Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (cell lines)
RNA-seq (gene expression) · human · 20 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
- 20 samples: 20 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
- Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-Specific Transcriptome and Molecular SubtypeCancer research · 2024
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 GSE255773_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 PRJNA1076501 and SRA study SRP489719. 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 20 sample titles: 20 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.
- GSM8079829 LOVO_cRNA
- GSM8079830 LOVO_exRNA
- GSM8079831 COLO201_cRNA
- GSM8079832 COLO201_exRNA
- GSM8079833 LS1034_cRNA
- GSM8079834 LS1034_exRNA
- GSM8079835 SNUC1_cRNA
- GSM8079836 SNUC1_exRNA
- GSM8079837 HT29_cRNA
- GSM8079838 HT29_exRNA
- GSM8079839 LS513_cRNA
- GSM8079840 LS513_exRNA
- GSM8079841 WiDr_cRNA
- GSM8079842 WiDr_exRNA
- GSM8079843 HCT116_cRNA
- GSM8079844 HCT116_exRNA
- GSM8079845 LS123_cRNA
- GSM8079846 LS123_exRNA
- GSM8079847 SW480_cRNA
- GSM8079848 SW480_exRNA
- GSE255775 Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype 319 samples shares cancer-specific, extracellular, annotation, vesicles, reliable, enables, subtype, plasma
- GSE259422 Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (plasma_cancer) 156 samples shares cancer-specific, extracellular, annotation, vesicles, reliable, enables, subtype, plasma
- GSE260560 Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (plasma_healthy) 70 samples shares cancer-specific, extracellular, annotation, vesicles, reliable, enables, subtype, plasma
- GSE256268 Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (tumor tissues) 42 samples shares cancer-specific, extracellular, annotation, vesicles, reliable, enables, subtype, plasma
- GSE242856 The RNA content of plasma-derived extracellular vesicles in cerebral malaria 84 samples shares extracellular, vesicles, plasma
- GSE302138 Role of plasma extracellular vesicles in lung cancer pre-metastatic niche formation 35 samples shares extracellular, vesicles, plasma
- GSE255087 Transcriptomic analysis of plasma extracellular vesicles from patients with ischemic stroke of different etiologies undergoing mechanical thrombectomy 21 samples shares extracellular, vesicles, plasma
- GSE294455 Sphingolipids in extracellular vesicles released from the skeletal muscle plasma membrane control muscle stem cell fate during muscle regeneration 10 samples shares extracellular, vesicles, plasma
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.