Spatial Transcriptomics Data of Immune Checkpoint Inhibitor-Related Colitis

May 2026 data from Peking Union Medical College Hospital includes transcriptomic profiles from intestinal biopsies of 11 patients treated with immune checkpoint inhibitors. The dataset contains gene expression matrices for 18,676 genes, generated using the GeoMx DSP platform and Illumina NovaSeq sequencing. It was published by Qingyang Zhou on figshare under a CC-BY-4.0 license.

Use Cases

• Identify gene expression signatures associated with colitis based on transcriptomic profiling of 18,676 genes.
• Analyze immune context within tissue regions based on antibody staining for pan-CK, CD8α, and FoxP3.
• Compare transcriptomic profiles between patients with adverse events and those without based on the two patient groups.
• Investigate spatial patterns of inflammation based on regions of interest selected for CD8α enrichment.

Strengths

• Targets 18,676 genes, providing a broad transcriptomic profile.
• Includes data from 11 patients, with 10 regions of interest per patient group.
• Data processing used a standardized pipeline (GeoMx NGS) with RNA sequencing saturation set at 50%.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• The dataset is small (3.7 MB), suggesting it may be a summary or processed subset rather than raw sequencing data.

Provenance

Source

Peking Union Medical College Hospital

Collection Method

Digital spatial transcriptomic profiling (DSP) using the GeoMx DSP platform on formalin-fixed, paraffin-embedded intestinal biopsy samples.

Freshness

Last updated 2026-05-06 15:41:16; freshness should be verified.