Matched FFPE and Frozen Tumor Single-Cell RNA Sequencing Data

12 pairs of matched FFPE and frozen tumor tissue samples were analyzed via scRNA-seq. The data enables comparison of intratumoural heterogeneity, including cell type annotation and copy number alteration inference, across both sample preservation methods. It was generated by Cathy Yan and published in 2026.

Use Cases

• Compare unique molecular identifier (UMI) and gene counts per cell between matched FFPE and frozen tissue samples.
• Identify malignant cells by inferring copy number alterations (CNAs) from scRNA-seq data across 12 sample pairs.
• Characterize immune cell subtypes, such as T cell subpopulations, within the tumour microenvironment of FFPE and frozen samples.
• Assess the performance of batch correction methods on scRNA-seq data from matched FFPE and frozen tissue.

Strengths

• Data includes 12 matched pairs of FFPE and frozen tumor samples, providing a direct comparison.
• Analysis covers key metrics like UMI counts, gene counts per cell, and copy number alteration inference.
• Published under a permissive CC BY 4.0 license for broad reuse.

Limitations

• The dataset is small in scale, consisting of a 1.7 MB DOCX file with no explicit row or column counts provided.
• Sample size is limited to 12 matched pairs, which may restrict statistical power for some analyses.
• Data is presented in a DOCX document, requiring text extraction and parsing for computational analysis.

Provenance

Source

figshare, authored by Cathy Yan.

Collection Method

Single-cell RNA sequencing performed on 12 pairs of matched FFPE and frozen tumor tissue.

Freshness

Last updated in March 2026.