RNA-Seq analysis of tumor and matched normal samples from colorectal cancer patients.
RNA-seq (gene expression) · human · 73 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
- 73 samples: 71 distinct titles, 2 of them repeatedGroups 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
- Identification of immunogenic neoantigens from intron retention in colorectal cancerScientific reports · 2026
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 GSE292858_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 PRJNA1241760 and SRA study SRP572980. Searching any of these in the dataset finder brings you back here.
How we read this: Read from 73 sample titles: 71 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.
- GSM8867505 CV020_N
- GSM8867506 CV021_N
- GSM8867507 CV023_N
- GSM8867508 CV025_N
- GSM8867509 CV026_N
- GSM8867510 CV028_N
- GSM8867511 CV030_N
- GSM8867512 CV031_N
- GSM8867513 CV033_N
- GSM8867514 CV034N
- GSM8867515 CV036N
- GSM8867516 CV038N
- GSM8867517 CV039N
- GSM8867518 CV041N
- GSM8867519 CV042N
- GSM8867520 CV044N
- GSM8867521 CV045N
- GSM8867522 CV050N
- GSM8867523 CV051N
- GSM8867524 CV40_N
- GSM8867525 CV020_T
- GSM8867526 CV021_T
- GSM8867527 CV023_T
- GSM8867528 CV025_T
- GSM8867529 CV026_T
- GSM8867530 CV028_T
- GSM8867531 CV030_T
- GSM8867532 CV031_T
- GSM8867533 CV033_T
- GSM8867534 CV034T
- GSM8867535 CV036T
- GSM8867536 CV038T
- GSM8867537 CV039T
- GSM8867538 CV041T
- GSM8867539 CV042T
- GSM8867540 CV044T
- GSM8867541 CV045T
- GSM8867542 CV050T
- GSM8867543 CV051T
- GSM8867544 CV40_T
+ 33 more — browse all 73 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, rna-seq
- 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
- GSE294300 Single-cell gene expression profiles of cells from primary colorectal cancer and adjacent normal tissue [scRNA-Seq] 36 samples shares colorectal, rna-seq, normal
- GSE315534 Single-cell RNA sequencing of primary colorectal cancer, matched adjacent normal tissues, and paired liver metastases 15 samples shares colorectal, matched, normal
- GSE308103 Single-nucleus RNA-sequencing (snRNA-seq) analysis of normal lung tissues, precursor lung lesions and invasive lung adenocarcinomas 75 samples shares rna-seq, normal
- GSE294559 Single-cell multi-omics characterize colorectal tumors, adjacent healthy tissue and matched organoids identifying CRC-unique features 72 samples shares colorectal, matched
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.