A single cell transcriptomic map of the developing Atoh1-lineage uncovers neural fate decisions and neuronal diversity in the hindbrain.[RNA-Seq]
Single-cell RNA-seq · mouse · 24 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
- 24 samples: 12 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
- A single-cell transcriptomic map of the developing Atoh1 lineage identifies neural fate decisions and neuronal diversity in the hindbrainDevelopmental cell · 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 GSE233856_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 PRJNA978107 and SRA study SRP440568. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 24 samples.
How we read this: 12 replicated groups read from 24 sample titles; they account for 24 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.
- GSM7438094 E9.5, GFP-only, replicate 1 E9.5, GFP-only,
- GSM7438095 E9.5, GFP-only, replicate 2 E9.5, GFP-only,
- GSM7438096 E10.5, GFP-only, replicate 1 E10.5, GFP-only,
- GSM7438097 E10.5, GFP-only, replicate 2 E10.5, GFP-only,
- GSM7438098 E11.5, GFP/TdTom, replicate 1 E11.5, GFP/TdTom,
- GSM7438099 E11.5, GFP/TdTom, replicate 2 E11.5, GFP/TdTom,
- GSM7438100 E11.5, TdTom-only, replicate 1 E11.5, TdTom-only,
- GSM7438101 E11.5, TdTom-only, replicate 2 E11.5, TdTom-only,
- GSM7438102 E12.5, GFP/TdTom, replicate 1 E12.5, GFP/TdTom,
- GSM7438103 E12.5, GFP/TdTom, replicate 2 E12.5, GFP/TdTom,
- GSM7438104 E12.5, TdTom-only, replicate 1 E12.5, TdTom-only,
- GSM7438105 E12.5, TdTom-only, replicate 2 E12.5, TdTom-only,
- GSM7438106 E13.5, GFP/TdTom, replicate 1 E13.5, GFP/TdTom,
- GSM7438107 E13.5, GFP/TdTom, replicate 2 E13.5, GFP/TdTom,
- GSM7438108 E13.5, TdTom-only, replicate 1 E13.5, TdTom-only,
- GSM7438109 E13.5, TdTom-only, replicate 2 E13.5, TdTom-only,
- GSM7438110 E14.5, GFP/TdTom, replicate 1 E14.5, GFP/TdTom,
- GSM7438111 E14.5, GFP/TdTom, replicate 2 E14.5, GFP/TdTom,
- GSM7438112 E14.5, TdTom-only, replicate 1 E14.5, TdTom-only,
- GSM7438113 E14.5, TdTom-only, replicate 2 E14.5, TdTom-only,
- GSM7438114 E16.5, GFP/TdTom, replicate 1 E16.5, GFP/TdTom,
- GSM7438115 E16.5, GFP/TdTom, replicate 2 E16.5, GFP/TdTom,
- GSM7438116 E16.5, TdTom-only, replicate 1 E16.5, TdTom-only,
- GSM7438117 E16.5, TdTom-only, replicate 2 E16.5, TdTom-only,
- GSE233966 A single cell transcriptomic map of the developing Atoh1-lineage uncovers neural fate decisions and neuronal diversity in the hindbrain. 32 samples shares atoh1-lineage, developing, decisions, diversity, hindbrain, uncovers, neuronal
- GSE293874 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse bulk RNA-seq] 167 samples shares diversity, rna-seq
- GSE260530 Distinct Roles for SETα and SETβ in Early Cell Fate Decisions [RNA-Seq] 91 samples shares decisions, rna-seq
- GSE271029 Mex3a-dependent post-transcriptional silencing assures olfactory receptor diversity and axon guidance specificity [RNA-Seq] 46 samples shares diversity, rna-seq
- GSE245838 Anchored screening identifies transcription factor blueprints underlying dendritic cell diversity and subset-specific anti-tumor immunity [mouse scRNA-seq] 21 samples shares diversity, rna-seq
- GSE280358 Broccoli consumption alters microbial diversity, host and bacterial gene expression in mice fed a Total Western Diet [RNA-seq] 21 samples shares diversity, rna-seq
- GSE286542 Nitric oxide drives proteomic diversity through alternative splicing [Fibroblast RNA-Seq] 16 samples shares diversity, rna-seq
- GSE319426 Sodium Channel Isoform Diversity Underlies Chamber-Specific Cardiac Excitability [bulk RNA-seq] 14 samples shares diversity, 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.