Targeting PDGF signaling of cancer-associated fibroblasts blocks feedback activation of HIF-1α and overcomes chemoresistance in ovarian clear cell carcinoma
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: 15 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
- Targeting PDGF signaling of cancer-associated fibroblasts blocks feedback activation of HIF-1α and tumor progression of clear cell ovarian cancerCell reports. Medicine · 2024
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 GSE224336_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 PRJNA930662 and SRA study SRP420626. 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 15 sample titles: 15 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.
- GSM7019822 Coculture_cells_scRNAseq
- GSM7019823 Mono_CAF_scRNAseq
- GSM7019824 Mono_Cancer_scRNAseq
- GSM7019825 OCCR1, snRNAseq
- GSM7019826 OCCR2, snRNAseq
- GSM7019827 OCCR3, snRNAseq
- GSM7019828 OCCR4, snRNAseq
- GSM7019829 OCCR5, snRNAseq
- GSM7019830 OCCS1, snRNAseq
- GSM7019831 OCCS2, snRNAseq
- GSM7019832 OCCS3, snRNAseq
- GSM7019833 OCCS4, snRNAseq
- GSM7019834 OCCS5, snRNAseq
- GSM7019835 OCCR2, visium
- GSM7019836 OCCS3, visium
- GSE335811 Macrophage-Induced Senescent Cancer-Associated Fibroblasts Promote SASP-Mediated Chemoresistance in Colorectal Cancer 12 samples shares cancer-associated, chemoresistance, fibroblasts
- GSE301076 Targeting LINC01711 in FAP+ cancer-associated fibroblasts in lung adenocarcinoma 12 samples shares cancer-associated, fibroblasts, targeting
- GSE235244 Senescent cancer-associated fibroblasts in pancreatic adenocarcinoma suppress CD8+ T cell activation and inhibit response to immune checkpoint therapy [hPDAC] 8 samples shares cancer-associated, fibroblasts, activation
- GSE314395 HIF-1–Mediated PPME1 Expression Promotes Breast Cancer Progression via AKT Activation and β-Catenin Recruitment 24 samples shares hif-1, activation
- GSE287281 Chronic stress stimulated HIF-AS3/HIF-1α loop in neoplastic cells and promoted lung cancer progression through macrophage inactivation [A549 and H1299] 12 samples shares hif-1, activation
- GSE275647 Role of Cancer-Associated Fibroblasts in Prognostic Stratification of Advanced-Stage Gastric Cancer through Interacting with Endothelial and Malignant Epithelial Cells [AGC RNA-seq] 216 samples shares cancer-associated, fibroblasts
- GSE303690 Analysis of gene expression profiles in matched cancer-associated and non-tumoral fibroblasts from patients with head and neck squamous cell carcinoma 36 samples shares cancer-associated, fibroblasts
- GSE300983 Identification of GREM-1 and GAS6 as specific biomarkers for cancer-associated fibroblasts derived from patients with non-small cell lung cancer 33 samples shares cancer-associated, fibroblasts
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.