Welcome to the Jielin Yang wiki!

About me

I am a 3rd-year Bioinformatics and Computational Biology Specialist Student, with an additional major in Physiology and a minor in Immunology.

Contact: [email protected]

I enjoy working with multi-omics data relating to human diseases, especially the genetic and epigenetic predisposition of developmental cardiovascular disorders.

Course Journal

To access the journal entries for all the activities documented in this course, please follow the link below, which will direct you to the page of each journal entry.

Section 1: R and Bioinformatics Basics

1.1 Account Setup

1.2 R Basics

1.3 Bioinformatics Basics

1.4 Homework - Building Docker Image from BCB420 Base Image

Section 2: Gene Expression Dataset Selection and Initial Processing

2.1 Gene Expression Dataset Selection

2.2 Assignment 1 - Data cleaning and identifier mapping

Section 3: Differential Gene Expression Analysis

3.1 Homework - Annotation Sources

3.2 Homework - G Profiler

3.3 Assignment 2 - Differential Gene Expression Analysis and Preliminary ORA

Section 4: Gene Set Enrichment Analysis

4.1 Homework - GSEA

4.2 Assignment 3 - Gene Set Enrichment and Network Analysis

Insights!

Standardization in bioinformatics data deposition

Standardization of Gene and Gene Product Nomenclature

Should I remove PCR duplication for RNA seq analysis

Gene Set Enrichment - What defines a gene set

Community Detection of Functional Enrichment Networks

From enrichment map to gene regulatory network

Assignments

Assignment 1 R Notebook

Assignment 1 HTML Report

Assignment 2 R Notebook

Assignment 2 HTML Report

Assignment 3 R Notebook

Assignment 3 HTML Report