Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC
Objective: Triple-negative breast cancer (TNBC), which has no expression of estrogen receptor, progesterone receptor and HER2, is an aggressive subgroup. Molecular differences between TNBC and non-TNBC should be better understood to develop tailored treatment strategies. Materials and Methods: The e...
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Istanbul University Press
2024-05-01
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| Series: | European Journal of Biology |
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| Online Access: | https://cdn.istanbul.edu.tr/file/JTA6CLJ8T5/2FFB617552FC44E6B8B4E53D0E5F8BEF |
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| _version_ | 1850281611401101312 |
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| author | Çağlar Berkel |
| author_facet | Çağlar Berkel |
| author_sort | Çağlar Berkel |
| collection | DOAJ |
| description | Objective: Triple-negative breast cancer (TNBC), which has no expression of estrogen receptor, progesterone receptor and HER2, is an aggressive subgroup. Molecular differences between TNBC and non-TNBC should be better understood to develop tailored treatment strategies. Materials and Methods: The expression of the most frequently mutated genes, and of genes for which copy number variation events are observed in the highest percentage of breast cancer patients, was compared between TNBC and non-TNBC samples, in R programming environment, using TCGA-BRCA transcriptomics dataset. Results: 70% of the most frequently mutated genes in breast cancer (CDH1, GATA3, MLL3 (KMT2C), MAP3K1, PTEN, NCOR1, FAT3, MAP2K4, NF1, ARID1A, LRP1B, RUNX1, MLL2 (KMT2D) and TBX3) was found to have decreased expression in TNBC compared to non-TNBC. The expression of 40% of the genes with the highest frequency of copy number gain events in breast cancer (SLC45A3, PTPRC, ELF3, FCGR2B, AKT3, FH, TPM3 and SETDB1) was increased in TNBC compared with non-TNBC. The half of the genes with the highest percentage of copy number loss events in breast cancer (CBFA2T3, CDH1, ZFHX3, CDH11, MAP2K4, GAS7, PER1, RABEP1, NCOR1 and PCM1) was observed to have decreased expression in TNBC compared to non-TNBC. Lastly, the expression of BRCA2, but not of BRCA1, was found to be higher in TNBC than in non-TNBC. Conclusion: This study provides further evidence in support of previous research, which show the presence of a large number of molecular differences between TNBC and non-TNBC, pointing to the need for more tailored treatment strategies for patients with TNBC. |
| format | Article |
| id | doaj-art-a7c2d4f3207c49d390d77579ec55fafe |
| institution | OA Journals |
| issn | 2618-6144 |
| language | English |
| publishDate | 2024-05-01 |
| publisher | Istanbul University Press |
| record_format | Article |
| series | European Journal of Biology |
| spelling | doaj-art-a7c2d4f3207c49d390d77579ec55fafe2025-08-20T01:48:15ZengIstanbul University PressEuropean Journal of Biology2618-61442024-05-01831192710.26650/EurJBiol.2024.1362117123456Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBCÇağlar Berkel0https://orcid.org/0000-0003-4787-5157Tokat Gaziosmanpaşa Üniversitesi, Tokat, TurkiyeObjective: Triple-negative breast cancer (TNBC), which has no expression of estrogen receptor, progesterone receptor and HER2, is an aggressive subgroup. Molecular differences between TNBC and non-TNBC should be better understood to develop tailored treatment strategies. Materials and Methods: The expression of the most frequently mutated genes, and of genes for which copy number variation events are observed in the highest percentage of breast cancer patients, was compared between TNBC and non-TNBC samples, in R programming environment, using TCGA-BRCA transcriptomics dataset. Results: 70% of the most frequently mutated genes in breast cancer (CDH1, GATA3, MLL3 (KMT2C), MAP3K1, PTEN, NCOR1, FAT3, MAP2K4, NF1, ARID1A, LRP1B, RUNX1, MLL2 (KMT2D) and TBX3) was found to have decreased expression in TNBC compared to non-TNBC. The expression of 40% of the genes with the highest frequency of copy number gain events in breast cancer (SLC45A3, PTPRC, ELF3, FCGR2B, AKT3, FH, TPM3 and SETDB1) was increased in TNBC compared with non-TNBC. The half of the genes with the highest percentage of copy number loss events in breast cancer (CBFA2T3, CDH1, ZFHX3, CDH11, MAP2K4, GAS7, PER1, RABEP1, NCOR1 and PCM1) was observed to have decreased expression in TNBC compared to non-TNBC. Lastly, the expression of BRCA2, but not of BRCA1, was found to be higher in TNBC than in non-TNBC. Conclusion: This study provides further evidence in support of previous research, which show the presence of a large number of molecular differences between TNBC and non-TNBC, pointing to the need for more tailored treatment strategies for patients with TNBC.https://cdn.istanbul.edu.tr/file/JTA6CLJ8T5/2FFB617552FC44E6B8B4E53D0E5F8BEFbreast cancerestrogen receptorprogesterone receptorher2copy number variationtranscriptomicstriplenegative breast cancer |
| spellingShingle | Çağlar Berkel Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC European Journal of Biology breast cancer estrogen receptor progesterone receptor her2 copy number variation transcriptomics triplenegative breast cancer |
| title | Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC |
| title_full | Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC |
| title_fullStr | Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC |
| title_full_unstemmed | Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC |
| title_short | Retrospective Analysis of Transcriptomic Differences between Triple-Negative Breast Cancer (TNBC) and non-TNBC |
| title_sort | retrospective analysis of transcriptomic differences between triple negative breast cancer tnbc and non tnbc |
| topic | breast cancer estrogen receptor progesterone receptor her2 copy number variation transcriptomics triplenegative breast cancer |
| url | https://cdn.istanbul.edu.tr/file/JTA6CLJ8T5/2FFB617552FC44E6B8B4E53D0E5F8BEF |
| work_keys_str_mv | AT caglarberkel retrospectiveanalysisoftranscriptomicdifferencesbetweentriplenegativebreastcancertnbcandnontnbc |