Topical lubrication restores dry eye corneal stroma by producing reparative keratocytesacripep promotes corneal regeneration in autoimmune mediated dry eye disease.
RNA-seq (gene expression) · mouse · 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
- Mus musculus (mouse)
- Samples
- 12 samples: 4 × KO+PBS 24hr vs 3 × WT 5wk vs 2 × KO 5wkGroups 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
- Rebuilding the autoimmune-damaged corneal stroma through topical lubricationbioRxiv : the preprint server for biology · 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 GSE272702_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 PRJNA1137991 and SRA study SRP521108. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 9 samples.
How we read this: 3 replicated groups read from 12 sample titles; they account for 9 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.
- GSM8409444 WT 7wk
- GSM8409445 KO 7wk
- GSM8409446 KO+PBS 14days (7wk)
- GSM8409447 WT 5wk bio rep1 WT 5wk
- GSM8409448 WT 5wk bio rep2 WT 5wk
- GSM8409449 WT 5wk bio rep3 WT 5wk
- GSM8409450 KO 5wk bio rep1 KO 5wk
- GSM8409451 KO 5wk bio rep2 KO 5wk
- GSM8409452 KO+PBS 24hr bio rep 1 KO+PBS 24hr
- GSM8409453 KO+PBS 24hr bio rep 2 KO+PBS 24hr
- GSM8409454 KO+PBS 24hr bio rep 3 KO+PBS 24hr
- GSM8409455 KO+PBS 24hr bio rep 4 KO+PBS 24hr
- GSE269634 Triggering AHR resolves TGF-β1 induced fibroblast activation and promotes AT1 cell regeneration in alveolar organoids 32 samples shares regeneration, promotes
- GSE301448 Epigenetic Reactivation of CNS Endothelial Developmental Programs Triggers Adult Brain Angiogenesis, Promotes Post-Stroke Revascularization and Neuroregeneration [RNAseq-Stroke] 18 samples shares regeneration, promotes
- GSE298695 Mechanosensing by endothelial Piezo1 promotes liver regeneration after partial hepatectomy via ATF2-ID1-Wnt2 pathway 16 samples shares regeneration, promotes
- GSE317252 Enhanced mitophagy promotes lung repair and regeneration by restoring epithelial metabolic fitness [RNA-Seq] 16 samples shares regeneration, promotes
- GSE280862 Loss of Sarm1 Mitigates Axonal Degeneration and Promotes Neuronal Regeneration After Ischemic Stroke 15 samples shares regeneration, promotes
- GSE301293 Epigenetic Reactivation of CNS Endothelial Developmental Programs Triggers Adult Brain Angiogenesis, Promotes Post-Stroke Revascularization and Neuroregeneration. 12 samples shares regeneration, promotes
- GSE286997 FGF2 Mediated USP42-PPAR Axis Activation Ameliorates Liver Oxidative Damage and Promotes Regeneration 12 samples shares regeneration, promotes
- GSE326240 Prophylactic inhibition of LATS1/2 prior to high-dose irradiation promotes the regeneration of the damaged intestinal epithelium through Yap-dependent and independent mechanisms 8 samples shares regeneration, promotes
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.