Proteomic Changes Following SMARCA4 Knockdown in Medulloblastoma

A proteomic dataset from figshare details the functional impact of SMARCA4 knockdown in Group 3 medulloblastoma cells. It contains quantitative mass spectrometry data from HD-MB03 cell models, generated by Medha Gayathri J. Pai and last updated in March 2026. The 2.4 MB XLSX file captures protein expression changes related to chromatin remodeling and metabolic pathways.

Use Cases

• Identify protein biomarkers like SMARCA2, CRABP2, FABP5, TAGLN2, CYP27A1, and SCP2 upregulated after SMARCA4 loss.
• Analyze enrichment of lipid metabolism pathways such as steroid biosynthesis and fatty acid biosynthesis from proteomic profiles.
• Validate dysregulation of SWI/SNF complex subunits using quantitative protein abundance data.
• Investigate suppressed biological processes like cell cycle and DNA replication via GSEA results in the dataset.

Strengths

• Data validated in a separate validatory set for key protein candidates.
• Proteome depth achieved via DIA-MS with an in-house library, optimized for detecting subtle effects.

Limitations

• Small dataset size of 2.4 MB suggests limited sample or feature scope.
• Data derived from a single cell line model (HD-MB03), limiting generalizability.
• Unknown row count prevents assessment of statistical power.

Provenance

Source

figshare, author Medha Gayathri J. Pai.

Collection Method

Quantitative DIA mass spectrometry on HD-MB03 cells with doxycycline-inducible SMARCA4 knockdown.

Freshness

Last updated March 2026.