A distinct mechanism of epigenetic reprogramming silences PAX2 and initiates endometrial carcinogenesis
RNA-seq (gene expression) · human · 15 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
- 15 samples: 3 × Sample_WT_E vs 3 × Sample_PAX2 re-expressed_P vs 3 × Sample_AN3CA_Sh_EV vs 3 × Sample_AN3CA_Sh_PAX2Groups 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
- A distinct mechanism of epigenetic reprogramming silences PAX2 and initiates endometrial carcinogenesisThe Journal of clinical investigation · 2025
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 GSE275345_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: 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 PRJNA1150501 and SRA study SRP527606. 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 15 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.
- GSM8474606 Sample_WT_E1 Sample_WT_E
- GSM8474607 Sample_WT_E2 Sample_WT_E
- GSM8474608 Sample_WT_E3 Sample_WT_E
- GSM8474609 Sample_PAX2 re-expressed_P1 Sample_PAX2 re-expresse…
- GSM8474610 Sample_PAX2 re-expressed_P2 Sample_PAX2 re-expresse…
- GSM8474611 Sample_PAX2 re-expressed_P3 Sample_PAX2 re-expresse…
- GSM8474612 Sample_AN3CA_Sh_EV_1 Sample_AN3CA_Sh_EV
- GSM8474613 Sample_AN3CA_Sh_EV_2 Sample_AN3CA_Sh_EV
- GSM8474614 Sample_AN3CA_Sh_EV_3 Sample_AN3CA_Sh_EV
- GSM8474615 Sample_AN3CA_Sh_PAX2_1 Sample_AN3CA_Sh_PAX2
- GSM8474616 Sample_AN3CA_Sh_PAX2_2 Sample_AN3CA_Sh_PAX2
- GSM8474617 Sample_AN3CA_Sh_PAX2_3 Sample_AN3CA_Sh_PAX2
- GSM8474618 Sample_PAX2+ PDX441
- GSM8474619 Sample_PAX2- PDX164
- GSM8622645 PDX333
- GSE232076 In vitro reconstitution of epigenetic reprogramming in the human germ line [RNA-Seq] 89 samples shares reprogramming, epigenetic
- GSE272142 Genome‑wideBrain DNAMethylationandGeneExpression Patterns Unravel Epigenetic Reprogramming in Mesial Temporal Lobe Epilepsy 12 samples shares reprogramming, epigenetic
- GSE307670 Epigenetic reprogramming of stromal cell states underpins pathologic tissue niches in Crohn’s disease 148 samples shares reprogramming, epigenetic
- GSE339365 Genome-wide H3K4me3 profiling of circulating immune cells reveals dynamic epigenetic reprogramming during acute critical COVID-19 120 samples shares reprogramming, epigenetic
- GSE278576 Epigenetic and 3D genome reprogramming during the aging of human hippocampus 80 samples shares reprogramming, epigenetic
- GSE283621 Single-cell multi-omics analysis identifies metabolism-linked epigenetic reprogramming as a driver of therapy-resistant medulloblastoma 79 samples shares reprogramming, epigenetic
- GSE281165 TFE3 fusion oncoprotein condensates drive epigenetic reprogramming and cancer progression [CUT&RUN] 43 samples shares reprogramming, epigenetic
- GSE324208 Epigenetic reprogramming drives cellular and phenotypic plasticity in liposarcoma 42 samples shares reprogramming, epigenetic
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.