Effect of Hyperoxia Exposure on the Neonatal Lungs of WT C57BL6 and PTAFR KO C57BL6 mice
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: 3 × WT_Normoxia vs 3 × WT_Hyperoxia vs 3 × PTAFR_KO_Normoxia vs 3 × PTAFR_KO_HyperoxiaGroups 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 GSE228125_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 PRJNA948349 and SRA study SRP429093. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 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.
- GSM7114839 WT_Normoxia 1 WT_Normoxia
- GSM7114840 WT_Normoxia 2 WT_Normoxia
- GSM7114841 WT_Normoxia 3 WT_Normoxia
- GSM7114842 WT_Hyperoxia 1 WT_Hyperoxia
- GSM7114843 WT_Hyperoxia 2 WT_Hyperoxia
- GSM7114844 WT_Hyperoxia 3 WT_Hyperoxia
- GSM7114845 PTAFR_KO_Normoxia 1 PTAFR_KO_Normoxia
- GSM7114846 PTAFR_KO_Normoxia 2 PTAFR_KO_Normoxia
- GSM7114847 PTAFR_KO_Normoxia 3 PTAFR_KO_Normoxia
- GSM7114848 PTAFR_KO_Hyperoxia 1 PTAFR_KO_Hyperoxia
- GSM7114849 PTAFR_KO_Hyperoxia 2 PTAFR_KO_Hyperoxia
- GSM7114850 PTAFR_KO_Hyperoxia 3 PTAFR_KO_Hyperoxia
- GSE226609 Mouse lung tissue RNA-Seq from C57Bl6 wild type and ALOX15 KO mice with and without house dust mite (HDM) exposure. 20 samples shares c57bl6, exposure
- GSE295474 Neonatal lipopolysaccharide exposure alters steroid regulation and gene expression in the adult mouse brain 32 samples shares exposure, neonatal
- GSE282365 Whole genome transcriptomics reveal distinct atrial versus ventricular responses to neonatal hyperoxia 20 samples shares hyperoxia, neonatal
- GSE331357 Sex-Dependent Effects of Neonatal Hyperoxia on Prefrontal Cortex Development 24 samples shares hyperoxia, neonatal
- GSE315893 Characterization of Subchronic Lung and Brain Consequences Caused by Mouse-Adapted SARS-CoV-2 and Influenza A Infection of C57BL6 mice 44 samples shares c57bl6
- GSE281686 Transcription factor occupancy is affected by genetic variation in the white adipose tissue of C57BL6/j and 129S1/SvImJ mice [RNA-seq] 24 samples shares c57bl6
- GSE278812 Gene expression profile at single cell level of immune cells from the dura mater of naïve C57BL6/N mice and during different phases of EAE. 10 samples shares c57bl6
- GSE291439 C57BL6 Substrain Differences in Hippocampal-Dependent Learning and Transcriptome 72 samples shares c57bl6
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.