Genetic Programs in Human and Mouse Early Embryos Revealed by Single-Cell RNA-Sequencing
Single-cell RNA-seq · human · 47 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- Samples
- 47 samples: 12 conditions, mostly in triplicateGroups 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.
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 GSE44183_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 PRJNA189204 and SRA study SRP018525. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 35 samples.
How we read this: 12 replicated groups read from 47 sample titles; they account for 35 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.
- GSM1080195 mouse oocyte 1 mouse oocyte
- GSM1080196 mouse oocyte 2 mouse oocyte
- GSM1080197 mouse pronuclei 1 mouse pronuclei
- GSM1080198 mouse pronuclei 2 mouse pronuclei
- GSM1080199 mouse pronuclei 3 mouse pronuclei
- GSM1080200 mouse 2-cell 1 mouse 2-cell
- GSM1080201 mouse 2-cell 2 mouse 2-cell
- GSM1080202 mouse 2-cell 3 mouse 2-cell
- GSM1080203 mouse 4-cell 1 mouse 4-cell
- GSM1080204 mouse 4-cell 2 mouse 4-cell
- GSM1080205 mouse 4-cell 3 mouse 4-cell
- GSM1080206 mouse 8-cell 1 mouse 8-cell
- GSM1080207 mouse 8-cell 2 mouse 8-cell
- GSM1080208 mouse 8-cell 3 mouse 8-cell
- GSM1080209 mouse morula 1 mouse morula
- GSM1080210 mouse morula 2 mouse morula
- GSM1080211 mouse morula 3 mouse morula
- GSM1080212 human paternal exome
- GSM1160112 human oocyte 1 human oocyte
- GSM1160113 human oocyte 3 human oocyte
- GSM1160114 human oocyte 4 human oocyte
- GSM1160115 human pronuclei 2 human pronuclei
- GSM1160116 human pronuclei 3 human pronuclei
- GSM1160117 human pronuclei 4 human pronuclei
- GSM1160118 human zygote 1 human zygote
- GSM1160119 human zygote 2 human zygote
- GSM1160120 human 2-cell 1 human 2-cell
- GSM1160121 human 2-cell 5 human 2-cell
- GSM1160122 human 2-cell 6 human 2-cell
- GSM1160123 human 4-cell 1 human 4-cell
- GSM1160124 human 4-cell 2 human 4-cell
- GSM1160125 human 4-cell 3 human 4-cell
- GSM1160126 human 4-cell 4 human 4-cell
- GSM1160127 human 8-cell 3a
- GSM1160128 human 8-cell 6a
- GSM1160129 human 8-cell 7a
- GSM1160130 human 8-cell 1b
- GSM1160131 human 8-cell 2b
- GSM1160132 human 8-cell 3b
- GSM1160133 human 8-cell 4b
+ 7 more — browse all 47 samples with per-sample file links →
- GSE272074 Latent Epigenetic Programs in Müller Glia Contribute to Stress, Injury, and Disease Response in the Retina [scRNA-seq] 48 samples shares programs, genetic
- GSE281868 Identification of epigenetic regulators of fibrotic transformation in cardiac fibroblasts through bulk and single-cell CRISPR screens (ATAC-Seq_2) 12 samples shares single-cell, genetic
- GSE198204 Endothelial plasticity in atrial fibrosis by integrating single-cell sequencing and genetic lineage tracing 8 samples shares single-cell, genetic
- GSE266117 RoCK and ROI: a single-cell RNA-sequencing method with enhanced transcriptome information via targeted enrichment of transcripts and preselected, region-specific sequencing II 4 samples shares rna-sequencing, single-cell
- GSE299152 Single-cell mapping of the glycocalyx in the adult human and mouse ocular surface 12 samples shares single-cell
- GSE307415 Single-cell RNA and BCR sequencing of age-associated B cells in mouse and human lupus 8 samples shares single-cell
- GSE270292 A convenient single-cell newly synthesized transcriptome assay reveals FLI1 regulon downregulation during T-cell activation 33 samples shares single-cell
- GSE242821 Atf3 controls transitioning in female mitochondrial cardiomyopathy as identified by single-cell transcriptomics 26 samples shares single-cell
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.