Single cell RNA sequencing of aging neural progenitors reveals loss of excitatory neuron potential and a population with transcriptional immune response (RNA-Seq)
Single-cell RNA-seq · mouse · 40 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Mus musculus (mouse)
- Samples
- 40 samples: 9 conditions, mostly with about 4 replicates eachGroups 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
- Single-cell RNA sequencing of aging neural progenitors reveals loss of excitatory neuron potential and a population with transcriptional immune responseFrontiers in neuroscience · 2024
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 GSE261457_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.
Also filed as BioProject PRJNA1086995 and SRA study SRP494879. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 39 samples.
How we read this: 9 replicated groups read from 40 sample titles; they account for 39 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.
- GSM8144432 SVZ_Y1_re
- GSM8144433 SVZ_Y2 SVZ_Y
- GSM8144434 SVZ_Y3 SVZ_Y
- GSM8144435 SVZ_Y4 SVZ_Y
- GSM8144436 SVZ_M1 SVZ_M
- GSM8144437 SVZ_M2 SVZ_M
- GSM8144438 SVZ_M3 SVZ_M
- GSM8144439 SVZ_M4 SVZ_M
- GSM8144440 SVZ_O1 SVZ_O
- GSM8144441 SVZ_O2 SVZ_O
- GSM8144442 SVZ_O4 SVZ_O
- GSM8144443 SVZ_Y5 SVZ_Y
- GSM8144444 SVZ_M5 SVZ_M
- GSM8144445 SVZ_O5 SVZ_O
- GSM8144446 SVZ_O7 SVZ_O
- GSM8144447 OB_Y1 OB_Y
- GSM8144448 OB_Y2 OB_Y
- GSM8144449 OB_Y3 OB_Y
- GSM8144450 OB_Y5 OB_Y
- GSM8144451 OB_M1 OB_M
- GSM8144452 OB_M2 OB_M
- GSM8144453 OB_M3 OB_M
- GSM8144454 OB_M4 OB_M
- GSM8144455 OB_M5 OB_M
- GSM8144456 OB_O2 OB_O
- GSM8144457 OB_O4 OB_O
- GSM8144458 OB_O8 OB_O
- GSM8144459 OB_O9 OB_O
- GSM8144460 DG_Y1 DG_Y
- GSM8144461 DG_Y2 DG_Y
- GSM8144462 DG_Y3 DG_Y
- GSM8144463 DG_Y5 DG_Y
- GSM8144464 DG_M2 DG_M
- GSM8144465 DG_M3 DG_M
- GSM8144466 DG_M4 DG_M
- GSM8144467 DG_M5 DG_M
- GSM8144468 DG_O5 DG_O
- GSM8144469 DG_O7 DG_O
- GSM8144470 DG_O8 DG_O
- GSM8144471 DG_O9 DG_O
- GSE335970 KMT2C catalytic activity regulates enhancer H3K4me1 and synaptic gene expression in cortical excitatory neurons [RNA-Seq] 39 samples shares excitatory, rna-seq, neuron
- GSE326003 The differentiation of myeloid progenitors is effected by cascading waves of coordinated gene expression that remodel cellular physiology in a characteristic sequence [RNA-seq] 165 samples shares progenitors, rna-seq
- GSE300997 Persistent cortical excitatory neuron dysregulation in adult Chd8 haploinsufficient mice 127 samples shares excitatory, neuron
- GSE247719 A Panoramic View of Cell Population Dynamics in Mammalian Aging 78 samples shares population, aging
- GSE325852 Translatome profiling reveals opposing alterations in inhibitory and excitatory neurons of Fragile X mice and identifies EPAC2 as a therapeutic target 69 samples shares excitatory, neuron
- GSE303433 Nox1 and Npy1r mark regional colon stem cell populations that serve as cancer origins in vivo [RNA-seq2] 60 samples shares population, rna-seq
- GSE205410 Multiple subpopulations in medullary thymic epithelial cells are regulated by Aire with distinctive modes of gene regulations [bulkRNA-seq] 47 samples shares population, rna-seq
- GSE263808 RNA-seq of O4+ oligodendrocyte progenitors isolated from P5 and P60 mice 32 samples shares progenitors, rna-seq
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.