data processing is documented, including steps for read mapping with Hisat2 and gene counting with featureCounts.
• Differential expression analysis was performed with a defined statistical threshold (adjusted p-value < 0.05).
• Includes multiple file formats (PDF, RMD, CSV, DOCX, ZIP) which may contain analysis scripts and documentation.

Limitations

• Row and column counts are unknown, making it difficult to assess the dataset's scale and structure prior to download.
• Column-level documentation is absent; field semantics must be inferred after download.
• The dataset is relatively small at 11.7 MB, which may limit the scope of analysis.

Provenance

Source

figshare

Collection Method

Bulk RNA sequencing of cultured HAECs on an Illumina platform, followed by bioinformatic processing.

Freshness

Last updated 2026-04-21 22:04:40; freshness should be verified.