Transcriptomic profiling of the postnatal mouse cardiac conduction system
Single-cell RNA-seq · mouse · 26 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
- Organism
- Mus musculus (mouse)
- Samples
- 26 samples: 9 conditions, mostly in duplicateGroups 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
- Transcriptional regulation of the postnatal cardiac conduction system heterogeneityNature communications · 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 GSE231547_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 PRJNA966892 and SRA study SRP435698. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 18 samples.
How we read this: 9 replicated groups read from 26 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.
- GSM7290658 CCS, scRNAseq
- GSM8141511 SAN_1 SAN
- GSM8141512 SAN_2 SAN
- GSM8141513 CAVN_1
- GSM8141514 LNB1 LNB
- GSM8141515 LNB2 LNB
- GSM8141516 HIS_1 HIS
- GSM8141517 HIS_2 HIS
- GSM8141518 PLBB_1 PLBB
- GSM8141519 PLBB_2 PLBB
- GSM8141520 DLBB_1 DLBB
- GSM8141521 DLBB_2 DLBB
- GSM8141522 PRBB_1 PRBB
- GSM8141523 PRBB_2 PRBB
- GSM8141524 DRBB_1 DRBB
- GSM8141525 DRBB_2 DRBB
- GSM8141526 LPF_1 LPF
- GSM8141527 LPF_2 LPF
- GSM8141528 RPF_1 RPF
- GSM8141529 RPF_2 RPF
- GSM8141530 RA
- GSM8141531 LENDO
- GSM8141532 LEPI
- GSM8141533 IVSB
- GSM8141534 IVSA
- GSM8141535 RV
- GSE227189 Single cell transcriptomic analyses of the dynamic local and systemic response to cardiac injury in mice and zebrafish [mouse] 28 samples shares cardiac, system
- GSE213104 Gene expression profile at single cell level of Merkel cells from embryonic, neonatal and postnatal mouse skin 1057 samples shares postnatal
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- GSE301899 mTOR signaling contributes to system-driven rhythmic gene expression in mouse liver 282 samples shares system
- GSE281697 Systems-level computational translation of mouse and human transcriptomics reveals a role for the unfolded protein response in Mycobacterium tuberculosis infection 20 samples shares system
- GSE295530 MeCP2 stabilizes the glucocorticoid system in active chromatin regions [RNA-seq] 723 samples shares system
- GSE330728 Single-nucleus RNA-seq atlas of 17 ASD-risk mouse lines under early-postnatal fluoxetine or lithium exposure (4-plex On-Chip Multiplexed) 53 samples shares postnatal
- GSE201417 Gene expression profiles of cardiac neural crest cells during heart development 294 samples shares cardiac
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.