A gene expression profiling study to identify distinct molecular markers in formalin-fixed, paraffin-embedded samples of Pseudomyxoma Peritonei [FFPE]
RNA-seq (gene expression) · human · 34 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
- 34 samples: 34 samples, each with a distinct title — no replicated groupsGroups 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
- Molecular characterization of Pseudomyxoma peritonei with single-cell and bulk RNA sequencingScientific data · 2025
Read the full summary ↓
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 GSE228375_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 PRJNA949590. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 34 sample titles: 34 distinct titles with little repetition. 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.
- GSM7119846 PMP_FFPE_20N_RNA-seq
- GSM7119847 PMP_FFPE_27N_RNA-seq
- GSM7119848 PMP_FFPE_28N_RNA-seq
- GSM7119849 PMP_FFPE_34N_RNA-seq
- GSM7119850 PMP_FFPE_35N_RNA-seq
- GSM7119851 PMP_FFPE_38N_RNA-seq
- GSM7119852 PMP_FFPE_42N_RNA-seq
- GSM7119853 PMP_FFPE_43N_RNA-seq
- GSM7119854 PMP_FFPE_46N_RNA-seq
- GSM7119855 PMP_FFPE_11_RNA-seq
- GSM7119856 PMP_FFPE_12_RNA-seq
- GSM7119857 PMP_FFPE_13_RNA-seq
- GSM7119858 PMP_FFPE_17_RNA-seq
- GSM7119859 PMP_FFPE_1_RNA-seq
- GSM7119860 PMP_FFPE_20_RNA-seq
- GSM7119861 PMP_FFPE_21_RNA-seq
- GSM7119862 PMP_FFPE_24_RNA-seq
- GSM7119863 PMP_FFPE_3_RNA-seq
- GSM7119864 PMP_FFPE_30_RNA-seq
- GSM7119865 PMP_FFPE_31_RNA-seq
- GSM7119866 PMP_FFPE_34_RNA-seq
- GSM7119867 PMP_FFPE_35_RNA-seq
- GSM7119868 PMP_FFPE_37_RNA-seq
- GSM7119869 PMP_FFPE_38_RNA-seq
- GSM7119870 PMP_FFPE_4_RNA-seq
- GSM7119871 PMP_FFPE_41_RNA-seq
- GSM7119872 PMP_FFPE_42_RNA-seq
- GSM7119873 PMP_FFPE_43_RNA-seq
- GSM7119874 PMP_FFPE_45_RNA-seq
- GSM7119875 PMP_FFPE_46_RNA-seq
- GSM7119876 PMP_FFPE_6_RNA-seq
- GSM7119877 PMP_FFPE_7_RNA-seq
- GSM7119878 PMP_FFPE_8_RNA-seq
- GSM7119879 PMP_FFPE_9_RNA-seq
- GSE228376 Gene expression profiling study to identify molecular markers exhibiting distinct characteristics of Pseudomyxoma Peritonei [Fresh Frozen] 19 samples shares pseudomyxoma, peritonei, distinct, markers
- GSE278793 Single-cell RNA sequencing of breast cancer cells from fresh fixed (FF) and formalin-fixed paraffin-embedded (FFPE) tissue identified multi-ciliary cells 4 samples shares ffpe, paraffin-embedded, formalin-fixed
- GSE274141 Single-Cell RNA Sequencing Identifies Molecular Biomarkers Predicting Late Progression to CDK4/6 Inhibition in Patients with HR+/HER2- Metastatic Breast Cancer [FFPE] 54 samples shares ffpe, markers
- GSE266302 Cell of origin and expression profiles of pseudomyxoma peritonei derived from the appendix 20 samples shares pseudomyxoma, peritonei
- GSE299799 A deep learning framework for the reconstruction of gene expression profiles derived from formalin-fixed paraffin-embedded samples 12 samples shares paraffin-embedded, formalin-fixed
- GSE298630 A deep learning framework for the reconstruction of gene expression profiles derived from formalin-fixed paraffin-embedded samples 5 samples shares paraffin-embedded, formalin-fixed
- GSE228377 Single-cell RNA-seq profiling of Pseudomyxoma Peritonei 5 samples shares pseudomyxoma, peritonei
- GSE32225 Gene-expression profiles of formalin-fixed, paraffin-embedded human intrahepatic cholangiocarcinoma 155 samples shares paraffin-embedded, formalin-fixed
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.