Xenium Human Lung Preview Data

In Situ Gene Expression dataset analyzed using Xenium Onboard Analysis 1.3.0

This preview dataset was generated using a preliminary version of the human lung gene panel and may be replaced with data generated using the final panel in the future.

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Dataset overview

Output and supplemental files

Input files

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Overview

Preview of Xenium In Situ Gene Expression data for adult human lung sections, using a development version of the Human Lung Gene Expression Panel and custom add-on panel for lung cell types.

Biomaterials

Two lung sections were used:

Adult human healthy lung section (from Avaden Biosciences)
Adult human lung with Invasive AdenoCarcinoma (from Avaden Biosciences)

Tissue preparation

The healthy lung section was placed on one slide and the Invasive AdenoCarcinoma lung sample was placed on the second slide. Tissues were prepared following the Demonstrated Protocols Xenium In Situ for FFPE - Tissue Preparation Guide (CG000578) and Xenium In Situ for FFPE Tissues – Deparaffinization & Decrosslinking (CG000580).

Gene panels

The Xenium Human Lung Gene Expression Panel was pre-designed by 10x Genomics to identify cells in healthy, cancer, and fibrotic lung, including epithelial, stromal, endothelial, secretory, immune, and tumor cells. The base panel was used with an additional 100 genes specific to lung cell types for both sections. Base panels were combined with add-on panels into a single JSON file for each run, and uploaded to the Xenium Analyzer instrument using a USB.

Xenium Analyzer

The instrument run was performed following the Xenium Analyzer User Guide CG000584. The on-instrument analysis was run with Xenium Onboard Analysis version 1.3.0.

Metric	Non-diseased	Cancer
Median transcripts per cell	71	105
Cells detected	295,883	531,165
Decoded transcripts per 100 µm²	40.9	68.0
High quality transcripts detected	23,994,997	67,334,982
Region area (µm²)	100,554,810	117,594,680

How to view data

Select a tab at the top of the page to view outputs for each section. Interactively explore data with Xenium Explorer by downloading the Xenium Output Bundle file. See the Getting Started with Xenium Explorer page for more details.

This dataset is licensed under the Creative Commons Attribution license.