Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145
Abstract Introduction DU145 and LNCaP are classic prostate cancer cell lines. Characterizing their baseline transcriptomics profiles (without any intervention) can offer insights into baseline genetic features and oncogenic pathways that should be considered while interpreting findings after various...
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| Language: | English |
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BMC
2024-12-01
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| Series: | BMC Research Notes |
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| Online Access: | https://doi.org/10.1186/s13104-024-07050-w |
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| author | Khalid Ahmed Zhannur Omarova Alisalman Sheikh Gulzhan Abuova Kulsoom Ghias Syed Hani Abidi |
| author_facet | Khalid Ahmed Zhannur Omarova Alisalman Sheikh Gulzhan Abuova Kulsoom Ghias Syed Hani Abidi |
| author_sort | Khalid Ahmed |
| collection | DOAJ |
| description | Abstract Introduction DU145 and LNCaP are classic prostate cancer cell lines. Characterizing their baseline transcriptomics profiles (without any intervention) can offer insights into baseline genetic features and oncogenic pathways that should be considered while interpreting findings after various experimental interventions such as exogenous gene transfection or drug treatment. Methods LNCaP and DU145 cell lines were cultured under normal conditions, followed by RNA extraction, cDNA conversion, library preparation, and RNA sequencing using the Illumina NovaSeq platform. The sequences were analyzed to identify differentially expressed genes (DEGs) and for gene ontology (GO) and pathway enrichment. Results A total of 3916 and 2301 genes were found to be differentially upregulated and downregulated between LNCaP and DU145 cell lines, respectively. The GO and pathway analysis of up-regulated DEGs indicated significant enrichment of genes involved in extracellular matrix organization and cell-substrate adhesion, while down-regulated genes are involved in epithelial cell migration, cell death regulation, and cell proliferation. Conclusion The results showed significant differences in baseline gene expression and cellular pathways that may account for the varying metastatic potentials between LNCaP and DU145 cell lines, which should be considered when interpreting findings after experimental interventions. |
| format | Article |
| id | doaj-art-d4ec4a4c8b5c4f5495e9faa9a2a836c2 |
| institution | Kabale University |
| issn | 1756-0500 |
| language | English |
| publishDate | 2024-12-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Research Notes |
| spelling | doaj-art-d4ec4a4c8b5c4f5495e9faa9a2a836c22025-01-05T12:07:37ZengBMCBMC Research Notes1756-05002024-12-011711610.1186/s13104-024-07050-wComparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145Khalid Ahmed0Zhannur Omarova1Alisalman Sheikh2Gulzhan Abuova3Kulsoom Ghias4Syed Hani Abidi5Department of Biological and Biomedical Sciences, Aga Khan UniversityDepartment of Biomedical Sciences, Nazarbayev University School of MedicineDepartment of Biological and Biomedical Sciences, Aga Khan UniversitySouth Kazakhstan Medical AcademyDepartment of Biological and Biomedical Sciences, Aga Khan UniversityDepartment of Biological and Biomedical Sciences, Aga Khan UniversityAbstract Introduction DU145 and LNCaP are classic prostate cancer cell lines. Characterizing their baseline transcriptomics profiles (without any intervention) can offer insights into baseline genetic features and oncogenic pathways that should be considered while interpreting findings after various experimental interventions such as exogenous gene transfection or drug treatment. Methods LNCaP and DU145 cell lines were cultured under normal conditions, followed by RNA extraction, cDNA conversion, library preparation, and RNA sequencing using the Illumina NovaSeq platform. The sequences were analyzed to identify differentially expressed genes (DEGs) and for gene ontology (GO) and pathway enrichment. Results A total of 3916 and 2301 genes were found to be differentially upregulated and downregulated between LNCaP and DU145 cell lines, respectively. The GO and pathway analysis of up-regulated DEGs indicated significant enrichment of genes involved in extracellular matrix organization and cell-substrate adhesion, while down-regulated genes are involved in epithelial cell migration, cell death regulation, and cell proliferation. Conclusion The results showed significant differences in baseline gene expression and cellular pathways that may account for the varying metastatic potentials between LNCaP and DU145 cell lines, which should be considered when interpreting findings after experimental interventions.https://doi.org/10.1186/s13104-024-07050-wProstate cancerLNCaPDU145Cell linesRNASeq |
| spellingShingle | Khalid Ahmed Zhannur Omarova Alisalman Sheikh Gulzhan Abuova Kulsoom Ghias Syed Hani Abidi Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 BMC Research Notes Prostate cancer LNCaP DU145 Cell lines RNASeq |
| title | Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 |
| title_full | Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 |
| title_fullStr | Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 |
| title_full_unstemmed | Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 |
| title_short | Comparison of baseline global gene expression profiles of prostate cancer cell lines LNCaP and DU145 |
| title_sort | comparison of baseline global gene expression profiles of prostate cancer cell lines lncap and du145 |
| topic | Prostate cancer LNCaP DU145 Cell lines RNASeq |
| url | https://doi.org/10.1186/s13104-024-07050-w |
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