Translational reprogramming during epithelial-mesenchymal transition is associated with fine-tuning of ribosome composition
RNA-seq (gene expression) · human · 12 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
- 12 samples: 3 × Ribo_mZEB1 vs 3 × Ribo_hMEC1 vs 3 × RNA_mZEB1 vs 3 × RNA_hMEC1Groups 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.
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 GSE246352_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 PRJNA1032593 and SRA study SRP468637. 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 12 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.
- GSM7867555 Ribo_mZEB1.1 Ribo_mZEB1
- GSM7867556 Ribo_mZEB1.2 Ribo_mZEB1
- GSM7867557 Ribo_mZEB1.3 Ribo_mZEB1
- GSM7867558 Ribo_hMEC1.1 Ribo_hMEC1
- GSM7867559 Ribo_hMEC1.2 Ribo_hMEC1
- GSM7867560 Ribo_hMEC1.3 Ribo_hMEC1
- GSM7867561 RNA_mZEB1.1 RNA_mZEB1
- GSM7867562 RNA_mZEB1.2 RNA_mZEB1
- GSM7867563 RNA_mZEB1.3 RNA_mZEB1
- GSM7867564 RNA_hMEC1.1 RNA_hMEC1
- GSM7867565 RNA_hMEC1.2 RNA_hMEC1
- GSM7867566 RNA_hMEC1.3 RNA_hMEC1
- GSE298139 Therapy-resistance in AT/RT is driven by epithelial-mesenchymal transition, extracellular matrix changes, and enrichment of CD1A+ CD207+ dendritic cells [snRNA-seq] 16 samples shares epithelial-mesenchymal, transition
- GSE310281 Translational control by RPL22L1-specific ribosomes enhances DNA repair and chemoresistance 12 samples shares translational, ribosome
- GSE287613 p53 safeguards chemical reprogramming of human somatic cells towards pluripotency. 63 samples shares reprogramming
- GSE244655 Long read subcellular fractionation and sequencing reveals the translational fate of full length mRNA isoforms during neuronal differentiation 40 samples shares translational
- GSE282509 Human eIF2A has a minimal role in translation initiation and in uORFmediated translational control 20 samples shares translational
- GSE277202 Comprehensive Transcriptomic and Translational Profiling of Human Embryonic Stem Cell Differentiation to Definitive Endoderm and Pancreatic Progenitors via RNA-seq and Ribo-seq 14 samples shares translational
- GSE253723 Reverse translational discovery reveals dysregulation of CD4+ and CD8+ resident memory T, myeloid, and stromal cells in steroid-refractory, checkpoint inhibitor colitis 12 samples shares translational
- GSE236366 The tRNA Gm18 Methyltransferase TARBP1 Promotes Hepatocellular Carcinoma Progression via Metabolic Reprogramming of Glutamine [Ribo-seq] 10 samples shares reprogramming
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.