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Endothelial Cells retain inflammatory memory through chromatin remodeling II

GSE299261 Homo sapiens (human) RNA-seq (gene expression) 12 samples Submitted 2025/11/06 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 × IL6-NTS-exp vs 3 × sijunb-IL6 vs 3 × sijunb-pbs vs 2 × PBS-NTS-expGroups 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
Endothelial cells retain inflammatory memory through chromatin remodeling in a two-hit model of infection-induced inflammationAmerican journal of physiology. Cell physiology · 2025
Summary (written by the submitters)
Sepsis survivors exhibit long-term endothelial dysfunction, increasing susceptibility to secondary infections such as pneumonia. To investigate the epigenetic and transcriptional basis of endothelial inflammatory memory, we performed transcriptomic profiling of primary human endothelial cells exposed to sequential inflammatory stimuli in a two-hit in vitro model.
Read the full summary ↓
IL-6 priming induced sustained transcriptional reprogramming and heightened responsiveness to a secondary LPS challenge, indicative of a memory-like state. To mechanistically dissect this response, we silenced the AP-1 transcription factor JunB using siRNA during the priming phase and evaluated its role in shaping the inflammatory memory response. These studies provide insight into the molecular circuitry maintaining endothelial memory and identify JunB as a potential regulator of this process.
Published in
Endothelial cells retain inflammatory memory through chromatin remodeling in a two-hit model of infection-induced inflammation
Gonsales Spindola D, Bahr A, Clark S et al. · American journal of physiology. Cell physiology 2025 · PMID 41217002 · doi:10.1152/ajpcell.00567.2025
This dataset
Open GSE299261 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 GSE299261_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 PRJNA1273182 and SRA study SRP590498. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41217002) ↗
Study design
3 × IL6-NTS-exp vs 3 × sijunb-IL6 vs 3 × sijunb-pbs vs 2 × PBS-NTS-exp

Supports a between-group comparison across 11 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 11 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
Datasets on a similar topic

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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.