Transcriptomic profiling of endometrial and dermal mesenchymal stromal cells before and after treatment with menstrual fluid
Single-cell RNA-seq · human · 12 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
- 12 samples: 3 × eMSC, baseline, vs 3 × eMSC, menstrual fluid, vs 3 × dMSC, baseline, vs 3 × dMSC, menstrual fluid,Groups 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 GSE298658_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 PRJNA1270829 and SRA study SRP589202. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 12 samples.
How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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.
- GSM9020439 eMSC, baseline, rep1 eMSC, baseline,
- GSM9020440 eMSC, baseline, rep2 eMSC, baseline,
- GSM9020441 eMSC, baseline, rep3 eMSC, baseline,
- GSM9020442 eMSC, menstrual fluid, rep1 eMSC, menstrual fluid,
- GSM9020443 eMSC, menstrual fluid, rep2 eMSC, menstrual fluid,
- GSM9020444 eMSC, menstrual fluid, rep3 eMSC, menstrual fluid,
- GSM9020445 dMSC, baseline, rep1 dMSC, baseline,
- GSM9020446 dMSC, baseline, rep2 dMSC, baseline,
- GSM9020447 dMSC, baseline, rep3 dMSC, baseline,
- GSM9020448 dMSC, menstrual fluid, rep1 dMSC, menstrual fluid,
- GSM9020449 dMSC, menstrual fluid, rep2 dMSC, menstrual fluid,
- GSM9020450 dMSC, menstrual fluid, rep3 dMSC, menstrual fluid,
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- GSE241825 Mesenchymal stromal cell reprogramming and aberrant inflammatory signalling in myelofibrosis: insights from single-cell RNA sequencing 21 samples shares mesenchymal, stromal
- GSE274335 RNA-Seq analysis LPCAT3 knockdown effect on primary human endometrial stromal cells(HESC). 6 samples shares endometrial, stromal
- GSE333617 Targeting JAK1/3-STAT1 signaling attenuates cytotoxic T lymphocytes activation for the treatment in Stevens-Johnson syndrome and toxic epidermal necrolysis 26 samples shares treatment, dermal
- GSE283522 The spatially informed mFISHseq assay resolves biomarker discordance and predicts treatment response in breast cancer 1254 samples shares treatment
- GSE319641 RNA-Seq profiling of pre- and on-treatment tumor samples from breast cancer patients enrolled in the NeoTRIP trial. 401 samples shares treatment
- GSE222196 Treatment of prostate cancer cell lines with Androgen Receptor and Receptor Tyrosine Kinase inhibitors 246 samples shares treatment
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.