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γ-Tocopherol attenuates COPD-associated macrophage inflammation through the PSEN1–SYT7–PI3K/Akt axis

GSE336580 Mus musculus (mouse) RNA-seq (gene expression) 9 samples Submitted 2026/06/26 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 9 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
Mus musculus (mouse)
Samples
9 samples: 3 × RAW 264.7 Cells, Control, 24h, vs 3 × RAW 264.7 Cells, LPS, 24h, vs 3 × RAW 264.7 Cells, LPS+gamma-tocopherol, 24h,Groups 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.
Summary (written by the submitters)
Rationale: Chronic obstructive pulmonary disease (COPD) features persistent airway inflammation, oxidative/nitrative stress, and macrophage activation. γ-tocopherol has antioxidant and anti-inflammatory activity, but its disease relevance and molecular targets are unclear. Objectives: To test whether γ-tocopherol attenuates disease-associated inflammation and define the macrophage mechanism.
Read the full summary ↓
Methods: Multi-omics integrated analysis combined with γ-tocopherol-treated COPD-like mouse models was performed to evaluate the anti-inflammatory effects of γ-tocopherol and identify its target cell populations. Furthermore, target prediction, cellular thermal shift assay, co-immunoprecipitation, and other experimental approaches were used to identify the molecular target of γ-tocopherol and elucidate the downstream mechanisms underlying its anti-inflammatory and antioxidant effects. Measurements and Main Results: COPD was associated with altered γ-tocopherol metabolism and vitamin E-related transcriptional programs. γ-tocopherol reduced inflammatory cell accumulation, nitric oxide metabolites, macrophage activation, and lung inflammation in COPD-like mouse models. Alveolar macrophages were identified as the primary target cell population of γ-tocopherol in lung tissue. γ-tocopherol treatment suppressed nitric oxide synthesis and inflammatory cytokine release in macrophages, and this effect depended on the engagement of γ-tocopherol with PSEN1. Further mechanistic analysis identified SYT7 as a downstream effector of PSEN1, linking γ-tocopherol treatment to reduced PI3K/AKT signaling activity and attenuated inflammatory readouts. Conclusions: γ-tocopherol attenuates macrophage-centered inflammation in COPD-like models through a PSEN1–SYT7–PI3K/AKT signaling axis.
This dataset
Open GSE336580 in finder → Find more mouse 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 GSE336580_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 PRJNA1482019 and SRA study SRP712578. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
3 × RAW 264.7 Cells, Control, 24h, vs 3 × RAW 264.7 Cells, LPS, 24h, vs 3 × RAW 264.7 Cells, LPS+gamma-tocopherol, 24h,

Supports a between-group comparison across 9 samples.

How we read this: 3 replicated groups read from 9 sample titles; they account for 9 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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