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Single cell transcriptome analysis of TIL for gene expression and TCR immunoprofiling in the renal cell carcinoma

GSE304262 Homo sapiens (human) Single-cell RNA-seq 30 samples Submitted 2026/02/18 Platform GPL24676
At a glance

Single-cell RNA-seq · human · 30 samples

What it is
Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism
Homo sapiens (human)
Topic
Kidney cancerThis series is part of our curated briefing on it.
Samples
30 samples: 30 samples, each with a distinct title — no replicated groupsGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.
Paper
Tumor-reactive TCRs within exhausted TILs reveal cancer type-specific immune landscapes in renal cell carcinomaFrontiers in immunology · 2026
Summary (written by the submitters)
Unlike other carcinomas, renal cell carcinoma is known to have an inverse correlation between the abundance of T cells in the tumor and prognosis. To elucidate the background, we performed single-cell gene expression analysis and TCR immunoprofiling of tumor-infiltrating T cells in early and advanced stages of renal cancer.
Published in
Tumor-reactive TCRs within exhausted TILs reveal cancer type-specific immune landscapes in renal cell carcinoma
Komahashi M, Horaguchi S, Tsuji K et al. · Frontiers in immunology 2026 · PMID 41694381 · doi:10.3389/fimmu.2026.1729388
This dataset
Open GSE304262 in finder → Find more human RNA-seq datasets → Kidney cancer landscape →
Download · which file do I need?

Direct links to NCBI and ENA, 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, or the whole study as GSE304262_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1291848 and SRA study SRP604431. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41694381) ↗
Study design
30 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 30 sample titles: 30 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study
More Kidney cancer datasets

Search all human RNA-seq datasets in GEO →

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Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.