RNA Sequencing Analysis of Peripheral Blood Mononuclear Cells Associated with COVID-19 Deterioration
RNA-seq (gene expression) · human · 12 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
- 12 samples: 6 × ND vs 6 × DGroups 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.
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 GSE207625_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 PRJNA856339 and SRA study SRP385192. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 2 replicated groups read from 12 sample titles; they account for 12 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.
- GSM6304091 ND1 ND
- GSM6304092 ND2 ND
- GSM6304093 ND3 ND
- GSM6304094 ND4 ND
- GSM6304095 ND5 ND
- GSM6304096 ND6 ND
- GSM6304097 D1 D
- GSM6304098 D2 D
- GSM6304099 D3 D
- GSM6304100 D4 D
- GSM6304101 D5 D
- GSM6304102 D6 D
- GSE282769 Remodeling of the chromatin landscape in peripheral blood cells in patients with severe Delta COVID-19 39 samples shares covid-19, peripheral, blood
- GSE295224 Dual single-cell and bulk RNA sequencing reveal transcriptional profiles underlying heterogenous host-parasite interactions in human peripheral blood mononuclear cells 42 samples shares mononuclear, peripheral, blood
- GSE326320 Integrative transcriptomic, network, and genomic analysis of peripheral blood mononuclear cells identifies candidate gene drivers of dupilumab clinical response in atopic dermatitis patients 36 samples shares mononuclear, peripheral, blood
- GSE267718 Single cell RNA sequencing (scRNAseq) of urine-derived cells, peripheral blood mononuclear (PBMC), and tumor cells from bladder cancer patients. 33 samples shares mononuclear, peripheral, blood
- GSE327707 Sorted bulk RNA-seq profiling of human peripheral blood mononuclear cell populations across diverse in vitro immune stimuli 150 samples shares mononuclear, peripheral, blood
- GSE202216 Rhinovirus-induced gene expression patterns that distinguish between neutrophilic asthma and other asthma inflammatory phenotypes in human peripheral blood mononuclear cells 102 samples shares mononuclear, peripheral, blood
- GSE269269 Single-Cell RNA Sequencing of Peripheral Blood Mononuclear Cells From Acute Myocardial Infarction 10 samples shares mononuclear, peripheral, blood
- GSE341102 Single-cell sequencing reveals the immune cell landscape of peripheral blood mononuclear cells in primary membranous nephropathy 8 samples shares mononuclear, peripheral, blood
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.