Omics · study · 2026
Detecting Fusion Transcripts in Huh7 cells with Long-Read RNA-seq
Listed in NCBI GEO
This study is a comparison of sequencing technologies and library preparations protocols performed on RNA extracted from Huh-7 cells, a human hepatocellular carcinoma (HCC) cell line, for which a few characteristic fusion transcripts have previously been reported.
Description
The sequencing platforms and library types include Oxford Nanopore Technologies (ONT) MinION direct-cDNA, ONT MinION direct-RNA and ONT MinION PCR-cDNA, PacBio Revio Kinnex sequencing.
Additionally, this study includes matched short-read sequencing data from the Illumina NovaSeq platform.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE348nnn/GSE348087 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE348087 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1532811 ncbi.nlm.nih.gov/bioproject/PRJNA1532811 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 9 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE348087 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| 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[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 |