Omics · study · 2026
An advanced scRNA-seq-compatible lentiviral barcoding system resolves treatment-associated clonal selection and transcriptional states in HNSCC cells
Listed in NCBI GEO
Cancer therapy response is shaped by pre-existing heterogeneity and treatment-associated selection within tumor cell populations.
Description
In this study, we applied a single-cell RNA-seq-compatible lentiviral BC24 barcode system to FaDu hypopharyngeal squamous cell carcinoma cells to link clonal identity with transcriptional cell state during cytotoxic treatment response. Barcoded FaDu cells were profiled by 10x Genomics single-cell RNA sequencing together with targeted recovery of expressed BC24 lineage barcodes from amplified cDNA.
The dataset enables analysis of untreated and treatment-selected FaDu cells, including cisplatin- and irradiation-associated transcriptional remodeling, barcode-defined clonal enrichment, and the relationship between therapy-associated clonal selection and pre-existing epithelial cell states.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE339nnn/GSE339480 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE339480 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1499019 ncbi.nlm.nih.gov/bioproject/PRJNA1499019 ↗
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% · RNA sequencing 75% · Sequencing 75% · Single-cell RNA sequencing 75%
Provenance · 1 source records, 11 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE339480 | 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].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 (75%) |
| concepts[modality].local:modality:sequencing | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (75%) |
| concepts[modality].local:modality:single-cell-rna-seq | 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 |