HIF-1–Mediated PPME1 Expression Promotes Breast Cancer Progression via AKT Activation and β-Catenin Recruitment
RNA-seq (gene expression) · human · 24 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)
- Topic
- Breast cancerThis series is part of our curated briefing on it.
- Samples
- 24 samples: 24 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.
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 GSE314395_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 PRJNA1390809 and SRA study SRP656510. 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 24 sample titles: 24 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.
- GSM9395609 SUM159, shNTC, 20% O2 (biol rep 1)
- GSM9395610 SUM159, shNTC, 20% O2 (biol rep 2)
- GSM9395611 SUM159, shNTC, 20% O2 (biol rep 3)
- GSM9395612 SUM159, shNTC, 1% O2 (biol rep 1)
- GSM9395613 SUM159, shNTC, 1% O2 (biol rep 2)
- GSM9395614 SUM159, shNTC, 1% O2 (biol rep 3)
- GSM9395615 SUM159, shHIF1A, 20% O2 (biol rep 1)
- GSM9395616 SUM159, shHIF1A, 20% O2 (biol rep 2)
- GSM9395617 SUM159, shHIF1A, 20% O2 (biol rep 3)
- GSM9395618 SUM159, shHIF1A, 1% O2 (biol rep 1)
- GSM9395619 SUM159, shHIF1A, 1% O2 (biol rep 2)
- GSM9395620 SUM159, shHIF1A, 1% O2 (biol rep 3)
- GSM9395621 SUM159, shPPME1, 20% O2 (biol rep 1)
- GSM9395622 SUM159, shPPME1, 20% O2 (biol rep 2)
- GSM9395623 SUM159, shPPME1, 20% O2 (biol rep 3)
- GSM9395624 SUM159, shPPME1, 1% O2 (biol rep 1)
- GSM9395625 SUM159, shPPME1, 1% O2 (biol rep 2)
- GSM9395626 SUM159, shPPME1, 1% O2 (biol rep 3)
- GSM9395627 SUM159, shCTNNB1, 20% O2 (biol rep 1)
- GSM9395628 SUM159, shCTNNB1, 20% O2 (biol rep 2)
- GSM9395629 SUM159, shCTNNB1, 20% O2 (biol rep 3)
- GSM9395630 SUM159, shCTNNB1, 1% O2 (biol rep 1)
- GSM9395631 SUM159, shCTNNB1, 1% O2 (biol rep 2)
- GSM9395632 SUM159, shCTNNB1, 1% O2 (biol rep 3)
- GSE104193 Hypoxia-mediated translational activation of ITGB3 in breast cancer cells enhances TGF-β signalling and malignant features in vitro and in vivo 32 samples same disease briefing · shares activation, mediated
- GSE104675 Role for the Transcriptional Activator ZRF1 in Breast Cancer Progression and Endocrine Resistance 6 samples same disease briefing · shares progression
- GSE10885 An integromic analysis reveals that metaplastic carcinomas are distinct from basal-like tumors. 244 samples same disease briefing
- GSE10886 A Supervised Risk Predictor of Breast Cancer Based on Biological Subtypes 226 samples same disease briefing
- GSE11121 The humoral immune system has a key prognostic impact in node-negative breast cancer 200 samples same disease briefing
- GSE269369 LIN28B-mediated activation of the PI3K/AKT pathway promotes metastasis and unravels a new therapeutic vulnerability in colorectal cancer 18 samples shares akt, activation, mediated, promotes
- GSE253091 The Small Extracellular Vesicle-Mediated Intercellular Transformation of CXCR1Low to CXCR1High Tumor Cells Promotes the Progression of Head and Neck Squamous Cell Carcinoma 36 samples shares progression, mediated, promotes
- GSE316851 SETDB1-mediated repression of RhoB promotes EMT and metastatic progression in prostate cancer [RNA-Seq] 9 samples shares progression, mediated, promotes
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.