Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (plasma_cancer)
RNA-seq (gene expression) · human · 156 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
- Colorectal cancerThis series is part of our curated briefing on it.
- Samples
- 156 samples: 34 conditions, mostly in triplicateGroups 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 GSE259422_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 PRJNA1081457 and SRA study SRP492161. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 114 samples.
How we read this: 34 replicated groups read from 156 sample titles; they account for 114 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.
- GSM8115934 P1-1
- GSM8115935 P2-1
- GSM8115936 P3-1
- GSM8115937 P4-1
- GSM8115938 P5-1
- GSM8115939 P6-1
- GSM8115940 P7-1
- GSM8115941 P8-1
- GSM8115942 P9-1
- GSM8115943 P10-1
- GSM8115944 P11-1
- GSM8115945 P12-1
- GSM8115946 P13-1
- GSM8115947 P14-1
- GSM8115948 P15-1
- GSM8115949 P16-1
- GSM8115950 P17-1
- GSM8115951 P18-1
- GSM8115952 P19-1
- GSM8115953 P20-1
- GSM8115954 P21-1
- GSM8115955 P22-1
- GSM8115956 P23-1
- GSM8115957 P24-1
- GSM8115958 P25-1
- GSM8115959 P26-1
- GSM8115960 P27-1
- GSM8115961 P28-1
- GSM8115962 P29-1
- GSM8115963 P30-1
- GSM8115964 P31-1
- GSM8115965 P32-1
- GSM8115966 P33-1
- GSM8115967 P34-1
- GSM8115968 P35-1
- GSM8115969 P36-1
- GSM8115970 P37-1
- GSM8115971 P38-1
- GSM8115972 P39-1
- GSM8115973 P40-1
+ 116 more — browse all 156 samples with per-sample file links →
- GSE250000 Bulk RNA-sequencing of transduced colorectal cancer cell line HCT-116 and breast cancer cell line MCF-7 overexpressing full-lenght p53β or p53β-stop-lost. 4 samples same disease briefing
- GSE12032 Inherent gene signature of stage II and III colorectal cancer leads in individual recurrence 198 samples same disease briefing
- GSE109308 Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations 97 samples same disease briefing
- GSE110009 Single cell transcriptome landscape of primary and metastatic tumor in colon cancer 76 samples same disease briefing
- 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
- 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
- GSE255773 Transcriptomic Profiling of Plasma Extracellular Vesicles Enables Reliable Annotation of the Cancer-specific Transcriptome and Molecular Subtype (cell lines) 20 samples shares cancer-specific, extracellular, annotation, vesicles, reliable, enables, subtype, 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.