Nuclei Isolation Protocol Performance Metrics for Rat and Cow Adipose Tissue

A 17.2 KB document details a study validating nuclei isolation protocols for single-nucleus RNA sequencing in white adipose tissue from rats and cattle. Janice M. Thompson authored the work, which reports specific nuclei yields per milligram of tissue and median genes per cell. The dataset was last updated in March 2026.

Use Cases

• Compare nuclei yield metrics (nuclei/mg tissue) for rat retroperitoneal fat (3,100), rat mesenteric PVAT (2,200), and cow white fat (2,050) across isolation protocols.
• Evaluate protocol success by analyzing median genes per cell data (cow: ~1,720; rat mesPVAT: 189; rat RP fat: 294) from snRNAseq results.
• Assess the impact of protocol modifications, like liquid nitrogen pulverization and Dounce homogenization, on nuclei quality and transcript capture.

Strengths

• Provides quantitative nuclei yield data per milligram of tissue for three specific tissue types.
• Reports concrete median genes per cell counts from snRNAseq for cow and two rat adipose depots.

Limitations

• The dataset is very small (17.2 KB), containing only summary protocol evaluation metrics without raw sequencing data.
• Reported snRNAseq data shows low transcript capture for rat tissues (189-294 median genes/cell), limiting downstream analysis.
• Scope is limited to protocol validation for two species (rat, cow) and specific white adipose depots.

Provenance

Source

figshare, authored by Janice M. Thompson.

Collection Method

Experimental validation and optimization of a published nuclei isolation protocol, evaluated via microscopic visualization and snRNAseq.

Freshness

Updated March 2026.