COVID-19 vaccination is associated with attenuation of inflammatory responses during breakthrough disease [long-read RNA-Seq]
RNA-seq (gene expression) · human · 39 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
- 39 samples: 39 samples, each with a distinct title — no replicated groupsGroups 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
- Multi-omics analysis reveals COVID-19 vaccine induced attenuation of inflammatory responses during breakthrough diseaseNature communications · 2024
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 GSE228840_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: 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 PRJNA951717 and SRA study SRP430686. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 39 sample titles: 39 distinct titles with little repetition. 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.
- GSM7140100 sample01_D0_ChAdOx1_+ve
- GSM7140101 sample02_CT_ChAdOx1_+ve
- GSM7140102 sample03_D0_MenACWY_+ve
- GSM7140103 sample04_CT_MenACWY_+ve
- GSM7140104 sample05_D0_ChAdOx1_-ve
- GSM7140105 sample06_CT_ChAdOx1_-ve
- GSM7140106 sample07_D0_MenACWY_-ve
- GSM7140107 sample08_CT_MenACWY_-ve
- GSM7140108 sample09_D0_MenACWY_-ve
- GSM7140109 sample10_CT_MenACWY_-ve
- GSM7140110 sample11_CT_ChAdOx1_-ve
- GSM7140111 sample12_D0_MenACWY_-ve
- GSM7140112 sample13_CT_MenACWY_-ve
- GSM7140113 sample14_D0_ChAdOx1_+ve
- GSM7140114 sample15_CT_ChAdOx1_+ve
- GSM7140115 sample16_D0_MenACWY_-ve
- GSM7140116 sample17_CT_MenACWY_-ve
- GSM7140117 sample18_CT_MenACWY_-ve
- GSM7140118 sample19_CT_ChAdOx1_-ve
- GSM7140119 sample20_D0_ChAdOx1_-ve
- GSM7140120 sample21_CT_ChAdOx1_-ve
- GSM7140121 sample22_D0_ChAdOx1_-ve
- GSM7140122 sample23_CT_ChAdOx1_-ve
- GSM7140123 sample24_CT_ChAdOx1_+ve
- GSM7140124 sample25_CT_ChAdOx1_+ve
- GSM7140125 sample26_CT_ChAdOx1_+ve
- GSM7140126 sample27_CT_MenACWY_-ve
- GSM7140127 sample28_CT_MenACWY_-ve
- GSM7140128 sample29_CT_MenACWY_-ve
- GSM7140129 sample30_CT_MenACWY_+ve
- GSM7140130 sample31_CT_MenACWY_+ve
- GSM7140131 sample32_CT_MenACWY_+ve
- GSM7140132 sample33_CT_ChAdOx1_+ve
- GSM7140133 sample34_CT_MenACWY_+ve
- GSM7140134 sample35_CT_ChAdOx1_+ve
- GSM7140135 sample36_CT_MenACWY_+ve
- GSM7140136 sample37_CT_MenACWY_+ve
- GSM7140137 sample38_CT_MenACWY_+ve
- GSM7140138 sample39_CT_MenACWY_+ve
- GSE228842 COVID-19 vaccination is associated with attenuation of inflammatory responses during breakthrough disease 399 samples shares covid-19, breakthrough, vaccination, attenuation
- GSE261862 Prior vaccination prevents overactivation of innate immune responses during COVID-19 breakthrough infection 16 samples shares covid-19, breakthrough, vaccination
- GSE300696 Identification of reactive CpGs and RNA expression in early COVID-19 through cis-eQTM analysis reflecting disease severity and recovery [RNA-seq] 346 samples shares covid-19, rna-seq
- GSE281864 Detailed delineation of the immune response to COVID-19 mRNA vaccination via high-temporal frequency blood transcriptomics [third] 193 samples shares covid-19, vaccination
- GSE212861 Dynamics of gene expression profiling by RNA-Seq and identification of high-risk patients for severe COVID-19 [RNA-Seq] 93 samples shares covid-19, rna-seq
- GSE243217 Comparative Analysis of Host Responses Between Sepsis and COVID-19: A Prospective Observational Study of Whole Blood Transcriptome (RNA-Seq) 72 samples shares covid-19, rna-seq
- GSE210433 TET2 Mutant Clonal Hematopoiesis Enhances Severity of COVID-19 Related Cytokine Release Syndrome and is Associated with Increased Mortality [scRNA-seq] 34 samples shares covid-19, rna-seq
- GSE208342 Transcriptome and microbiome profile of nasopharyngeal samples among COVID-19 patients with different levels of severity revealed through RNA-seq analysis 20 samples shares covid-19, rna-seq
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.