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Dicer is essential for proper maturation, composition, and function in the postnatal retina.

GSE288381 Mus musculus (mouse) Non-coding RNA profiling 18 samples Submitted 2025/09/18 Platform GPL34328
At a glance

Non-coding RNA profiling · mouse · 18 samples

What it is
Non-coding RNA profilingLevels of RNAs that do not code for proteins, such as miRNA or lncRNA.
Organism
Mus musculus (mouse)
Samples
18 samples: 4 × P7Ascl1_wt mRNA vs 4 × P7Ascl1_cKO mRNA vs 3 × P7Ascl1_wt microRNA vs 3 × P7Ascl1_cKO microRNAGroups 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
Dicer is essential for proper maturation, composition, and function in the postnatal retinaiScience · 2025
Summary (written by the submitters)
microRNAs (miRNAs) play a pivotal role during the early phases of retinal development, but their impact on late-phase retinogenesis is unknown. We depleted miRNAs in late retinal progenitor/precursor cells (RPCs/PCs) via a conditional Dicer knock-out. Optical coherence tomography (OCT), electroretinography (ERG), histological, and transcriptional analyses were conducted in young and adult mice.
Read the full summary ↓
Alterations in gene expression of late-born cells were observed as early as postnatal day 7 (P7), resulting in impaired rod function, a significantly reduced number of rod bipolar cells and their associated function, and a decreased Müller glia population at adult age. These defects appear to be caused by a delay in differentiation/ incomplete maturation, as indicated by an enlarged progenitor/precursor population at young ages that persists into adulthood. Notably, an increased population of HuC/D+ amacrine cells was found. Luciferase assays led us to speculate that this increase may be due to the absence of Elavl3 suppression via RPC-miRNAs. This suggests that Dicer/miRNAs in late RPC/PCs are essential for the proper formation and maturation of late RPC progenies and may also play a role in regulating cell state.
Published in
Dicer is essential for proper maturation, composition, and function in the postnatal retina
Kang S, Larbi D, Bruns E et al. · iScience 2025 · PMID 41244583 · doi:10.1016/j.isci.2025.113794
This dataset
Open GSE288381 in finder → Find more mouse RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE288381_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

Also filed as BioProject PRJNA1217330 and SRA study SRP560700. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41244583) ↗
Study design
4 × P7Ascl1_wt mRNA vs 4 × P7Ascl1_cKO mRNA vs 3 × P7Ascl1_wt microRNA vs 3 × P7Ascl1_cKO microRNA

Supports a between-group comparison across 14 samples.

How we read this: 4 replicated groups read from 18 sample titles; they account for 14 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.

Samples in this study
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