Xenium — Human Tonsil (reactive follicular hyperplasia, FFPE, Multi-Tissue & Cancer panel) 2D

An adult human palatine tonsil section showing reactive follicular hyperplasia, a benign immune response in which germinal centres expand as B cells proliferate against antigenic stimulation. The tissue is FFPE-preserved and profiled with the Xenium Human Multi-Tissue & Cancer Panel (377 genes), a broad survey panel spanning major lineages across many organs. Served as cell and nucleus boundary polygons, transcript point features, and the DAPI morphology raster, the run is well suited to mapping germinal-centre architecture and lymphoid microenvironment organisation.

Metadata

cells (tiled)	1,360,197 polygons
nuclei	1,360,137 polygons
transcripts	91,956,825 points
genes	541
resolution	0.2125 µm/px
image	53926×40869 px
zoom	0–9
tiles	190,319
size	11.2 GB

Provenance & reproducibility

Source: https://www.10xgenomics.com/datasets/human-tonsil-data-xenium-human-multi-tissue-and-cancer-panel-1-standard
License: CC BY 4.0
Cite: 10x Genomics. Human Tonsil Data with Xenium Human Multi-Tissue and Cancer Panel (Xenium). Public dataset.

uv run python -m mudm_tools.converters.cli convert -f xenium -i data/Xenium_V1_hTonsil_reactive_follicular_hyperplasia_section_FFPE_outs -o tiles2d/xenium-tonsil-reactive  # tiled on oden
mudm 0.6.1 · mudm-tools 0.6.3
muDM: cells & nuclei → Polygon (featureClass cell/nucleus); transcripts → Point

Programmatic access

Raster tiles (PNG pyramid):

https://ngrf.mudm.io/tiles2d/xenium-tonsil-reactive/raster/{z}/{x}/{y}.png

Features (muDM tile-geometry Parquet, range-readable):

https://ngrf.mudm.io/tiles2d/xenium-tonsil-reactive/features.parquet/

Machine descriptors: tilejson.json · croissant.json · full access guide