Bulk RNA seq on cerebral cortices derived from WT and Mecp2 null mice (P60) tretaed or not with rhNGF
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: 6 × KO.T vs 6 × KO.UT vs 6 × WT.T vs 6 × WT.UTGroups 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
- Clinical-grade intranasal NGF fuels neurological and metabolic functions of Mecp2-deficient miceBrain : a journal of neurology · 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 GSE260963_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 PRJNA1084742 and SRA study SRP493620. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 4 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.
- GSM8128818 KO.TR.21 KO.T
- GSM8128819 KO.UT.10 KO.UT
- GSM8128820 WT.TR.16 WT.T
- GSM8128821 WT.UT.4 WT.UT
- GSM8128822 KO.TR.19 KO.T
- GSM8128823 WT.TR.13 WT.T
- GSM8128824 WT.UT.1 WT.UT
- GSM8128825 KO.UT.7 KO.UT
- GSM8128826 KO.UT.9 KO.UT
- GSM8128827 WT.TR.17 WT.T
- GSM8128828 KO.TR.22 KO.T
- GSM8128829 KO.UT.11 KO.UT
- GSM8128830 WT.UT.5 WT.UT
- GSM8128831 KO.TR.23 KO.T
- GSM8128832 WT.UT.6 WT.UT
- GSM8128833 KO.UT.12 KO.UT
- GSM8128834 KO.TR.24 KO.T
- GSM8128835 WT.TR.18 WT.T
- GSM8128836 WT.TR.14 WT.T
- GSM8128837 WT.UT.2 WT.UT
- GSM8128838 WT.TR.15 WT.T
- GSM8128839 WT.UT.3 WT.UT
- GSM8128840 KO.UT.8 KO.UT
- GSM8128841 KO.TR.20 KO.T
- GSE295530 MeCP2 stabilizes the glucocorticoid system in active chromatin regions [RNA-seq] 723 samples shares mecp2
- GSE246119 Dynamic dysregulation of the transcriptome upon deletion of Mecp2 in adult mice 144 samples shares mecp2
- GSE300534 Brain Mecp2 Genetic Dosage and Gene Therapy Shape Multi-omics Signatures and Biomarkers in Rett Syndrome [1] 137 samples shares mecp2
- GSE300536 Brain Mecp2 Genetic Dosage and Gene Therapy Shape Multi-omics Signatures and Biomarkers in Rett Syndrome [2] 137 samples shares mecp2
- GSE237084 Non-CG DNA methylation and MeCP2 stabilize repeated tuning of long genes that distinguish closely related neuron types [RNA-seq] 38 samples shares mecp2
- GSE299346 Mecp2 stabilizes the glucocorticoid system in active chromatin regions [scRNA-Seq] 36 samples shares mecp2
- GSE263808 RNA-seq of O4+ oligodendrocyte progenitors isolated from P5 and P60 mice 32 samples shares p60
- GSE261222 Scaffolding element rewires genome architecture during differentiation at the Zfp608 locus (RNA-Seq) 26 samples shares p60
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.