Single-cell analysis of bidirectional reprogramming between early embryonic states reveals mechanisms of differential lineage plasticities [RNA-Seq]
Single-cell RNA-seq · mouse · 21 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
- 21 samples: 10 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
- 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 GSE266451_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 PRJNA1107207 and SRA study SRP505404. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 20 samples.
How we read this: 10 replicated groups read from 21 sample titles; they account for 20 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.
- GSM8247160 3F2 empty vector replicate1 3F2 empty vector
- GSM8247161 3F2 empty vector replicate2 3F2 empty vector
- GSM8247162 3F2 Gata4 sgRNA#1 replicate 1 3F2 Gata4 sgRNA#1
- GSM8247163 3F2 Gata4 sgRNA#1 replicate 2 3F2 Gata4 sgRNA#1
- GSM8247164 3F2 Gata4 sgRNA#2 replicate 1 3F2 Gata4 sgRNA#2
- GSM8247165 3F2 Gata4 sgRNA#2 replicate 2 3F2 Gata4 sgRNA#2
- GSM8247166 3F2 Gata6 sgRNA#1 replicate 1 3F2 Gata6 sgRNA#1
- GSM8247167 3F2 Gata6 sgRNA#1 replicate 2 3F2 Gata6 sgRNA#1
- GSM8247168 3F2 Gata6 sgRNA#2 replicate 1 3F2 Gata6 sgRNA#2
- GSM8247169 3F2 Gata6 sgRNA#2 replicate 2 3F2 Gata6 sgRNA#2
- GSM8480606 3F2 iPS replicate1 3F2 iPS
- GSM8480607 3F2 iPS replicate2 3F2 iPS
- GSM8480608 3F2 XEN replicate1 3F2 XEN
- GSM8480609 3F2 XEN replicate2 3F2 XEN
- GSM8480610 3F4 iPS replicate1 3F4 iPS
- GSM8480611 3F4 iPS replicate2 3F4 iPS
- GSM8480612 3F4 XEN replicate1
- GSM8480613 3F6 iPS replicate1 3F6 iPS
- GSM8480614 3F6 iPS replicate2 3F6 iPS
- GSM8480615 3F6 XEN replicate1 3F6 XEN
- GSM8480616 3F6 XEN replicate2 3F6 XEN
- GSE312828 Integrated stress response couples mitochondrial fitness with lineage reprogramming to drive cancer evolution. [RNA-Seq] 24 samples shares reprogramming, lineage, rna-seq
- GSE247845 FoxA1/2-dependent epigenomic reprogramming drives lineage switching in lung adenocarcinoma [RNA-Seq] 20 samples shares reprogramming, lineage, rna-seq
- GSE268822 Transcriptional landscapes underlying Notch-induced lineage conversion and reprogramming of mammary cells 840 samples shares reprogramming, lineage
- GSE302857 Multi-tier signaling and epigenomic reprogramming drive microglial inflammatory states and functions associated with demyelination [RNA-seq] 81 samples shares reprogramming, rna-seq
- GSE325692 Multi-omic analysis reveals brain-blood concordance and persistent neuroimmune reprogramming with stress and toxicant exposure in a mouse model of Gulf War Illness [RNA-Seq] 30 samples shares reprogramming, rna-seq
- GSE270509 In vivo CRISPR screen reveals interplay of epigenetic regulators underlies kinetics of hepatobiliary reprogramming [RNA-Seq] 27 samples shares reprogramming, rna-seq
- GSE327176 Single-cell transcriptomic profiling unveils tumor-mediated reprogramming of neutrophils and their unique vulnerability that inhibits metastasis 25 samples shares reprogramming, single-cell
- GSE304040 Decoupling oxidative resilience from reprogramming to rejuvenate the RPE and restore vision [GSTA4_RNA-seq_3] 24 samples shares reprogramming, 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.