Transcriptional profiling of eyes from MCMV infected neonatal mice during retinal development
RNA-seq (gene expression) · mouse · 24 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
- 24 samples: 8 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.
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 GSE271251_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 PRJNA1130529 and SRA study SRP517404. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 12 samples read as cases, 12 as controls.
How we read this: 8 replicated groups read from 24 sample titles; they account for 24 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.
- GSM8372247 Control D5 1 Control D5
- GSM8372248 Control D5 2 Control D5
- GSM8372249 Control D5 3 Control D5
- GSM8372250 Control D10 1 Control D10
- GSM8372251 Control D10 2 Control D10
- GSM8372252 Control D10 3 Control D10
- GSM8372253 Control D15 1 Control D15
- GSM8372254 Control D15 2 Control D15
- GSM8372255 Control D15 3 Control D15
- GSM8372256 Control D28 1 Control D28
- GSM8372257 Control D28 2 Control D28
- GSM8372258 Control D28 3 Control D28
- GSM8372259 Infected D5 1 Infected D5
- GSM8372260 Infected D5 2 Infected D5
- GSM8372261 Infected D5 3 Infected D5
- GSM8372262 Infected D10 1 Infected D10
- GSM8372263 Infected D10 2 Infected D10
- GSM8372264 Infected D10 3 Infected D10
- GSM8372265 Infected D15 1 Infected D15
- GSM8372266 Infected D15 2 Infected D15
- GSM8372267 Infected D15 3 Infected D15
- GSM8372268 Infected D28 1 Infected D28
- GSM8372269 Infected D28 2 Infected D28
- GSM8372270 Infected D28 3 Infected D28
- GSE306035 scRNA-Seq of immune populations from nasal mucosa and lungs of C57BL/6 mice and BLT1 receptor deficient mice infected intranasally with MCMV K181 strain 20 samples shares mcmv, infected
- GSE297741 ILC1 quiescence confers protection against MCMV infections during undernutrition 24 samples shares mcmv
- GSE263892 Single-cell analysis reveals Mycobacterium tuberculosis ESX-1-mediated accumulation of permissive macrophages in infected mouse lungs 6078 samples shares infected
- GSE263891 Single-cell analysis reveals Mycobacterium tuberculosis ESX-1–mediated accumulation of permissive macrophages in infected mouse lungs 6072 samples shares infected
- GSE309574 Transcriptional profiling defines unique subtypes of transit amplifying neural progenitors within the neonatal mouse subventricular zone 20 samples shares neonatal
- GSE213104 Gene expression profile at single cell level of Merkel cells from embryonic, neonatal and postnatal mouse skin 1057 samples shares neonatal
- GSE275713 A novel noninvasive murine model of neonatal hypoxic ischemic encephalopathy demonstrates developmental delay and motor deficits with activation of inflammatory pathways in monocytes 46 samples shares neonatal
- GSE165113 Neonatal inflammation impairs developmentally-associated subsets of microglia and promotes highly reactive microglia subset 38 samples shares neonatal
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.