Bioinformatics Seminars

Bioinformatics Seminar

Time: 10:45am Tuesdays.
Venue:
Level 7 Seminar Room 2, WEHI1

7 August 2018

Actual location : Davis Auditorium

Integrated analysis of 10X Genomics scRNA-seq profiles across multiple patients

Yunshun Chen
WEHI Bioinformatics

Single-cell RNA sequencing (scRNA-seq) has become a widely used technique that allows researchers to profile the gene expression and study molecular biology at the cellular level. It provides biological resolution that cannot be achieved with conventional bulk RNA-seq experiments on cell populations. Of all the existing platforms the 10X Genomics Chromium system has become the most popular and commonly used one. Each run of 10X generates millions of UMI counts across thousands of cells. Large scRNA-seq projects usually involve generating 10X profiles across multiple samples and conditions. In the first part of my talk, I will discuss the existing popular approaches for analysing 10X data, including the methods in quality control, dimensionality reduction, clustering and integration. In the second part, I will present a comprehensive study of the human breast tissue using 10X Genomics scRNA-seq profiles. I will demonstrate how we combine different methods and strategies to integrate and analyze 10X profiles across multiple patients.


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