Inhibition of acid or neutral sphingomyelinases differentially impacts RNA and protein cargo sorting to extracellular vesicles
Single-nucleus RNA-seq · human · 18 samples
- What it is
- Single-nucleus RNA-seqGene activity measured in individual nuclei (used when whole cells are hard to isolate, for example from frozen tissue). Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Homo sapiens (human)
- Samples
- 18 samples: 6 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
- Inhibition of acid or neutral sphingomyelinases differentially impacts RNA and protein cargo sorting to extracellular vesiclesiScience · 2025
Read the full summary ↓
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE254401_RAW.tar (it can run to tens of gigabytes).
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.
What the files usually look like: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1070310 and SRA study SRP486394. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 6 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8041535 Whole Cell DMSO Replicate-1 Whole Cell DMSO
- GSM8041536 Whole Cell DMSO Replicate-2 Whole Cell DMSO
- GSM8041537 Whole Cell DMSO Replicate-3 Whole Cell DMSO
- GSM8041538 Whole Cell GW Replicate-1 Whole Cell GW
- GSM8041539 Whole Cell GW Replicate-2 Whole Cell GW
- GSM8041540 Whole Cell GW Replicate-3 Whole Cell GW
- GSM8041541 Whole Cell FTY Replicate-1 Whole Cell FTY
- GSM8041542 Whole Cell FTY Replicate-2 Whole Cell FTY
- GSM8041543 Whole Cell FTY Replicate-3 Whole Cell FTY
- GSM8041544 EV Cell DMSO Replicate-1 EV Cell DMSO
- GSM8041545 EV Cell DMSO Replicate-2 EV Cell DMSO
- GSM8041546 EV Cell DMSO Replicate-3 EV Cell DMSO
- GSM8041547 EV Cell GW Replicate-1 EV Cell GW
- GSM8041548 EV Cell GW Replicate-2 EV Cell GW
- GSM8041549 EV Cell GW Replicate-3 EV Cell GW
- GSM8041550 EV Cell FTY Replicate-1 EV Cell FTY
- GSM8041551 EV Cell FTY Replicate-2 EV Cell FTY
- GSM8041552 EV Cell FTY Replicate-3 EV Cell FTY
- GSE254732 Inhibition of PCSK9 with evolocumab modulates lipoproteins and monocyte activation in high-risk ASCVD subjects 215 samples shares inhibition, protein
- GSE297395 Extracellular vesicles and their RNA cargo facilitate bidirectional cross-kingdom communication between human and bacterial cells [RNA-Seq] 105 samples shares extracellular, vesicles
- GSE302211 Extracellular Vesicle Online Knowledge Explorer (EVOKE) - A guiding tool for the selection of methods to prepare extracellular vesicles from human biofluids II 73 samples shares extracellular, vesicles
- GSE314750 Increased arrhythmic risk in obesity is transduced by adipose tissue-derived extracellular vesicles 30 samples shares extracellular, vesicles
- GSE306800 Extracellular matrix-myCAF signatures correlate with resistance to neoadjuvant aPD-L1 immune checkpoint inhibition with durvalumab + metformin in HPV+ HNSCC 18 samples shares extracellular, inhibition
- GSE269879 Transcriptomic Analysis of Circulating Extracellular Vesicles and Serum during the Perioperative period of Fontan and Glenn Surgery 109 samples shares extracellular, vesicles
- GSE274588 Enhancing Non-Small Cell Lung Cancer Treatment Utilizing Natural Killer Cell-Derived Extracellular Vesicles (NKEVS) As A Novel Adoptive Cellular Therapeutic [PBMC] 57 samples shares extracellular, vesicles
- GSE255877 5-Fluorouracil Treatment Represses Pseudouridine-Containing miRNA Export into Extracellular Vesicles 18 samples shares extracellular, vesicles
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.