GEO series

Chronic IL-1 exposure attenuates IL-1 response and alters gene expression regulation while maintaining therapeutic sensitivity in BCa cell lines

GSE335261 Homo sapiens (human) RNA-seq (gene expression) 30 samples Submitted 2026/07/22 Platform GPL30173

At a glance

RNA-seq (gene expression) · human · 30 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: 30 samples: 10 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: Chronic IL-1 Exposure Attenuates IL-1 Response and Alters Gene Expression Regulation While Maintaining Therapeutic Sensitivity in BCa Cell LinesInternational journal of molecular sciences · 2026

Summary (written by the submitters)

Chronic inflammation is a hallmark of the breast cancer tumor microenvironment and is also known to be associated with disease progression and therapeutic response. Interleukin-1 (IL-1) signaling has been widely studied in breast cancer biology; however, the long-term effect of sustained IL-1 exposure on hormone receptor–positive breast cancer cells remain poorly understood.

Read the full summary ↓

In this study, we investigated how chronic IL-1 exposure influences inflammatory response, hormone dependency, and therapeutic sensitivity in ERα+/PR+ breast cancer models, MCF7 and T47D. Chronic IL-1 exposure attenuated response to subsequent acute IL-1 treatment, but the chronically exposed cells remained sensitive to serum deprivation, retained dependence on estrogen or progesterone receptor signaling, and responded robustly to endocrine and chemotherapeutic treatments. Extensive changes in basal gene expression and histone modification revealed that chronic IL-1 exposure alters transcriptional reprogramming and chromatin remodeling. Together, these findings demonstrate that chronic IL-1 signaling drives selective inflammatory response in hormone receptor–positive MCF7 and T47D breast cancer cells. This work underscores the continued therapeutic relevance of hormone receptor–targeted strategies in chronically inflamed tumors and provides insight into how sustained inflammatory stress shapes tumor behavior and gene regulation predicted to promote tumor progression.

Published in

Chronic IL-1 Exposure Attenuates IL-1 Response and Alters Gene Expression Regulation While Maintaining Therapeutic Sensitivity in BCa Cell Lines

Falah R, Dhar R, Yamauchi S et al. · International journal of molecular sciences 2026 · PMID 42450306 · doi:10.3390/ijms27136039

This dataset

Open GSE335261 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 GSE335261_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 PRJNA1477815 and SRA study SRP709100. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42450306) ↗

Study design

10 conditions, mostly in triplicate

MCF7-1 PBS ×3 MCF7-1 acute IL-1a ×3 MCF7-1 acute IL-1b ×3 MCas1 PBS ×3 MCbs1 PBS ×3 T47D-1 PBS ×3 T47D-1 acute IL-1a ×3 T47D-1 acute IL-1b ×3 +2 more

Supports a between-group comparison across 30 samples.

How we read this: 10 replicated groups read from 30 sample titles; they account for 30 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

GSM9809164 MCF7-1 PBS biorep 1 MCF7-1 PBS
GSM9809165 MCF7-1 PBS biorep 2 MCF7-1 PBS
GSM9809166 MCF7-1 PBS biorep 3 MCF7-1 PBS
GSM9809167 MCF7-1 acute IL-1a biorep 1 MCF7-1 acute IL-1a
GSM9809168 MCF7-1 acute IL-1a biorep 2 MCF7-1 acute IL-1a
GSM9809169 MCF7-1 acute IL-1a biorep 3 MCF7-1 acute IL-1a
GSM9809170 MCF7-1 acute IL-1b biorep 1 MCF7-1 acute IL-1b
GSM9809171 MCF7-1 acute IL-1b biorep 2 MCF7-1 acute IL-1b
GSM9809172 MCF7-1 acute IL-1b biorep 3 MCF7-1 acute IL-1b
GSM9809173 MCas1 PBS biorep 1 MCas1 PBS
GSM9809174 MCas1 PBS biorep 2 MCas1 PBS
GSM9809175 MCas1 PBS biorep 3 MCas1 PBS
GSM9809176 MCbs1 PBS biorep 1 MCbs1 PBS
GSM9809177 MCbs1 PBS biorep 2 MCbs1 PBS
GSM9809178 MCbs1 PBS biorep 3 MCbs1 PBS
GSM9809179 T47D-1 PBS biorep 1 T47D-1 PBS
GSM9809180 T47D-1 PBS biorep 2 T47D-1 PBS
GSM9809181 T47D-1 PBS biorep 3 T47D-1 PBS
GSM9809182 T47D-1 acute IL-1a biorep 1 T47D-1 acute IL-1a
GSM9809183 T47D-1 acute IL-1a biorep 2 T47D-1 acute IL-1a
GSM9809184 T47D-1 acute IL-1a biorep 3 T47D-1 acute IL-1a
GSM9809185 T47D-1 acute IL-1b biorep 1 T47D-1 acute IL-1b
GSM9809186 T47D-1 acute IL-1b biorep 2 T47D-1 acute IL-1b
GSM9809187 T47D-1 acute IL-1b biorep 3 T47D-1 acute IL-1b
GSM9809188 T47Das1 PBS biorep 1 T47Das1 PBS
GSM9809189 T47Das1 PBS biorep 2 T47Das1 PBS
GSM9809190 T47Das1 PBS biorep 3 T47Das1 PBS
GSM9809191 T47Dbs1 PBS biorep 1 T47Dbs1 PBS
GSM9809192 T47Dbs1 PBS biorep 2 T47Dbs1 PBS
GSM9809193 T47Dbs1 PBS biorep 3 T47Dbs1 PBS

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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.