Omics · study · 2026
RNAseq of A431 cells with Fungi or Calphostin C treatment
Listed in NCBI GEO
To determine the profile of the gene expression changes of human SCC cell line A431 under the treatment of cladosporides and its metabolite- calphostinC, we conducted the next generation sequencing on mRNA from the cell line after 5h treatment of the fungi and chemical.
Description
Extracted RNA samples were pooled and sequenced on NextSeq using Illumina TruSeq stranded mRNA Library Prep and paired-end sequencing. After analyzing, we performed GSEA analysis and found many DEGs are enriched in JAK/STAT3 pathway and glucose-related metabolic pathways.
Heatmaps are also created based on these pathways. To confirm the signicant alterations under treatments, we also performed real time PCR for several related genes and got the consistent results with the sequencing.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE192nnn/GSE192654 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE192654 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA792570 ncbi.nlm.nih.gov/bioproject/PRJNA792570 ↗
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 70% · RNA sequencing 65% · Sequencing 75%
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE192654 | 11 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3101 | 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[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 |