← BioTransfer GEO Dataset Finder
GEO series

Advancing probabilistic risk assessment of perfluorooctanoic acid through integration of in vitro data and physiologically based toxicokinetic modeling coupled with population-specific analysis

GSE336962 Homo sapiens (human) RNA-seq (gene expression) 36 samples Submitted 2026/06/30 Platform GPL28038
At a glance

RNA-seq (gene expression) · human · 36 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
36 samples: 12 conditions, mostly in triplicateGroups 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
Advancing probabilistic risk assessment of perfluorooctanoic acid through integration of in vitro data and physiologically based toxicokinetic modeling coupled with population-specific analysisJournal of hazardous materials · 2025
Summary (written by the submitters)
Current human health risk assessment for perfluorooctanoic acid (PFOA) has proven inadequate due to a lack of innovative approaches. Here, we applied benchmark dose-response modeling to derive benchmark concentrations (BMCs) for apical and transcriptomic changes in human endothelial cells EA.hy926 following both high-concentration short-term (48 h) and human-relevant long-term (6 and 12 weeks) PFOA exposures.
Read the full summary ↓
BMCs were translated into human equivalent doses (HEDs) using a physiologically based toxicokinetic model. Long-term exposure produced sensitive biological responses: 10th percentile HEDs for apical and transcriptomic data were 0.59 and 3.84 ng/kg bw/week, respectively, both below the estimated U.S. general population exposure level (9.91 ng/kg bw/week). Predicted 10th percentile HED thresholds in individuals with certain conditions were: end-stage renal disease 0.50 ng/kg bw/week, moderate to severe reductions in glomerular filtration rate 0.18–1.00 ng/kg bw/week, cirrhosis class A 0.18 ng/kg bw/week, NAFLD 0.79 ng/kg bw/week, and class 1 obesity 0.43 ng/kg bw/week, compared to healthy individuals (1.18 ng/kg bw/week), suggesting that PFOA can elicit adverse effects in endothelial cells at exposure levels below those currently experienced by the general population. Given the global prevalence of health conditions investigated in this study, a substantial portion of the population may face increased vulnerability to PFOA-induced health effects.
Published in
Advancing probabilistic risk assessment of perfluorooctanoic acid through integration of in vitro data and physiologically based toxicokinetic modeling coupled with population-specific analysis
Opacic M, Todorovic N, Lalic-Popovic M et al. · Journal of hazardous materials 2025 · PMID 40752167 · doi:10.1016/j.jhazmat.2025.139402
This dataset
Open GSE336962 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 GSE336962_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 PRJNA1483636 and SRA study SRP713577. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40752167) ↗
Study design
12 conditions, mostly in triplicate
EA.hy926 cells, PFOA Control, 6 weeks, ×3 EA.hy926 cells, PFOA 1nM, 6 weeks, ×3 EA.hy926 cells, PFOA 10nM, 6 weeks, ×3 EA.hy926 cells, PFOA 100nM, 6 weeks, ×3 EA.hy926 cells, PFOA Control, 12 weeks, ×3 EA.hy926 cells, PFOA 1nM, 12 weeks, ×3 EA.hy926 cells, PFOA 10nM, 12 weeks, ×3 EA.hy926 cells, PFOA 100nM, 12 weeks, ×3 +4 more

Supports a between-group comparison across 36 samples.

How we read this: 12 replicated groups read from 36 sample titles; they account for 36 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

Search all human RNA-seq datasets in GEO →

Share this dataset

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.