Excel · study · 2026
RNA-seq of THP1 cells with SRSF10 knockdown
Listed in NCBI GEO
To investigate the downstream transcriptional regulatory network of the RNA-binding protein SRSF10 in acute myeloid leukemia (AML), we performed RNA sequencing (RNA-seq) in THP1 cells following SRSF10 knockdown.
Description
THP1 cells were transduced with lentivirus expressing shRNA targeting SRSF10 (shSRSF10) or a non-targeting control shRNA (shNC). Knockdown efficiency was confirmed by RT-qPCR and Western blot prior to RNA extraction.
Total RNA was isolated from three biological replicates per condition (shNC and shSRSF10), and cDNA libraries were constructed using the NEBNext Ultra RNA Library Prep Kit. Paired-end 150 bp sequencing was performed on an Illumina platform. Raw reads were processed through quality filtering with fastp and aligned to the human reference genome (hg38) using STAR.
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Gene-level quantification was performed with featureCounts, and differentially expressed genes were identified using edgeR with thresholds of |log2FC| > 1 and adjusted P < 0.05. This dataset enables the identification of SRSF10-regulated genes and provides insights into the role of SRSF10 in AML cell survival.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE336nnn/GSE336266 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE336266 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1481196 ncbi.nlm.nih.gov/bioproject/PRJNA1481196 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing · Homo sapiens
- From keywords
- Life Sciences
- Inferred from text
- Genetics 69% · RNA sequencing 75% · Sequencing 75%
Provenance · 1 source records, 10 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE336266 | 13 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].anzsrc:group:3105 | enrichment · NCBI GEO | taxonomy-embedding@1.1.0 | title+keywords+description (69%) |
| 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 |