Novel syngeneic cell lines for studying high-risk BRAFV600E-driven colorectal cancer in vivo [RNA-seq_organoids]
RNA-seq (gene expression) · mouse · 28 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
- Mus musculus (mouse)
- Samples
- 28 samples: 14 conditions, mostly in duplicateGroups 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
- Novel Syngeneic Cell Lines for Studying High-Risk BRAFV600E-Driven Colorectal Cancer In VivoCancer research communications · 2026
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 GSE296999_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 PRJNA1262340 and SRA study SRP584857. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 28 samples.
How we read this: 14 replicated groups read from 28 sample titles; they account for 28 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.
- GSM8981375 Col288_Ctrl1 Col288_Ctrl
- GSM8981376 Col290_Ctrl1 Col290_Ctrl
- GSM8981377 Col313_Ctrl1 Col313_Ctrl
- GSM8981378 Col291_Ctrl1 Col291_Ctrl
- GSM8981379 Col286_Ctrl1 Col286_Ctrl
- GSM8981380 Col287_Ctrl1 Col287_Ctrl
- GSM8981381 Col312_Ctrl1 Col312_Ctrl
- GSM8981382 Col288_4HT1 Col288_4HT
- GSM8981383 Col290_4HT1 Col290_4HT
- GSM8981384 Col313_4HT1 Col313_4HT
- GSM8981385 Col291_4HT Col291_4HT
- GSM8981386 Col286_4HT1 Col286_4HT
- GSM8981387 Col287_4HT1 Col287_4HT
- GSM8981388 Col312_4HT1 Col312_4HT
- GSM8981389 Col288_Ctrl2 Col288_Ctrl
- GSM8981390 Col290_Ctrl2 Col290_Ctrl
- GSM8981391 Col313_Ctrl2 Col313_Ctrl
- GSM8981392 Col291_Ctrl2 Col291_Ctrl
- GSM8981393 Col286_Ctrl2 Col286_Ctrl
- GSM8981394 Col287_Ctrl2 Col287_Ctrl
- GSM8981395 Col312_Ctrl2 Col312_Ctrl
- GSM8981396 Col288_4HT2 Col288_4HT
- GSM8981397 Col290_4HT2 Col290_4HT
- GSM8981398 Col313_4HT2 Col313_4HT
- GSM8981399 Col291_4HT2 Col291_4HT
- GSM8981400 Col286_4HT2 Col286_4HT
- GSM8981401 Col287_4HT2 Col287_4HT
- GSM8981402 Col312_4HT2 Col312_4HT
- GSE296998 Novel syngeneic cell lines for studying high-risk BRAFV600E-driven colorectal cancer in vivo [RNA-seq_NaJa] 34 samples shares brafv600e-driven, colorectal, syngeneic, high-risk, studying, rna-seq, lines
- GSE218339 Gene expression profile at single cell level of murine colon organoids harbouring colorectal cancer-associated driver mutations [scRNA-seq] 9 samples shares colorectal, organoids, rna-seq
- GSE281579 Gene expression profiling using RNA-Seq data of 12 mouse syngeneic tumor models treated with lenvatinib 107 samples shares syngeneic, rna-seq
- GSE265782 Somatic muscle engineering faithfully recapitulates a molecular spectrum of high-risk sarcomas [RNA-Seq] 81 samples shares high-risk, rna-seq
- GSE225104 RNA-Seq of gut of colorectal cancer mice fed black rice and control diets 38 samples shares colorectal, rna-seq
- GSE231802 IL-1R signaling drives enteric glia-macrophage interaction in colorectal cancer progression [bulkRNA-Seq] 36 samples shares colorectal, rna-seq
- GSE303692 A plastic EMP1⁺ to LGR5⁺ cell state conversion as a therapeutic bypass to KRAS-G12D inhibition in metastatic colorectal cancer [RNA-Seq] 24 samples shares colorectal, rna-seq
- GSE284264 Spatial genomics reveals cholesterol metabolism as a key factor in immunotherapy resistance in colorectal cancer [bulk RNA-seq] 16 samples shares colorectal, rna-seq
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.