GEO series

P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease.

GSE318801 Mus musculus (mouse) RNA-seq (gene expression) 20 samples Submitted 2026/02/11 Platform GPL34290

At a glance

RNA-seq (gene expression) · mouse · 20 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: 20 samples: 5 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: p21(+)TREM2(+) senescent macrophages fuel inflammaging and metabolic dysfunction-associated steatotic liver diseaseNature aging · 2026

Summary (written by the submitters)

Cellular senescence drives chronic sterile inflammation during aging via the senescence-associated secretory phenotype (SASP); however, the cell types responsible for this pathology remain poorly defined. Here, we identify p21⁺Trem2⁺ senescent macrophages as a major source of inflammaging. Using primary mouse and human macrophages, we developed a model of DNA damage and cholesterol-induced senescence and applied multi-omic profiling to fully characterize senescent macrophages.

Read the full summary ↓

We found that senescent macrophages exhibit a distinctive p21-TREM2 expression profile and SASP, driven in part by type-I interferon signaling via secreted mitochondrial DNA. We also found that senescent macrophage accumulation occurs in aged and MASLD mouse livers and is enriched in human cirrhotic liver tissue. Finally, senolytic treatment targeting senescent macrophages reduced liver inflammation and steatosis in both aged and MASLD mice. Together, these findings establish macrophage senescence as a central driver of chronic inflammation in aging and metabolic liver disease, highlighting a promising, tractable therapeutic target.

Published in

p21(+)TREM2(+) senescent macrophages fuel inflammaging and metabolic dysfunction-associated steatotic liver disease

Salladay-Perez IA, Avila I, Estrada L et al. · Nature aging 2026 · PMID 41991686 · doi:10.1038/s43587-026-01101-6

This dataset

Open GSE318801 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 GSE318801_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 PRJNA1420643 and SRA study SRP675602. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41991686) ↗

Study design

5 conditions, mostly with about 4 replicates each

M0 ×4 M1 ×4 M2 ×4 PC ×4 MSenI ×4

Supports a between-group comparison across 20 samples.

How we read this: 5 replicated groups read from 20 sample titles; they account for 20 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

GSM9503463 M0_1 M0
GSM9503464 M0_2 M0
GSM9503465 M0_3 M0
GSM9503466 M0_4 M0
GSM9503467 M1_5 M1
GSM9503468 M1_6 M1
GSM9503469 M1_7 M1
GSM9503470 M1_8 M1
GSM9503471 M2_9 M2
GSM9503472 M2_10 M2
GSM9503473 M2_11 M2
GSM9503474 M2_12 M2
GSM9503475 PC_13 PC
GSM9503476 PC_14 PC
GSM9503477 PC_15 PC
GSM9503478 PC_16 PC
GSM9503479 MSenIR_17 MSenI
GSM9503480 MSenIR_18 MSenI
GSM9503481 MSenIR_19 MSenI
GSM9503482 MSenIR_20 MSenI

Datasets on a similar topic

GSE319035 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease [NAFLD_time_course] 77 samples shares trem2, p21, dysfunction-associated, inflammaging, macrophages, senescent, steatotic, liver
GSE318804 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease. [macro_senescence] 12 samples shares trem2, p21, dysfunction-associated, inflammaging, macrophages, senescent, steatotic, liver
GSE318651 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease [RNAseq_sgCMPK2] 12 samples shares trem2, p21, dysfunction-associated, inflammaging, macrophages, senescent, steatotic, liver
GSE318802 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease. [Trem2ko] 12 samples shares trem2, p21, dysfunction-associated, inflammaging, macrophages, senescent, steatotic, liver
GSE318652 P21+TREM2+-Senescent Macrophages Fuel Inflammaging and Metabolic Dysfunction-Associated Steatotic Liver Disease [RNAseq_MASHABT263] 11 samples shares trem2, p21, dysfunction-associated, inflammaging, macrophages, senescent, steatotic, liver
GSE283060 Humanized Monoacylglycerol Acyltransferase 2 mice Become Obese and develop Metabolic Dysfunction-Associated Steatotic Liver Disease when fed a High Fat Diet 64 samples shares dysfunction-associated, steatotic, liver
GSE275176 Transcriptomic alterations associated with the progression of metabolic dysfunction-associated steatotic liver disease in CC042 Collaborative Cross mice. 60 samples shares dysfunction-associated, steatotic, liver
GSE312316 Maternal Western-Style Diet alters Kupffer Cell proportion leading to Metabolic Dysfunction-Associated Steatotic Liver Disease when challenged with western diet in adulthood 36 samples shares dysfunction-associated, steatotic, liver

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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.