bioinformatic-basic-practices

Cancer Genomics related

You can search and get to know some background knowledge before starting this practices,

1. Try to understand and explain the following concepts:

• Central Dogma
• Exon
• Intron
• Gene
• Gene expression (it is a relative value or absolute value?)
• SNP
• germline mutation & somatic mutation

2. Explain the principle of high throughput sequencing（like illumina) in your own words.
3. What is the format for fastq file and gtf file?
4. Introduce the TCGA database in your own words.

Do analysis with database and online tools

Part 0: TCGA,cBIoportal,GEPIA2 application

Coding practices

Part I: LINUX pactices & simple project.
Part II: RNA-seq analysis pipeline
Pert III: R + Differential expression analysis basic plots

NOTICES: Part 0 I II III are independent modules, no need to do in turn or complete all practices.