Omics · study · 2026
Patient-derived Colorectal Cancer Organoids Enable Functional Prioritization of Molecular Tumor Board-Recommended Therapies
Listed in NCBI GEO
Patient-derived tumor organoids are clinically relevant ex vivo models that preserve key molecular and functional characteristics of the original tumor.
Description
The Freeze-O Organoid Biobank at the University Medical Center Freiburg is an integrated and translational platform to support Molecular Tumor Board-guided precision oncology by facilitating functional PDTO-based drug test. Informing personalized treatment strategies is often limited by the availability, quality, and quantity of patient-derived material.
A major challenge is to provide clinically actionable information in time to inform treatment decisions, in particular for patients with metastatic disease. Here, we demonstrate rapid PDTO establishment from a lung metastasis of a patient with metastatic colorectal cancer. This enabled patient-specific drug tests and whole exome sequencing, which had not been feasible from the initial patient material.
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Using these PDTOs, we screened ten clinically relevant drugs, mainly targeting the ERK pathway based on the identified KRASG12V mutation. Single, combination, and long-term treatment assays revealed a patient-specific treatment rationale for vertical EGFR/HER-MEK1/2 inhibition using Lapatinib and Trametinib. These findings were presented to the Molecular Tumor Board; however, the patient succumbed to the severity of metastatic colorectal cancer.
Earlier and routine integration of organoid-based drug testing into MTB processes could help identify personalized treatment strategies more efficiently. In particular, patients with severe metastatic cancer should be enrolled early enough to provide decisive information in a clinically actionable time frame.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE343nnn/GSE343714 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE343714 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1512433 ncbi.nlm.nih.gov/bioproject/PRJNA1512433 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Cancer 75% · Disease 75% · Sequencing 75%
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE343714 | 13 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[disease].local:disease:cancer | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[disease].local:disease:disease | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[organism].NCBITaxon:9606 | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /taxon |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |