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c-Kit signaling potentiates CAR T cell efficacy in solid tumors by CD28- and IL-2–independent costimulation

GSE207754 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/07/01 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 12 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Homo sapiens (human)
Samples
12 samples: 3 × M28z CAR-T cells vs 3 × M28z-KITv CAR-T cells vs 3 × M28z CAR-T cells stimulated for 24 hours vs 3 × M28z-KITv CAR-T cells stimulated for 24 hoursGroups 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.
Summary (written by the submitters)
The limited efficacy of chimeric antigen receptor (CAR) T-cell therapy for solid tumors necessitates engineering strategies to promote functional persistence in an immunosuppressive environment. Herein, we exploit c-KIT signaling - a physiological pathway associated with stemness in hematopoietic progenitor cells with loss of expression during T-cell differentiation.
Read the full summary ↓
CAR T cells with intracellular but no cell-surface receptor expression of c-Kit D816V mutation, KITv, show upregulated STAT phosphorylation, antigen-activation dependent proliferation, and susceptibility to tyrosine kinase inhibitors. KITv signaling provides CD28, IL-2-independent, and IFN-γ-mediated costimulation augmenting cytotoxicity of antigen-activated first-generation CAR T cells that translates to enhanced survival, including in TGF-β-rich and low antigen-expressing solid tumor models. KITv CAR T cells demonstrate equivalent or higher in vivo efficacy compared to second-generation CAR T cells, and further enhance efficacy as signal 3 when combined with CD28 costimulation, providing a potent approach to treat solid tumors by adoptive cell therapy.
This dataset
Open GSE207754 in finder → Find more human RNA-seq datasets →
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 GSE207754_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA857012 and SRA study SRP385549. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × M28z CAR-T cells vs 3 × M28z-KITv CAR-T cells vs 3 × M28z CAR-T cells stimulated for 24 hours vs 3 × M28z-KITv CAR-T cells stimulated for 24 hours

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 of them. 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
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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.