1. MOESM1 of Immune gene expression profiling reveals heterogeneity in luminal breast tumors
- Author
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Zhu, Bin, Tse, Lap, Difei Wang, Koka, Hela, Tongwu Zhang, Abubakar, Mustapha, Lee, Priscilla, Wang, Feng, Wu, Cherry, Koon Tsang, Wing-Cheong Chan, Sze Law, Mengjie Li, Wentao Li, Suyang Wu, Zhiguang Liu, Bixia Huang, Zhang, Han, Tang, Eric, Zhengyan Kan, Soohyeon Lee, Park, Yeon, Nam, Seok, Mingyi Wang, Xuezheng Sun, Jones, Kristine, Hutchinson, Amy, Belynda Hicks, Prokunina-Olsson, Ludmila, Jianxin Shi, Garcia-Closas, Montserrat, Chanock, Stephen, and Xiaohong Yang
- Subjects
bacteria ,chemical and pharmacologic phenomena ,biochemical phenomena, metabolism, and nutrition - Abstract
Additional file 1: Figure S1. Schematic representation of the strategy for the quantification of TILs in H&E stained images. Figure S2. Expression levels of immune-related genes in the three luminal immune subtypes and non-luminal (HER2-enriched and basal-like) tumors in HKBC. Figure S3. MCP-counter scores and CIBERSORT relative fractions of a subset of immune cell subpopulations in the three luminal immune subtypes and non-luminal (HER2-enriched and basal-like, separately) tumors in HKBC. Figure S4. MCP-counter scores of eight immune cell subpopulations in the three luminal immune subtypes and non-luminal (HER2-enriched and basal-like) tumors with the adjustment of tumor purity in HKBC. Figure S5. Replication of luminal immune subtypes in TCGA and KBC datasets: a) MCP-counter scores for eight immune cell subpopulations; b) Relative fractions of immune cell subpopulations by CIBERSORT (cell populations with extremely low fractions were not shown); c) High-TIL tumors showed upregulation of genes in immune activation and regulation activities than tumors in the other two luminal immune subtypes; d) High-ISG tumors expressed higher levels of ISG genes than tumors in the other two luminal immune subtypes. Figure S6. Genomic features associated with luminal immune subtypes in HKBC (HER2-enriched and basal-like, separately): a) ESR1/ESR2 ratios; b) number of mutations. Figure S7. Replication of genomic features associated with luminal immune subtypes in TCGA and KBC datasets: a) ESR1/ESR2 ratios; b) age at diagnosis; c) 10-year overall survival. Figure S8. Expression of APOBEC3B in normal and tumor tissue in relation to the polymorphic germline APOBEC3B deletion represented by rs12628403-C allele in HKBC. Figure S9. MCP-counter scores of eight immune cell subpopulations in adjacent normal breast tissue in the three luminal immune subgroups and non-luminal (HER2-enriched and basal-like) patients of HKBC.
- Published
- 2019
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