Lycopene Ameliorates Ionizing Radiation-Induced Intestinal Injury
RNA-seq (gene expression) · mouse · 9 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
- 9 samples: 3 × NC vs 3 × I vs 3 × IR-LYCGroups 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.
Read the full summary ↓
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 GSE279340_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 PRJNA1172116 and SRA study SRP538111. 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 9 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.
- GSM8567521 NC1 NC
- GSM8567522 NC2 NC
- GSM8567523 NC3 NC
- GSM8567524 IR1 I
- GSM8567525 IR2 I
- GSM8567526 IR3 I
- GSM8567527 IR-LYC1 IR-LYC
- GSM8567528 IR-LYC2 IR-LYC
- GSM8567529 IR-LYC3 IR-LYC
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- GSE295524 Unraveling the Temporal Dynamics of Radiation-Induced Lung Injury 18 samples shares radiation-induced, injury
- GSE247149 Type III interferons induce pyroptosis in gut epithelial cells and delay tissue restitution upon acute intestinal injury. 16 samples shares intestinal, injury
- GSE237833 Intestinal epithelial cell NCoR deficiency ameliorates obesity and metabolic syndrome 14 samples shares ameliorates, intestinal
- GSE277443 EMP1 preserves hematopoietic stem cell potential under homeostasis and radiation-induced injury by alleviating ER stress [ER-stress RNA-seq] 10 samples shares radiation-induced, injury
- GSE261588 Tauroursodeoxycholic acid ameliorates renal injury induced by COL4A3 mutation 10 samples shares ameliorates, injury
- GSE297315 Crotonate-activated histone H3K14 crotonylation enhances intestinal regeneration after injury 41 samples shares intestinal, injury
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.