GEO series

Non-small Cell Lung Cancer Brain Metastasis Atlas [slide-seq]

GSE223501 Homo sapiens (human) Spatial transcriptomics 14 samples Submitted 2025/01/17 Platform GPL20301

At a glance

Spatial transcriptomics · human · 14 samples

What it is: Spatial transcriptomicsGene activity measured with its position in a tissue section.
Organism: Homo sapiens (human)
Samples: 14 samples
Data you can get: A processed table (series matrix) and supplementary files from NCBI.

Summary (written by the submitters)

We performed single nuclei RNA-sequencing (snRNA-seq) with matched T cell receptor sequencing (TCR-seq), pool matched low pass whole genome sequencing (WGS) and single-cell spatial transcriptomics of 12 treatment-naïve non-small cell lung cancer (NSCLC) primary tumors (PTs) and 31 treatment-naïve NSCLC brain metastases (BMs) . In total, we recovered 277,206 cell transcriptomes in 43 samples. We performed matched spatial sequencing using SlideSeq2 on 14 snRNA-seq samples.

This dataset

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Download · which file do I need?

Direct links to NCBI, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need.

All supplementary files ↗

3 · The original raw files

Whole study · RAW.tar

Everything the authors deposited as one archive (GSE223501_RAW.tar), including the raw array or instrument files. Can be large; the picker in step 2 takes just the samples you need.

Whole study · RAW.tar ↓

What the files usually look like: Spatial studies usually ship Space Ranger style folders (count matrix plus tissue images). Look for them among the supplementary files.

Also filed as BioProject PRJNA926596. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40016452) ↗

Samples in this study

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+ 14 more — browse all 14 samples with per-sample file links →

Datasets on a similar topic

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