Bioinformatics Seminars

Current Bioinformatics Seminar

Time: 11AM Tuesdays.
Venue: Davis Auditorium and Online

18 June 2024

This is a WEHI only event.

Exploring mammary gland developmental stages and breast cancer heterogeneity using single-cell technologies

Jinming Cheng
WEHI Bioinformatics

Breast cancer is the most common cancer and the leading cause of cancer mortality in women worldwide. Clinical classification distinguishes invasive breast cancer into ER+, HER2+ and triple-negative breast cancer (TNBC). Histological classification distinguishes invasive breast cancer into two major types: invasive ductal carcinoma (IDC) and invasive lobular carcinoma (ILC). IDC is the most common type of invasive breast cancer comprising 60-75%, and ILC is the second most common type comprising 10-15% and is mostly ER+. Exploring the heterogeneity of breast cancer tumor cells as well as the stromal and immune microenvironment is a key step to understand breast cancer genesis and development mechanisms. Single-cell RNA sequencing (scRNA-seq) technologies have been rapidly developed and widely used to investigate cell type composition and identify new cell populations. Spatial transcriptomics adds an additional spatial information layer to scRNA-seq, enabling the investigation of interactions between tumor and its microenvironment. During his PhD, Jinming focused on investigating breast cancer development and heterogeneity using scRNA-seq and spatial transcriptomics. In this talk, he will present three projects: (1) comparing human lobular cancer and ER+ ductal cancer using scRNA-seq, (2) exploring mouse mammary gland fibroblast development using scRNA-seq, and (3) comparing different cell type annotation methods for imaging-based spatial transcriptomics data of HER2+ breast cancer. In addition, he developed an R package called scTernary and a pseudotime-course workflow that have been applied to the scRNA-seq data analysis of breast cancer and normal mammary gland.


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