2020 Schedule

June 8-12, 2020

Please familiarize yourself with the programs we will be using in this course. Tutorials are below.

Here is a link to a video explaining how to connect to the IGB biocluster using mac terminal instead of PuTTy for mac users.

The 2020 course is virtual. Classes are held from 8:30 AM to 5:00 PM (central time).

8:30 – 10:30AM 10:45AM – 12:15PM 12:15 – 1:15PM 1:15 – 3:15PM 3:30 – 5:00PM
06/08
Mon
Statistics (lecture + lab) 
Dave Zhao

pdf    script

SetupVM_UIUC

Setup_VM_Mayo

Lab set-up
UNIX  Lab
pptx       pdf
 

Lunch Break

 

Genome Assembly
Chris Fields

pdf

Genome Assembly Lab

pptx       pdf

06/09
Tue
Variant Calling
Chris Fields

pptx    pdf

Variant Calling Lab
pptx      pdf
Lunch Break RNA-Seq & Transcriptome Analysis
Jessica Holmes

pptx      pdf

RNA-Seq Lab

pptx   pdf

06/10
Wed
Epigenomics
Saurabh Sinhapptx      pdf
Epigenomics Lab
pptx      pdf    
Lunch Break Regulatory Genomics
Saurabh Sinhapptx      pdf
Regulatory
Genomics Lab
pptx   pdf
06/11
Thu
Introduction to Systems Biology I
Charles Blattipptx      pdf
Systems Biology
Lab I
pptx      pdf
Lunch Break Introduction to Systems Biology II
Charles Blatti

pptx  pdf

Systems Biology
Lab II
pptx      pdf
06/12
Fri
Polymorphisms & Association Tests
Matt Hudson

pptx    pdf

Polymorphisms & Association Tests  Lab
pptx      pdf
Lunch Break Cancer Informatics
Krishna Rani Kalari
(Mayo Clinic)

pptx    pdf

Bioinformatics of DNA methylation
Garrett Jenkinson
(Mayo Clinic)

pptx      pdf

15-minute breaks will be given daily at 10:30 AM and 3:15 PM between the lectures and computer labs.

Lab Exercises Data

 


Pre-Course Tutorials

Please spend some time familiarizing yourself with the programs we will be using in the course.

RStudio: http://tryr.codeschool.com/ ; http://www.r-tutor.com/r-introduction
Linux/Unix (Tutorial One and Tutorial Two): http://www.ee.surrey.ac.uk/Teaching/Unix/
KnowEnG: https://knoweng.org/analyze/

https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3000583