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endometriosis stromal cell with estrogen

GSE284362 Homo sapiens (human) RNA-seq (gene expression) 20 samples Submitted 2025/07/22 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 20 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Homo sapiens (human)
Samples
20 samples: 5 × endometrial stromal cells, C_P vs 5 × endometrial stromal cells, E2_P vs 5 × endometrial stromal cells, E4_P vs 5 × endometrial stromal cells, EE_PGroups 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
Transcriptome landscapes induced by estetrol, estradiol, and ethinylestradiol in primary human endometriotic stromal cellsF&S science · 2025
Summary (written by the submitters)
Objective : To compare transcriptomes induced by the estrogen components of combined oral contraceptives, estetrol (E4), and ethynylestradiol (EE), and estradiol (E2) in human primary endometriotic stromal cells (ESCs). Design: ESCs were cultured in the presence of E4 (10-6 mol/L), E2 (10-8 mol/L) or EE (10-9 mol/L) for 24 hours. The transcriptomes induced by E4 were compared with those by E2 and EE.
Read the full summary ↓
Subjects: ESCs were obtained from patients with ovarian endometriomas. Main Outcome Measures: Comprehensive transcriptomes were examined using RNA sequencing analysis. mRNA levels were measured using reverse transcription and quantitative polymerase chain reaction (RT-qPCR) analysis. Results: E4 treatment resulted in 114 differentially expressed genes compared to the control (|log2fold change| >0.2). Within these genes, 79% (90 genes) changed in the same manner as with EE and E2. Of these genes, the expression levels of GREB1, PGR and BMP6 were validated using RT-qPCR analysis. In contrast, 21% (24 genes) changed in E4-preferential manner. Of these genes, FAM72A and ENSG00000280800 were validated using RT-qPCR analysis. Conclusion: Our results showed that the effect of E4 on ESC gene expression generally similar to those caused by EE and E2 but differed for some genes. This study will advance our understanding of combined oral contraceptives that have practical importance for the treatment of endometriosis.
Published in
Transcriptome landscapes induced by estetrol, estradiol, and ethinylestradiol in primary human endometriotic stromal cells
Nakajima M, Izumi G, Koga K et al. · F&S science 2025 · PMID 40578765 · doi:10.1016/j.xfss.2025.06.002
This dataset
Open GSE284362 in finder → Find more human RNA-seq datasets →
Download · which file do I need?

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.

1 · Just have a look

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.

Series matrix ↓
2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE284362_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓
3 · Start from the raw reads

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.

Raw reads on ENA ↗

What the files usually look like: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1198890 and SRA study SRP551743. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40578765) ↗
Study design
5 × endometrial stromal cells, C_P vs 5 × endometrial stromal cells, E2_P vs 5 × endometrial stromal cells, E4_P vs 5 × endometrial stromal cells, EE_P

Supports a between-group comparison across 20 samples.

How we read this: 4 replicated groups read from 20 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.

Samples in this study
Datasets on a similar topic

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