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AS01-adjuvanted vaccine promotes functional and epigenetic modifications in monocytes [RNA-seq]

GSE244794 Homo sapiens (human) RNA-seq (gene expression) 45 samples Submitted 2024/07/31 Platform GPL18573
At a glance

RNA-seq (gene expression) · human · 45 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
45 samples: 5 conditions, mostly with about 9 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
Functional and epigenetic changes in monocytes from adults immunized with an AS01-adjuvanted vaccineScience translational medicine · 2024
Summary (written by the submitters)
HBS/AS01 adjuvanted vaccine induces changes in the chromatin structure in monocytes impacting their gene expression profiles, an effect that lasts until 6 months post vaccination
Published in
Functional and epigenetic changes in monocytes from adults immunized with an AS01-adjuvanted vaccine
Bechtold V, Smolen KK, Burny W et al. · Science translational medicine 2024 · PMID 39083587 · doi:10.1126/scitranslmed.adl3381
This dataset
Open GSE244794 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 GSE244794_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 PRJNA1024914. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39083587) ↗
Study design
5 conditions, mostly with about 9 replicates each
CD14+ isolated monocytes, GEX, D0, S ×9 CD14+ isolated monocytes, GEX, D2, S ×9 CD14+ isolated monocytes, GEX, D30, S ×9 CD14+ isolated monocytes, GEX, D32, S ×9 CD14+ isolated monocytes, GEX, D60, S ×9

Supports a between-group comparison across 45 samples.

How we read this: 5 replicated groups read from 45 sample titles; they account for 45 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

+ 5 more — browse all 45 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

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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.