Omics · study · 2026
Integrated Transcriptomic and Functional Analysis Reveals Selective Cytotoxicity and Oncogene Suppression Induced by Cinnamon Essential Oil in Cervical Cancer Cells
Listed in NCBI GEO
This study aimed to evaluate the effect of cinnamon (Cinnamomum zeylanicum) essential oil (CEO) on cervical cancer cell lines (HeLa and SiHa) and an immortalized human keratinocyte cell line (HaCaT) by analyzing its impact on gene expression modulation.
Description
Total RNA sequencing was performed using the Illumina NovaSeq 6000 platform by Novogene Bioinformatics Technology Co., Ltd. (Beijing, China), with four independent replicates for each cell model.
Bioinformatics analysis was conducted using R (v4.3.1), RStudio (v2023.09.1+494), and the open-source Galaxy platform (usegalaxy.org; accessed on February 5, 2025). Quality control was performed with FastQC (v0.74+galaxy0). Subsequently, reads were processed with the Rsubread package (v2.14.2), trimmed, and aligned to the human reference genome (GRCh38.p14 v46).
Read the rest (3 more)
The resulting BAM files were used for read counting with FeatureCounts (v2.0.3). Differential expression analysis was carried out using the DESeq2 package for R (v1.42.0). Normalization of gene expression was performed using DESeq2’s median-of-ratios method (median ratio of gene counts relative to the geometric mean per gene).
Genes with an adjusted p-value ≤ 0.05 and |Log2FC| ≥ 2 were considered differentially expressed genes (DEGs). Transcriptomic analysis revealed significant upregulation of genes involved in cellular stress responses, DNA damage repair, and protein synthesis. DEGs were enriched in apoptosis, cell cycle regulation, and p53 signaling pathways.
Additionally, CEO treatment led to suppression of genes associated with oxidative phosphorylation and cell cycle progression, with HeLa cells showing the highest sensitivity.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE311nnn/GSE311189 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE311189 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1368772 ncbi.nlm.nih.gov/bioproject/PRJNA1368772 ↗
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%
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE311189 | 15 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[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 |