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Impact of BRCA mutations, age, and hormone status on the molecular phenotype of the human Fallopian tube

GSE274628 Homo sapiens (human) RNA-seq (gene expression) 94 samples Submitted 2025/02/20 Platform GPL24676
At a glance

RNA-seq (gene expression) · human · 94 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)
Topic
Ovarian cancerThis series is part of our curated briefing on it.
Samples
94 samples: 6 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
Impact of BRCA mutations, age, surgical indication, and hormone status on the molecular phenotype of the human Fallopian tubeNature communications · 2025
Summary (written by the submitters)
The human Fallopian tube (FT) is an important organ in the female reproductive system and has been implicated as a site of origin for pelvic serous cancers, including high-grade serous ovarian cancer (HGSOC). We have generated comprehensive whole-genome bisulfite sequencing, RNA-seq, and proteomic data of over 100 human FTs, with detailed clinical covariate annotations.
Read the full summary ↓
Our results challenge existing paradigms that extensive epigenetic, transcriptomic and proteomic alterations exist in the FTs from women carrying BRCA1/2 mutations. We find minimal differences between BRCA1/2 carriers and non-carriers prior to loss of heterozygosity, shedding new light into the prevention and/or early detection of tumorigenesis in these women. Covariates such as surgical indications can confound BRCA1/2-related differences reported in the literature.We systematically document and highlight the degree of variations across normal human FT, defining five FT groups capturing major cellular and molecular changes across various reproductive stages and associate these with various clinical covariates but not heterozygous BRCA1/2 mutation status.
Published in
Impact of BRCA mutations, age, surgical indication, and hormone status on the molecular phenotype of the human Fallopian tube
Beddows I, Djirackor S, Omran DK et al. · Nature communications 2025 · PMID 40140386 · doi:10.1038/s41467-025-58145-2
This dataset
Open GSE274628 in finder → Find more human RNA-seq datasets → Ovarian cancer landscape →
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 GSE274628_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 PRJNA1147302 and SRA study SRP526527. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40140386) ↗
Study design
6 conditions, mostly in duplicate
Human_FT_Non-BRCAm_C-21 ×39 Human_FT_BRCA1m_C-21 ×20 Human_FT_BRCA2m_C-21 ×17 Human_FT_Non-BRCAm_C-23 ×14 Human_FT_BRCA2m_C-23 ×2 Human_FT_BRCA1m_C-23 ×2

Supports a between-group comparison across 94 samples.

How we read this: 6 replicated groups read from 94 sample titles; they account for 94 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

+ 54 more — browse all 94 samples with per-sample file links →

More Ovarian cancer datasets

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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.