Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression
Abstract Breast cancer is heterogeneous in prognoses and drug responses. To organize breast cancers by gene expression independent of statistical methodology, we identified the Breast Cancer Consensus Subtypes (BCCS) as the consensus groupings of six different subtyping methods. Our classification s...
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| Format: | Article |
| Language: | English |
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Nature Portfolio
2021-10-01
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| Series: | npj Breast Cancer |
| Online Access: | https://doi.org/10.1038/s41523-021-00345-2 |
| _version_ | 1797427807187369984 |
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| author | Christina Horr Steven A. Buechler |
| author_facet | Christina Horr Steven A. Buechler |
| author_sort | Christina Horr |
| collection | DOAJ |
| description | Abstract Breast cancer is heterogeneous in prognoses and drug responses. To organize breast cancers by gene expression independent of statistical methodology, we identified the Breast Cancer Consensus Subtypes (BCCS) as the consensus groupings of six different subtyping methods. Our classification software identified seven BCCS subtypes in a study cohort of publicly available data (n = 5950) including METABRIC, TCGA-BRCA, and data assayed by Affymetrix arrays. All samples were fresh-frozen from primary tumors. The estrogen receptor-positive (ER+) BCCS subtypes were: PCS1 (18%) good prognosis, stromal infiltration; PCS2 (15%) poor prognosis, highly proliferative; PCS3 (13%) poor prognosis, highly proliferative, activated IFN-gamma signaling, cytotoxic lymphocyte infiltration, high tumor mutation burden; PCS4 (18%) good prognosis, hormone response genes highly expressed. The ER− BCCS subtypes were: NCS1 (11%) basal; NCS2 (10%) elevated androgen response; NCS3 (5%) cytotoxic lymphocyte infiltration; unclassified tumors (9%). HER2+ tumors were heterogeneous with respect to BCCS. |
| first_indexed | 2024-03-09T08:50:11Z |
| format | Article |
| id | doaj.art-a6b44eafb97d4072b68f7600397eea4d |
| institution | Directory Open Access Journal |
| issn | 2374-4677 |
| language | English |
| last_indexed | 2024-03-09T08:50:11Z |
| publishDate | 2021-10-01 |
| publisher | Nature Portfolio |
| record_format | Article |
| series | npj Breast Cancer |
| spelling | doaj.art-a6b44eafb97d4072b68f7600397eea4d2023-12-02T14:39:26ZengNature Portfolionpj Breast Cancer2374-46772021-10-017111310.1038/s41523-021-00345-2Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expressionChristina Horr0Steven A. Buechler1Department of Applied and Computational Mathematics and Statistics, University of Notre DameDepartment of Applied and Computational Mathematics and Statistics, University of Notre DameAbstract Breast cancer is heterogeneous in prognoses and drug responses. To organize breast cancers by gene expression independent of statistical methodology, we identified the Breast Cancer Consensus Subtypes (BCCS) as the consensus groupings of six different subtyping methods. Our classification software identified seven BCCS subtypes in a study cohort of publicly available data (n = 5950) including METABRIC, TCGA-BRCA, and data assayed by Affymetrix arrays. All samples were fresh-frozen from primary tumors. The estrogen receptor-positive (ER+) BCCS subtypes were: PCS1 (18%) good prognosis, stromal infiltration; PCS2 (15%) poor prognosis, highly proliferative; PCS3 (13%) poor prognosis, highly proliferative, activated IFN-gamma signaling, cytotoxic lymphocyte infiltration, high tumor mutation burden; PCS4 (18%) good prognosis, hormone response genes highly expressed. The ER− BCCS subtypes were: NCS1 (11%) basal; NCS2 (10%) elevated androgen response; NCS3 (5%) cytotoxic lymphocyte infiltration; unclassified tumors (9%). HER2+ tumors were heterogeneous with respect to BCCS.https://doi.org/10.1038/s41523-021-00345-2 |
| spellingShingle | Christina Horr Steven A. Buechler Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression npj Breast Cancer |
| title | Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression |
| title_full | Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression |
| title_fullStr | Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression |
| title_full_unstemmed | Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression |
| title_short | Breast Cancer Consensus Subtypes: A system for subtyping breast cancer tumors based on gene expression |
| title_sort | breast cancer consensus subtypes a system for subtyping breast cancer tumors based on gene expression |
| url | https://doi.org/10.1038/s41523-021-00345-2 |
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