E-GEOD-42735
Ontology highlight
ABSTRACT:
OTHER RELATED OMICS DATASETS IN: PRJNA182963
PROVIDER: E-GEOD-42735 | ExpressionAtlas | 2025-01-24
REPOSITORIES: ExpressionAtlas
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| E-GEOD-42735-analysis-methods.tsv | Tabular | |||
| E-GEOD-42735-analytics.tsv | Tabular | |||
| E-GEOD-42735-analytics.tsv.undecorated | Tabular | |||
| E-GEOD-42735-analytics.tsv.undecorated.unrounded | Tabular | |||
| E-GEOD-42735-analytics.tsv.unrounded | Tabular |
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Project description:Purpose: Assess the transcriptional changes induced upon RAB7 knock-down in melanoma (SK-Mel-28 and UACC-62) and in colon cancer (HCT-116) cell lines. Methods: mRNA profiles of tumor cell lines (SK-Mel-28, UACC-62, HCT-116) stably expressing scrambled shRNA or RAB7 shRNA (harvested at day 3 after lentiviral infection) were generated by deep sequencing, using three biological replicates per condition. The sequence reads that passed quality filters were analyzed with TopHat and Cufflinks. Validation of induced / silenced genes was performed by western blot. Results show a differential impact of RAB7 expression in the transcriptomic profile of melanoma vs non-melanoma cell lines, and support a lineage-specific role of this small GTPase in melanoma. Examination of the mRNA profiles RAB7-depleted vs wild type cells, performed in parallel in 3 different tumor cell lines (Melanomas: SK-Mel-28 and UACC-62, Non-melanoma: HCT-116) harvested at day 3 after lentiviral infection.
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