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Effect of BRAF and MEK inhibition in KRAS mutant NSCLC cell line NCI-H358

GSE271504 Homo sapiens (human) RNA-seq (gene expression) 32 samples Submitted 2025/08/22 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 32 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
32 samples: 8 conditions, mostly with about 4 replicates eachGroups 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
RAF inhibitors activate the integrated stress response by direct activation of GCN2Nature communications · 2025
Summary (written by the submitters)
Paradoxical RAF activation by chemical RAF inhibitors (RAFi) is a well-understood ‘on-target’ biological and clinical phenomenon. In this experiment, we profile the time-dependent gene expression changes that are specific to dabrafenib, selumetinib and the combination of dabrafenib plus selumetinib.
Published in
RAF inhibitors activate the integrated stress response by direct activation of GCN2
Gilley R, Kidger AM, Neill G et al. · Nature communications 2025 · PMID 41249187 · doi:10.1038/s41467-025-65376-w
This dataset
Open GSE271504 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 GSE271504_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 PRJNA1131840 and SRA study SRP518030. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41249187) ↗
Study design
8 conditions, mostly with about 4 replicates each
NCI-H358 cells, DMSO, 4 hours, ×4 NCI-H358 cells, 1uM dabrafenib, 4 hours, ×4 NCI-H358 cells, 1uM dabrafenib & 30nM selumet… ×4 NCI-H358 cells, 30nM selumetinib, 4 hours, ×4 NCI-H358 cells, DMSO, 24 hours, ×4 NCI-H358 cells, 1uM dabrafenib, 24 hours, ×4 NCI-H358 cells, 1uM dabrafenib & 30nM selumet… ×4 NCI-H358 cells, 30nM selumetinib, 24 hours, ×4

Supports a between-group comparison across 32 samples.

How we read this: 8 replicated groups read from 32 sample titles; they account for 32 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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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.