Omics · study · 2026
RNAseq analysis for transcriptomes of decitabine (DAC) treated myeloid malignant cell line THP-1 expressing p53 wild-type, THP-1 native cells and THP-1 DAC-resistant cells.
Listed in NCBI GEO
To globally evaluate transcriptome treated by decitabine (DAC) in THP-1 cells expressing wild type p53, cells were treated with DMSO or DAC for 2 days. mRNA was isolated and then subject to deep sequencing, using Illumina Novaseq 6000.
Description
The sequence reads that passed quality filters were analyzed using htseq. The expressions had been validated using qRT–PCR using SYBR Green assays.
Results and conclusions: Global transcriptional change of THP-1 expressing wild type p53 treated with 5 μM DAC was analyzed. Protein interaction network and Enrichment assay was analyzed with the 332 upregulated genes (Gfold ≥0.4, (RPKM+1 fold change > 1.5). To globally evaluate transcriptome treated by DAC in THP-1 native cells and THP-1 DAC-resistant cells, cells were treated with DMSO or DAC for 6 days. mRNA was isolated and then subject to deep sequencing, using Illumina Novaseq 6000.
Read the rest (2 more)
The sequence reads that passed quality filters were analyzed using htseq. The expressions had been validated using qRT–PCR using SYBR Green assays. Results and conclusions: Global transcriptional change of THP-1 native cells or THP-1 DAC-resistant cells treated with 1 μM DAC was analyzed.
GSEA analysis reveal that Interferon alpha response was enriched in THP-1 native cells
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE184nnn/GSE184005 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE184005 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA762692 ncbi.nlm.nih.gov/bioproject/PRJNA762692 ↗
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 | GSE184005 | 12 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 |