GEO series
Mouse Offspring Conceived by In Vitro Fertilization Exhibit Accelerated Reproductive Aging Through Early Ovarian Failure
GSE307881
Mus musculus (mouse)
RNA-seq (gene expression)
151 samples
Submitted 2026/01/29
Platform GPL32159
At a glance
RNA-seq (gene expression) · mouse · 151 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
- Mus musculus (mouse)
- Samples
- 151 samples: 40 × RNA library from 12 weeks IVF single oocyte vs 36 × RNA library from 12 weeks Natural single oocyte vs 5 × RNA library from 12 weeks IVF cumulus cells vs 5 × RNA library from 12 weeks Natural cumulus cellsGroups 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
- In Vitro Fertilization Accelerates Female Reproductive Aging Through Early Ovarian FailurebioRxiv : the preprint server for biology · 2025
Summary (written by the submitters)
In vitro fertilization (IVF) is an assisted reproductive technology that has enabled millions of births. Although considered safe, emerging evidence suggests that IVF may have long-term health adverse outcomes in offspring, though its impact on female reproduction, especially on reproductive aging is largely unknown. Here, we use a mouse model to investigate how IVF influences female reproductive and transgenerational health outcomes.
Read the full summary ↓
We assessed IVF-conceived fetal (E18.5) and adult (12-week and 39-week) female offspring, identifying alterations in ovarian-to-body weight ratios, ovarian morphology, serum sex hormone levels, and transcriptomic and DNA methylation profiles in ovaries, oocytes, and cumulus cells, consistent with biomarkers of accelerated reproductive aging. The offspring of IVF females and wild-type males exhibited altered fetal-to-placental weight ratios, placental morphology, and dysregulated placental gene expression. At 12-weeks-of-age, offspring showed increased body weight, disrupted lipid and glucose metabolism, and transcriptomic and epigenetic changes in liver and reproductive organs. Our results highlight the need for deeper mechanistic understanding of assisted reproduction’s long-term and multigenerational impacts on female reproductive health.
Published in
Rhon-Calderon EA, Hemphill CN, Savage AJ et al.
· bioRxiv : the preprint server for biology 2025
· PMID 41278955
· doi:10.1101/2025.10.13.682153
This dataset
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.
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 GSE307881_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1327674 and SRA study SRP619562. Searching any of these in the dataset finder brings you back here.
Study design
40 × RNA library from 12 weeks IVF single oocyte vs 36 × RNA library from 12 weeks Natural single oocyte vs 5 × RNA library from 12 weeks IVF cumulus cells vs 5 × RNA library from 12 weeks Natural cumulus cells
Supports a between-group comparison across 86 samples.
How we read this: 4 replicated groups read from 151 sample titles; they account for 86 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
- GSM9233271 RNA library from E18.5 Natural ovary 1 [Natural_ovary_E185_1]
- GSM9233272 RNA library from E18.5 Natural ovary 2 [Natural_ovary_E185_2]
- GSM9233273 RNA library from E18.5 Natural ovary 3 [Natural_ovary_E185_3]
- GSM9233274 RNA library from E18.5 Natural ovary 4 [Natural_ovary_E185_4]
- GSM9233275 RNA library from E18.5 IVF ovary 1 [IVF_ovary_E185_1]
- GSM9233276 RNA library from E18.5 IVF ovary 2 [IVF_ovary_E185_2]
- GSM9233277 RNA library from E18.5 IVF ovary 3 [IVF_ovary_E185_3]
- GSM9233278 RNA library from E18.5 IVF ovary 4 [IVF_ovary_E185_4]
- GSM9233279 RNA library from E18.5 IVF ovary 5 [IVF_ovary_E185_5]
- GSM9233280 RNA library from E18.5 IVF ovary 6 [IVF_ovary_E185_6]
- GSM9233281 RNA library from 12 weeks Natural ovary 1 [Natural_12wks_ovary_1]
- GSM9233282 RNA library from 12 weeks Natural ovary 2 [Natural_12wks_ovary_2]
- GSM9233283 RNA library from 12 weeks Natural ovary 3 [Natural_12wks_ovary_3]
- GSM9233284 RNA library from 12 weeks Natural ovary 4 [Natural_12wks_ovary_4]
- GSM9233285 RNA library from 12 weeks IVF ovary 1 [IVF_12wks_ovary_1]
- GSM9233286 RNA library from 12 weeks IVF ovary 2 [IVF_12wks_ovary_2]
- GSM9233287 RNA library from 12 weeks IVF ovary 3 [IVF_12wks_ovary_3]
- GSM9233288 RNA library from 12 weeks IVF ovary 4 [IVF_12wks_ovary_4]
- GSM9233289 RNA library from 12 weeks IVF ovary 5 [IVF_12wks_ovary_5]
- GSM9233290 RNA library from 39 weeks Natural ovary 1 [Natural_39wks_ovary_1]
- GSM9233291 RNA library from 39 weeks Natural ovary 2 [Natural_39wks_ovary_2]
- GSM9233292 RNA library from 39 weeks Natural ovary 3 [Natural_39wks_ovary_3]
- GSM9233293 RNA library from 39 weeks Natural ovary 4 [Natural_39wks_ovary_4]
- GSM9233294 RNA library from 39 weeks Natural ovary 5 [Natural_39wks_ovary_5]
- GSM9233295 RNA library from 39 weeks IVF ovary 1 [IVF_39wks_ovary_1]
- GSM9233296 RNA library from 39 weeks IVF ovary 2 [IVF_39wks_ovary_2]
- GSM9233297 RNA library from 39 weeks IVF ovary 3 [IVF_39wks_ovary_3]
- GSM9233298 RNA library from 39 weeks IVF ovary 4 [IVF_39wks_ovary_4]
- GSM9233299 RNA library from 39 weeks IVF ovary 5 [IVF_39wks_ovary_5]
- GSM9233319 RNA library from 39 weeks Natural single oocyte 1 [Natural_39wks_single_oocyte_1]
- GSM9233320 RNA library from 39 weeks Natural single oocyte 2 [Natural_39wks_single_oocyte_2]
- GSM9233321 RNA library from 39 weeks Natural single oocyte 3 [Natural_39wks_single_oocyte_3]
- GSM9233322 RNA library from 39 weeks Natural single oocyte 4 [Natural_39wks_single_oocyte_4]
- GSM9233323 RNA library from 39 weeks Natural single oocyte 5 [Natural_39wks_single_oocyte_5]
- GSM9233324 RNA library from 39 weeks Natural single oocyte 6 [Natural_39wks_single_oocyte_6]
- GSM9233325 RNA library from 39 weeks Natural single oocyte 7 [Natural_39wks_single_oocyte_7]
- GSM9233326 RNA library from 39 weeks Natural single oocyte 8 [Natural_39wks_single_oocyte_8]
- GSM9233327 RNA library from 39 weeks Natural single oocyte 9 [Natural_39wks_single_oocyte_9]
- GSM9233328 RNA library from 39 weeks IVF single oocyte 1 [IVF_39wks_single_oocyte_1]
- GSM9233329 RNA library from 39 weeks IVF single oocyte 2 [IVF_39wks_single_oocyte_2]
+ 111 more — browse all 151 samples with per-sample file links →
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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.