Omics · study · 2026
Bulk RNA-seq of HCT116 colorectal cancer 3D spheroids treated with 5-fluorouracil or olaparib
Listed in NCBI GEO
This study accompanies an adapted Cell Painting assay applied to 3D colorectal cancer spheroids (BioStudies S-BIAD2254).
Description
To relate image-based morphological profiles to transcriptional responses, bulk 3'-end RNA-seq was performed on HCT116 spheroids grown in ultra-low attachment 384-well plates and treated for 48 h with 5-fluorouracil (10 uM), olaparib (3 uM), or 0.1% DMSO vehicle. Gene-level differential expression and Hallmark pathway enrichment were used to characterise the drug-induced transcriptional programs underlying the observed morphological phenotypes.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE343nnn/GSE343958 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE343958 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1514004 ncbi.nlm.nih.gov/bioproject/PRJNA1514004 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Biochemistry and cell biology 69% · Cancer 75% · RNA sequencing 65%
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE343958 | 14 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[field].anzsrc:group:3101 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (69%) |
| 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: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 |