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Dynamics of gene expression profiling by microarrays and identification of high-risk patients for severe COVID-19

GSE212866 Homo sapiens (human) Expression microarray 230 samples Submitted 2024/12/31 Platform GPL16791Platform GPL23159
At a glance

Expression microarray · human · 230 samples

What it is
Expression microarrayGene activity read on a chip (the older technology that RNA-seq replaced).
Organism
Homo sapiens (human)
Samples
230 samples: 51 conditions, mostly in duplicateGroups are read from the sample names, not from the paper. Check the list below.
Data you can get
A processed expression table (series matrix) and the array files, from NCBI.
Paper
Dynamics of Gene Expression Profiling and Identification of High-Risk Patients for Severe COVID-19Biomedicines · 2023
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
Dynamics of Gene Expression Profiling and Identification of High-Risk Patients for Severe COVID-19
Rombauts A, Bódalo Torruella M, Abelenda-Alonso G et al. · Biomedicines 2023 · PMID 37239019 · doi:10.3390/biomedicines11051348
This dataset
Open GSE212866 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 GSE212866_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 arrays the series matrix is normally the normalised expression table you want; the raw array files (CEL and similar) are in the RAW.tar.

Also filed as BioProject PRJNA877664 and SRA study SRP396106. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 37239019) ↗
Study design
51 conditions, mostly in duplicate
5_D ×4 6_D ×4 7_D ×4 14_D ×4 15_D ×4 18_D ×4 21_D ×4 26_D ×4 +122 more

Supports a between-group comparison across 151 samples.

How we read this: 51 replicated groups read from 230 sample titles; they account for 151 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

+ 190 more — browse all 230 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq datasets in GEO →

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