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CREB5 promotes tumorigenicity and upregulates druggable cell surface modalities in basal-like breast cancer

GSE283312 Homo sapiens (human) RNA-seq (gene expression) 23 samples Submitted 2025/08/01 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 23 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)
Topic
Breast cancerThis series is part of our curated briefing on it.
Samples
23 samples: 8 conditions, mostly in triplicateGroups 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
CREB5 promotes tumorigenicity and upregulates druggable cell surface modalities in basal-like breast cancerNPJ precision oncology · 2025
Summary (written by the submitters)
Basal-like breast cancers (BLBC), of which many are triple negative, have poor outcomes due to the limited targeted therapies available for patients. To address this need, we examined the clinical correlates and functional properties of CREB5, a transcription factor commonly amplified or overexpressed in other metastatic cancers. Using transcriptomic data from TCGA and METABRIC, we found BLBCs harbored the highest levels of CREB5 expression compared to other BC subtypes and that CREB5-high tumors had poor outcomes.
Read the full summary ↓
In patient-matched primary and metastatic biopsies, CREB5 expression was robust and further increased in BLBCs that develop brain metastasis. CREB5 overexpression in 2 BLBC cell lines increased cell viability, formation of tumorspheres, and led to substantial increases in mRNA and cell surface expression of IL13RA2, a stem cell-like gene in brain cancers. IL13RA2 is a current CAR-T cell target in gliomas, and our work nominates IL13RA2 as a novel potential target in BLBCs.
Published in
CREB5 promotes tumorigenicity and upregulates druggable cell surface modalities in basal-like breast cancer
Makovec A, Boytim E, Gustafson A et al. · NPJ precision oncology 2025 · PMID 40770411 · doi:10.1038/s41698-025-01051-z
This dataset
Open GSE283312 in finder → Find more human RNA-seq datasets → Breast 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 GSE283312_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 PRJNA1193078 and SRA study SRP548754. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40770411) ↗
Study design
8 conditions, mostly in triplicate
MDA-MB-231 cells, C5-2D, ×3 MDA-MB-231 cells, Luc-2D, ×3 HCC1806 cells, Luc-2D, ×3 MDA-MB-231 cells, C5-3D, ×3 MDA-MB-231 cells, Luc-3D, ×3 HCC1806 cells, C5-3D, ×3 HCC1806 cells, Luc-3D, ×3 HCC1806 cells, C5-2D, ×2

Supports a between-group comparison across 23 samples.

How we read this: 8 replicated groups read from 23 sample titles; they account for 23 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
More Breast cancer datasets

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