Omics · study · 2026
Fibroblast-driven transcriptional reprogramming in response to doxorubicin in heterotypic melanoma spheroids
Listed in NCBI GEO
Description
Bulk RNA-sequencing was used to compare the transcriptional response to doxorubicin (DOX) between two multicellular melanoma spheroid models: a baseline model composed of B16.F10 melanoma cells, 2H11 endothelial cells, and bone marrow-derived macrophages (BEM), and a fibroblast-containing counterpart (BEMF) additionally incorporating primary murine dermal fibroblasts. Spheroids of each model were exposed for 48 h to their respective IC30 concentration of doxorubicin (0.56 microM for BEM; 0.79 microM for BEMF) or left untreated as controls, in two independent biological replicates per model/treatment combination.
RNA-seq was performed to identify differentially expressed genes associated with fibroblast-dependent modulation of the doxorubicin response in melanoma spheroids.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE336nnn/GSE336658 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE336658 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1482190 ncbi.nlm.nih.gov/bioproject/PRJNA1482190 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Mus musculus
- From keywords
- Life Sciences
- Inferred from text
- Bioinformatics and computational biology 70% · RNA sequencing 65%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE336658 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3102 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (70%) |
| 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:rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| concepts[organism].NCBITaxon:10090 | 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 |