Fibrin drives thromboinflammation and neuropathology in COVID-19
RNA-seq (gene expression) · mouse · 22 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
- Mus musculus (mouse)
- Samples
- 22 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
- Fibrin drives thromboinflammation and neuropathology in COVID-19Nature · 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 GSE268813_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 PRJNA1118776 and SRA study SRP511072. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 22 samples.
How we read this: 6 replicated groups read from 22 sample titles; they account for 22 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.
- GSM8299838 Lung_FgaKO_Cov2_Rep1 Lung_FgaKO_Cov2
- GSM8299839 Lung_FgaKO_Cov2_Rep2 Lung_FgaKO_Cov2
- GSM8299840 Lung_FgaKO_Cov2_Rep3 Lung_FgaKO_Cov2
- GSM8299841 Lung_FgaKO_Cov2_Rep4 Lung_FgaKO_Cov2
- GSM8299842 Lung_FgaKO_Cov2_Rep5 Lung_FgaKO_Cov2
- GSM8299843 Lung_FgaKO_UN_Rep1 Lung_FgaKO_UN
- GSM8299844 Lung_FgaKO_UN_Rep2 Lung_FgaKO_UN
- GSM8299845 Lung_FgaKO_UN_Rep3 Lung_FgaKO_UN
- GSM8299846 Lung_Wildtype_Cov2_Rep1 Lung_Wildtype_Cov2
- GSM8299847 Lung_Wildtype_Cov2_Rep2 Lung_Wildtype_Cov2
- GSM8299848 Lung_Wildtype_Cov2_Rep3 Lung_Wildtype_Cov2
- GSM8299849 Lung_Wildtype_Cov2_Rep4 Lung_Wildtype_Cov2
- GSM8299850 Lung_Wildtype_UN_Rep1 Lung_Wildtype_UN
- GSM8299851 Lung_Wildtype_UN_Rep2 Lung_Wildtype_UN
- GSM8299852 Lung_Wildtype_UN_Rep3 Lung_Wildtype_UN
- GSM8299853 Lung_Wildtype_UN_Rep4 Lung_Wildtype_UN
- GSM8299855 NK_Unstimulated_4day_rep1 NK_Unstimulated_4day
- GSM8299856 NK_Unstimulated_4day_rep2 NK_Unstimulated_4day
- GSM8299857 NK_Unstimulated_4day_rep3 NK_Unstimulated_4day
- GSM8299858 NK_Fibrin_4day_rep1 NK_Fibrin_4day
- GSM8299859 NK_Fibrin_4day_rep2 NK_Fibrin_4day
- GSM8299860 NK_Fibrin_4day_rep3 NK_Fibrin_4day
- GSE268810 Fibrin drives thromboinflammation and neuropathology in COVID-19 [Lung] 16 samples shares covid-19, thromboinflammation, neuropathology, fibrin, drives
- GSE268812 Fibrin drives thromboinflammation and neuropathology in COVID-19 [NK_Fibrin_in_vitro] 6 samples shares covid-19, thromboinflammation, neuropathology, fibrin, drives
- GSE270151 Development of an ideal inactivated vaccine for COVID-19 (mouse lung RNA-seq data) 52 samples shares covid-19
- GSE264189 Premature aging effects on COVID-19 pathogenesis: new insights from mouse models 42 samples shares covid-19
- GSE271163 Enhancing Human ACE2 Expression in Mouse Models for Improved COVID-19 Research 21 samples shares covid-19
- GSE274784 Exploring the Biological Mechanisms of Severe COVID-19 in the Elderly: Insights from an Aged Mouse Model 13 samples shares covid-19
- GSE244820 Activation of alveolar epithelial ER stress by b-coronavirus infection disrupts surfactant homeostasis in mice: implications for COVID-19 respiratory failure 10 samples shares covid-19
- GSE300959 Different COVID-19 vaccines induce distinct reprogramming of stromal functions in draining lymph nodes 7 samples shares covid-19
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.