Day 5. Unified Analytical Group Projects
On the final day of this bootcamp, we will group up with the other members of our table and embark on a joint effort to take what we have learned this past week and use it to explore a large-scale biological data set in a collaborative fashion. We will make use of the publicly available digital expression matrix from single-cell RNA-seq of ~2,700 periphral blood mononuclear cells (PBMCs) produced by 10x genomics. We will explore, pre-process, summarize, and visualize the dataset and perform basic statistical analysis to identify cell-type-specific genes.
Typically, a research project can take a very long time to generate the data and analyze the results. For the purposes of this bootcamp, we will be using a small subset of these data and will attempt to recreate the published results over these regions. Our goal is to give you a taste of what types of data exploration are now available to you with the simple yet powerful biocomputing tools you have learned and to serve as a foundation for your future research endeavors.
Schedule:
| Session | Time | Topics |
|---|---|---|
| I | 9:00-10:15 AM | Introduction to scRNA-seq and Overview of Project |
| 10:15-10:30 AM | Coffee Break | |
| II | 10:30-12:00 AM | Analysis of scRNA-seq dataset with python |
| 12:00-1:00 PM | Lunch | |
| III | 1:00-2:15 PM | Analysis of scRNA-seq dataset with R |
| 2:15-2:30 PM | Coffee Break | |
| IV | 2:30-4:00 PM | Group Presentations and Discussion |
Instructors:
Hyun Min Kang (HMK) Hui Jiang (HJ)
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Data Sets:
- scRNA-seq data for 2,700 PBMCs