A consensus molecular subtypes classification strategy for clinical colorectal cancer tissues
RNA-seq (gene expression) · human · 104 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
- 104 samples
- 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
- A consensus molecular subtypes classification strategy for clinical colorectal cancer tissuesLife science alliance · 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 GSE267010_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 PRJNA1109343 and SRA study SRP506532. Searching any of these in the dataset finder brings you back here.
The grouping that defines any comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Sample titles run PREDICATE_1 … PREDICATE_104 and carry no group information.
- GSM8258194 PREDICATE_1
- GSM8258195 PREDICATE_2
- GSM8258196 PREDICATE_3
- GSM8258197 PREDICATE_4
- GSM8258198 PREDICATE_5
- GSM8258199 PREDICATE_6
- GSM8258200 PREDICATE_7
- GSM8258201 PREDICATE_8
- GSM8258202 PREDICATE_9
- GSM8258203 PREDICATE_10
- GSM8258204 PREDICATE_11
- GSM8258205 PREDICATE_12
- GSM8258206 PREDICATE_13
- GSM8258207 PREDICATE_14
- GSM8258208 PREDICATE_15
- GSM8258209 PREDICATE_16
- GSM8258210 PREDICATE_17
- GSM8258211 PREDICATE_18
- GSM8258212 PREDICATE_19
- GSM8258213 PREDICATE_20
- GSM8258214 PREDICATE_21
- GSM8258215 PREDICATE_22
- GSM8258216 PREDICATE_23
- GSM8258217 PREDICATE_24
- GSM8258218 PREDICATE_25
- GSM8258219 PREDICATE_26
- GSM8258220 PREDICATE_27
- GSM8258221 PREDICATE_28
- GSM8258222 PREDICATE_29
- GSM8258223 PREDICATE_30
- GSM8258224 PREDICATE_31
- GSM8258225 PREDICATE_32
- GSM8258226 PREDICATE_33
- GSM8258227 PREDICATE_34
- GSM8258228 PREDICATE_35
- GSM8258229 PREDICATE_36
- GSM8258230 PREDICATE_37
- GSM8258231 PREDICATE_38
- GSM8258232 PREDICATE_39
- GSM8258233 PREDICATE_40
+ 64 more — browse all 104 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 · shares colorectal
- GSE12032 Inherent gene signature of stage II and III colorectal cancer leads in individual recurrence 198 samples same disease briefing · shares colorectal
- GSE110009 Single cell transcriptome landscape of primary and metastatic tumor in colon cancer 76 samples same disease briefing
- GSE109308 Single-cell transcriptomic survey of adenomatous polyposis patients with germline APC mutations 97 samples same disease briefing
- GSE225002 Consensus molecular classification of triple-negative breast cancers 48 samples shares classification, consensus
- GSE275628 TAS-102, Irinotecan, and Bevacizumab in Pre-treated Metastatic Colorectal Cancer (TABAsCO), A Phase II Clinical Trial. ClinicalTrials.gov NCT04109924 34 samples shares colorectal, clinical
- GSE225182 Gene expression profiling study to identify distinct subtypes in Peritoneal metastasis of colorectal cancer 33 samples shares colorectal, subtypes
- GSE62254 Molecular analysis of gastric cancer identifies discrete subtypes associated with distinct clinical characteristics and survival outcomes: the ACRG (Asian Cancer Research Group) study [gastric tumors] 300 samples shares subtypes, clinical
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.