Molecular analysis of TCGA breast cancer histologic types

• Main Authors: Aatish Thennavan (Author), Francisco Beca (Author), Youli Xia (Author), Susana Garcia-Recio (Author), Kimberly Allison (Author), Laura C. Collins (Author), Gary M. Tse (Author), Yunn-Yi Chen (Author), Stuart J. Schnitt (Author), Katherine A. Hoadley (Author), Andrew Beck (Author), Charles M. Perou (Author)
• Format: Book
• Published: Elsevier, 2021-12-01T00:00:00Z.
• Subjects: article
• Online Access: Connect to this object online.

Summary

Summary: Breast cancer is classified into multiple distinct histologic types, and many of the rarer types have limited characterization. Here, we extend The Cancer Genome Atlas Breast Cancer (TCGA-BRCA) dataset with additional histologic type annotations in a total of 1,063 breast cancers. We analyze this extended dataset to define transcriptomic and genomic profiles of six rare, special histologic types: cribriform, micropapillary, mucinous, papillary, metaplastic, and invasive carcinoma with medullary pattern. We show the broader applicability of our constructed special histologic type gene signatures in the TCGA Pan-Cancer Atlas dataset with a predictive model that detects mucinous histologic type across cancers of other organ systems. Using a normal mammary cell differentiation score analysis, we order histologic types into a continuum from stem cell-like to luminal progenitor-like to mature luminal-like. Finally, we classify TCGA-BRCA into 12 consensus groups based on integrated genomic and histological features. We present a rich, openly accessible resource of genomic, molecular, and histologic characterization of TCGA-BRCA to enable studies across the range of breast cancers.

Item Description

2666-979X
10.1016/j.xgen.2021.100067