Profiling data from primary mouse cortical neurons
RNA-seq (gene expression) · mouse · 85 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
- 85 samples: 16 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.
- Paper
- Neuronal activity rapidly reprograms dendritic translation via eIF4G2:uORF bindingNature neuroscience · 2024
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 GSE213083_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 PRJNA879069 and SRA study SRP396440. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 54 samples.
How we read this: 16 replicated groups read from 85 sample titles; they account for 54 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.
- GSM6568524 Chx
- GSM6568525 Harr
- GSM6568526 WT
- GSM6568561 REST_PAN_in_rep_1 REST_PAN_in
- GSM6568562 REST_PSD95_in_rep_1 REST_PSD95_in
- GSM6568563 REST_PAN_pd_rep_1 REST_PAN_pd
- GSM6568564 REST_PSD95_pd_rep_1 REST_PSD95_pd
- GSM6568565 DEP_PAN_in_rep_1 DEP_PAN_in
- GSM6568566 DEP_PSD95_in_rep_1 DEP_PSD95_in
- GSM6568567 DEP_PAN_pd_rep_1 DEP_PAN_pd
- GSM6568568 DEP_PSD95_pd_rep_1 DEP_PSD95_pd
- GSM6568569 REST_PAN_in_rep_2 REST_PAN_in
- GSM6568570 REST_PSD95_in_rep_2 REST_PSD95_in
- GSM6568571 REST_PAN_pd_rep_2 REST_PAN_pd
- GSM6568572 REST_PSD95_pd_rep_2 REST_PSD95_pd
- GSM6568573 DEP_PAN_in_rep_2 DEP_PAN_in
- GSM6568574 DEP_PSD95_in_rep_2 DEP_PSD95_in
- GSM6568575 DEP_PAN_pd_rep_2 DEP_PAN_pd
- GSM6568576 DEP_PSD95_pd_rep_2 DEP_PSD95_pd
- GSM6568577 REST_PAN_in_rep_3 REST_PAN_in
- GSM6568578 REST_PSD95_in_rep_3 REST_PSD95_in
- GSM6568579 REST_PAN_pd_rep_3 REST_PAN_pd
- GSM6568580 REST_PSD95_pd_rep_3 REST_PSD95_pd
- GSM6568581 DEP_PAN_in_rep_3 DEP_PAN_in
- GSM6568582 DEP_PSD95_in_rep_3 DEP_PSD95_in
- GSM6568583 DEP_PAN_pd_rep_3 DEP_PAN_pd
- GSM6568584 DEP_PSD95_pd_rep_3 DEP_PSD95_pd
- GSM6568585 REST_PAN _in_rep_4
- GSM6568586 REST_PSD95_in_rep_4 REST_PSD95_in
- GSM6568587 REST_PAN _pd_rep_4
- GSM6568588 REST_PSD95_pd_rep_4 REST_PSD95_pd
- GSM6568589 DEP_PAN _in_rep_4
- GSM6568590 DEP_PSD95_in_rep_4 DEP_PSD95_in
- GSM6568591 DEP_PAN _pd_rep_4
- GSM6568592 DEP_PSD95_pd_rep_4 DEP_PSD95_pd
- GSM6568750 DEP_Pan_in_rep_1 [Ribo-Seq]
- GSM6568751 DEP_Pan_pd_rep_1 [Ribo-Seq]
- GSM6568752 DEP_PSD95_in_rep_1 [Ribo-Seq]
- GSM6568753 DEP_PSD95_pd_rep_1 [Ribo-Seq]
- GSM6568754 REST_Pan_in_rep_1 [Ribo-Seq]
+ 45 more — browse all 85 samples with per-sample file links →
- GSE191016 Planar cell polarity proteins mediate ketamine-induced restoration of glutamatergic synapses in prefrontal cortical neurons in a mouse model for chronic stress 20 samples shares cortical, neurons
- GSE262426 Insulin resistance alters cortical inhibitory neurons and microglia to exacerbate Alzheimer’s knock-in mouse phenotypes 16 samples shares cortical, neurons
- GSE293592 Maternal immune activation delays DNA methylation and physiological maturation of cortical excitatory neurons 106 samples shares cortical, neurons
- GSE246688 CUT&Tag, ATAC-seq, bulk RNA-seq and single-nucleus RNA-seq analysis of histone variant H2BE in cortical neurons 67 samples shares cortical, neurons
- GSE336091 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [CUT&Tag] 48 samples shares cortical, neurons
- GSE310138 Sex-Biased Transcription in Early Postnatal Layer 2/3 Cortical Neurons: Interplay Between Sex and Cux1/2 Mutations 43 samples shares cortical, neurons
- GSE335970 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [RNA-Seq] 39 samples shares cortical, neurons
- GSE326797 Antibody Mediated Diversification of Primary and Secondary Humoral Immune Responses 54 samples shares primary
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.