RNA-seq of retinal microglia and non-microglial retina cells in WT (Bmal1f/f) and microglial Bmal1-KO (Bmal1-mg/-mg) mice
RNA-seq (gene expression) · mouse · 18 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
- 18 samples: 5 × Microglia, Bmal1-mg/-mg, vs 5 × Retina, Bmal1-mg/-mg, vs 4 × Microglia, Bmal1f/f, vs 4 × Retina, Bmal1f/f,Groups 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
- Microglial Bmal1 Contributes to Diurnal Physiology and Retinal HomeostasisGlia · 2025
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 GSE282175_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 PRJNA1187531 and SRA study SRP545898. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 4 replicated groups read from 18 sample titles; they account for 18 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.
- GSM8637514 Microglia, Bmal1f/f, rep1 Microglia, Bmal1f/f,
- GSM8637515 Retina, Bmal1f/f, rep1 Retina, Bmal1f/f,
- GSM8637516 Microglia, Bmal1f/f, rep2 Microglia, Bmal1f/f,
- GSM8637517 Retina, Bmal1f/f, rep2 Retina, Bmal1f/f,
- GSM8637518 Microglia, Bmal1f/f, rep3 Microglia, Bmal1f/f,
- GSM8637519 Retina, Bmal1f/f, rep3 Retina, Bmal1f/f,
- GSM8637520 Microglia, Bmal1f/f, rep4 Microglia, Bmal1f/f,
- GSM8637521 Retina, Bmal1f/f, rep4 Retina, Bmal1f/f,
- GSM8637522 Microglia, Bmal1-mg/-mg, rep1 Microglia, Bmal1-mg/-mg,
- GSM8637523 Retina, Bmal1-mg/-mg, rep1 Retina, Bmal1-mg/-mg,
- GSM8637524 Microglia, Bmal1-mg/-mg, rep2 Microglia, Bmal1-mg/-mg,
- GSM8637525 Retina, Bmal1-mg/-mg, rep2 Retina, Bmal1-mg/-mg,
- GSM8637526 Microglia, Bmal1-mg/-mg, rep3 Microglia, Bmal1-mg/-mg,
- GSM8637527 Retina, Bmal1-mg/-mg, rep3 Retina, Bmal1-mg/-mg,
- GSM8637528 Microglia, Bmal1-mg/-mg, rep4 Microglia, Bmal1-mg/-mg,
- GSM8637529 Retina, Bmal1-mg/-mg, rep4 Retina, Bmal1-mg/-mg,
- GSM8637530 Microglia, Bmal1-mg/-mg, rep5 Microglia, Bmal1-mg/-mg,
- GSM8637531 Retina, Bmal1-mg/-mg, rep5 Retina, Bmal1-mg/-mg,
- GSE232957 Muscle-specific rescue of Bmal1 impacts survival and health span of the Bmal1-KO mouse 72 samples shares bmal1-ko
- GSE297376 A role for the cholinergic neuron circadian clock in RNA metabolism and mediating neurodegeneration [Bmal1-KO] 25 samples shares bmal1-ko
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.