Single-cell analysis of bidirectional reprogramming between early embryonic states reveals mechanisms of differential lineage plasticities [scRNA-Seq]
Single-cell RNA-seq · mouse · 20 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
- 20 samples: 20 samples, each with a distinct title — no replicated groupsGroups 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 analysis of bidirectional reprogramming between early embryonic states identify mechanisms of differential lineage plasticities in miceDevelopmental cell · 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 GSE276704_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 PRJNA1158728 and SRA study SRP531520. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 20 sample titles: 20 distinct titles with little repetition. 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.
- GSM8504299 XEN, Day 0, rep1 [scRNA-Seq]
- GSM8504300 XEN, Day 0, rep2 [scRNA-Seq]
- GSM8504301 XEN, Day 7, rep1 [scRNA-Seq]
- GSM8504302 XEN, Day 7, rep2 [scRNA-Seq]
- GSM8504303 XEN, Day 14, rep1 [scRNA-Seq]
- GSM8504304 XEN, Day 14, rep2 [scRNA-Seq]
- GSM8504305 XEN, Day 28, rep1 [scRNA-Seq]
- GSM8504306 XEN, Day 28, rep2 [scRNA-Seq]
- GSM8504307 XEN-iPS, rep1 [scRNA-Seq]
- GSM8504308 XEN-iPS, rep2 [scRNA-Seq]
- GSM8504309 ES, 0h, rep1 [scRNA-Seq]
- GSM8504310 ES, 0h, rep2 [scRNA-Seq]
- GSM8504311 ES, 9h, rep1 [scRNA-Seq]
- GSM8504312 ES, 9h, rep2 [scRNA-Seq]
- GSM8504313 ES, 24h, rep1 [scRNA-Seq]
- GSM8504314 ES, 24h, rep2 [scRNA-Seq]
- GSM8504315 ES, 48h, rep1 [scRNA-Seq]
- GSM8504316 ES, 48h, rep2 [scRNA-Seq]
- GSM8504317 iXEN, rep1 [scRNA-Seq]
- GSM8504318 iXEN, rep2 [scRNA-Seq]
- GSE268822 Transcriptional landscapes underlying Notch-induced lineage conversion and reprogramming of mammary cells 840 samples shares reprogramming, lineage
- GSE327176 Single-cell transcriptomic profiling unveils tumor-mediated reprogramming of neutrophils and their unique vulnerability that inhibits metastasis 25 samples shares reprogramming, single-cell
- GSE312828 Integrated stress response couples mitochondrial fitness with lineage reprogramming to drive cancer evolution. [RNA-Seq] 24 samples shares reprogramming, lineage
- GSE247845 FoxA1/2-dependent epigenomic reprogramming drives lineage switching in lung adenocarcinoma [RNA-Seq] 20 samples shares reprogramming, lineage
- GSE287513 Integrated stress response couples mitochondrial fitness with lineage reprogramming to drive cancer evolution. 15 samples shares reprogramming, lineage
- GSE276682 Single-cell transcriptome analysis revealed cellular reprogramming following Tetramethylpyrazine treatment in LPS-induced acute lung injury 12 samples shares reprogramming, single-cell
- GSE296768 Plaque-induced transcriptional reprogramming of microglia towards lymphoid receptor expression protects against Alzheimer's disease [scRNA-seq] 12 samples shares reprogramming, scrna-seq
- GSE263545 Resident and recruited macrophages differentially contribute to cardiac healing after myocardial ischemia [scRNA-seq] 10 samples shares differential, scrna-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.