Cell-type and dynamic state govern genetic regulation of gene expression in heterogeneous differentiating cultures
Single-cell RNA-seq · human · 102 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
- Homo sapiens (human)
- Samples
- 102 samples: 17 conditions, mostly with about 7 replicates eachGroups 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
- Cell type and dynamic state govern genetic regulation of gene expression in heterogeneous differentiating culturesCell genomics · 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 GSE266500_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 PRJNA1090081 and SRA study SRP496700. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 102 samples.
How we read this: 17 replicated groups read from 102 sample titles; they account for 102 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.
- GSM8248398 100120 HDC Sample 1 100120 HDC Sample
- GSM8248399 100120 HDC Sample 2 100120 HDC Sample
- GSM8248400 100120 HDC Sample 3 100120 HDC Sample
- GSM8248401 100120 HDC Sample 4 100120 HDC Sample
- GSM8248402 100520 HDC Sample 1 100520 HDC Sample
- GSM8248403 100520 HDC Sample 2 100520 HDC Sample
- GSM8248404 100520 HDC Sample 3 100520 HDC Sample
- GSM8248405 100520 HDC Sample 4 100520 HDC Sample
- GSM8248406 100520 HDC Sample 5 100520 HDC Sample
- GSM8248407 100520 HDC Sample 6 100520 HDC Sample
- GSM8248408 100820 HDC Sample 1 100820 HDC Sample
- GSM8248409 100820 HDC Sample 2 100820 HDC Sample
- GSM8248410 100820 HDC Sample 3 100820 HDC Sample
- GSM8248411 100820 HDC Sample 4 100820 HDC Sample
- GSM8248412 101220 HDC Sample 1 101220 HDC Sample
- GSM8248413 101220 HDC Sample 2 101220 HDC Sample
- GSM8248414 101220 HDC Sample 3 101220 HDC Sample
- GSM8248415 101220 HDC Sample 4 101220 HDC Sample
- GSM8248416 101220 HDC Sample 5 101220 HDC Sample
- GSM8248417 101220 HDC Sample 6 101220 HDC Sample
- GSM8248418 101520 HDC Sample 1 101520 HDC Sample
- GSM8248419 101520 HDC Sample 2 101520 HDC Sample
- GSM8248420 101520 HDC Sample 3 101520 HDC Sample
- GSM8248421 101520 HDC Sample 4 101520 HDC Sample
- GSM8248422 101520 HDC Sample 5 101520 HDC Sample
- GSM8248423 101520 HDC Sample 6 101520 HDC Sample
- GSM8248424 101520 HDC Sample 7 101520 HDC Sample
- GSM8248425 101520 HDC Sample 8 101520 HDC Sample
- GSM8248426 101920 HDC Sample 1 101920 HDC Sample
- GSM8248427 101920 HDC Sample 2 101920 HDC Sample
- GSM8248428 101920 HDC Sample 3 101920 HDC Sample
- GSM8248429 101920 HDC Sample 4 101920 HDC Sample
- GSM8248430 101920 HDC Sample 5 101920 HDC Sample
- GSM8248431 101920 HDC Sample 6 101920 HDC Sample
- GSM8248432 101920 HDC Sample 7 101920 HDC Sample
- GSM8248433 102220 HDC Sample 1 102220 HDC Sample
- GSM8248434 102220 HDC Sample 2 102220 HDC Sample
- GSM8248435 102220 HDC Sample 3 102220 HDC Sample
- GSM8248436 102220 HDC Sample 4 102220 HDC Sample
- GSM8248437 102220 HDC Sample 5 102220 HDC Sample
+ 62 more — browse all 102 samples with per-sample file links →
- GSE137614 Transcriptomic profiling of Neural Progenitors Cell and Neural Crest Cell Differentiation of Wild-Type and TSC2-Knockout Cultures from the Pluripotent State 96 samples shares cultures, state
- GSE300628 HER2 heterogeneous breast cancer models reveal novel therapeutic targets and subclonal dynamics during evolution to resistance to HER2-targeted therapies 60 samples shares heterogeneous, dynamic
- GSE341485 Heterogeneous epigenetic variation converges on splicing dysregulation in opioid addiction 24 samples shares heterogeneous, genetic
- GSE325931 Microglial dynamics and ferroptosis induction in human iPSC-derived neuron-astrocyte-microglia tri-cultures 17 samples shares cultures, dynamic
- GSE273194 Cell-type-resolved chromatin accessibility in the human intestine identifies complex regulatory programs and clarifies genetic associations in Crohn's disease 71 samples shares cell-type, genetic
- GSE86469 Single cell transcriptomics defines human islet cell signatures and reveals cell-type-specific expression changes in type 2 diabetes [single cell] 638 samples shares cell-type
- GSE281106 Single-cell RNA-seq of peripheral blood links cell-type-specific regulation of splicing to autoimmune and inflammatory diseases [scRNAseq_KR_SGI] 352 samples shares cell-type
- GSE280974 Single-cell RNA-seq of peripheral blood links cell-type-specific regulation of splicing to autoimmune and inflammatory diseases [scRNAseq_JP_RIK] 302 samples shares cell-type
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.