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Transcriptomic profiling of A549 cells in response to dexamethasone, in the context of light-controlled GR degradation using novel GR-PhotoPROTACs

GSE304966 Homo sapiens (human) RNA-seq (gene expression) 36 samples Submitted 2026/05/21 Platform GPL34284
At a glance

RNA-seq (gene expression) · human · 36 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
Lung cancerThis series is part of our curated briefing on it.
Samples
36 samples: 12 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
Light-controlled disruption of cancer cell dormancy via photoswitchable stress hormone receptor degradersProceedings of the National Academy of Sciences of the United States of America · 2026
Summary (written by the submitters)
Glucocorticoid receptor (GR) signaling, activated by dexamethasone (Dex), induces a reversible dormancy state in non-small cell lung cancer (NSCLC) cells, contributing to therapy resistance. To enable precise modulation of GR activity, we developed photoswitchable PROTACs (PhotoPROTACs) incorporating arylazopyrazole scaffolds that allow reversible, wavelength-specific control of GR degradation.
Read the full summary ↓
A549 lung carcinoma cells were incubated with the active (E-isomer) or inactive (Z-isomer) form of PhotoPROTAC KH-5-309 or KH-5-306 for 12 hours, with Dex added during the final 2 hours. RNA sequencing revealed that the E-isomer of KH-5-309 selectively disrupts GR-driven dormancy-associated gene expression, while the Z-isomer remains functionally inert. This dataset provides a resource for understanding GR-mediated dormancy and demonstrates the utility of light-responsive chemical tools for spatiotemporal control of stress hormone receptor signaling to disrupt cancer cell dormancy.
Published in
Light-controlled disruption of cancer cell dormancy via photoswitchable stress hormone receptor degraders
Freitag KM, Scheuplein R, Orlacchio C et al. · Proceedings of the National Academy of Sciences of the United States of America 2026 · PMID 42166243 · doi:10.1073/pnas.2528760123
This dataset
Open GSE304966 in finder → Find more human RNA-seq datasets → Lung 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 GSE304966_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 PRJNA1303614 and SRA study SRP607614. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42166243) ↗
Study design
12 conditions, mostly in triplicate
A549, non-irradiated, 12h DMSO, ×3 A549, non-irradiated, 10h DMSO > 2h DEX + DMS… ×3 A549, 12h E-form KH-5-309, ×3 A549, 10h E-form KH-5-309 > 2h E-form KH-5-30… ×3 A549, irradiated, 12h DMSO, ×3 A549, irradiated, 10h DMSO > 2h DEX + DMSO, ×3 A549, 12h Z-form KH-5-309, ×3 A549, 10h Z-form KH-5-309 > 2h Z-form KH-5-30… ×3 +4 more

Supports a between-group comparison across 36 samples.

How we read this: 12 replicated groups read from 36 sample titles; they account for 36 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 Lung cancer datasets

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