H3ABioNet

Pan African Bioinformatics Network for H3Africa

Covenant University GWAS workshop for complex diseases 2015

Venue of workshop: ICT Building, Covenant University, Ota, Ogun state, Nigeria

Dates for the workshop: 29th June to 1st July, 2015

Workshop organisers:Covenant University Bioinformatics Research Unit

Registration opens: 15th June, 2015

Registration closes: 23rd June, 2015

Notification date: 27th June, 2015

Link to workshop:http://cubre.covenantuniversity.edu.ng/index.php/covenant-university-gwas-workshop-for-complex-diseases-2015/

Participation: Successful applicants will be contacted on how to participate.

Workshop Sponsors:Covenant University Bioinformatics Research Unit

Course Overview: This workshop provides an overview on medical population genetics, PLINK and basic statistics and practicals in order to build a foundational knowledgebase for genome wide association testing. The workshop will consist of a series of theory lectures and a “hands on” practical lab session at the end.

Intended Audience: This workshop is aimed at H3Africa project members who will be involved in the design and analyses of population data and genome wide association testing and will be able to attend from the West African region within a virtual environment.

Syllabus and Tools: Participants will learn about PLINK, Quality Control and association testing.

Prerequisites: Participants are encouraged to work through the following resources to enable them to gain the most from the workshop:
•    http://www.ee.surrey.ac.uk/Teaching/Unix/
•    http://www.r-tutor.com/r-introduction
•    http://onlinestatbook.com/2/introduction/introduction.html
•    http://pngu.mgh.harvard.edu/~purcell/plink/


Objectives: After this workshop participants should be able to:
- Conduct genotype calling and association testing
- Conduct population structure and correct for population structure
- Have a good familiarity with PLINK and conducting whole genome data analysis within PLINK
- Have a good background on the theory behind medical population genetics
- Be able to conduct a variety of population genetics statistical tests

Workshop limitations: This workshop will only provide a foundation for continued learning in GWAS study design and medical population genetics and will not make you an expert in medical population genetics and genome wide association testing and studies.

Registration: All potential applicants should send an email attaching a motivation letter and CV to This email address is being protected from spambots. You need JavaScript enabled to view it. and Cc This email address is being protected from spambots. You need JavaScript enabled to view it. , This email address is being protected from spambots. You need JavaScript enabled to view it. with heading "YOUR NAME + admission-CU-GWAS workshop for complex diseases”. Once being successfully chosen for the workshop, participants will be contacted with details on how to access and attend the workshop.

Workshop Curriculum

Time

Topic

Trainer

29thJune 2015

9:00

Introduction to GWAS/Designing a GWAS (Lecture)

Segun Fatumo

10:30

Tea break

 

11:00

Genotype calling and array QC (Lecture)

Shaun Aron

12:00

Lunch

 

1:00

Genotype calling and array QC (Practical)

Shaun Aron

2:30

Introduction to PLINK (Practical)

Scott Hazelhurst

5:00

Workshop End

 

30thJune 2015

9:00

SNP and Sample QC (Lecture)

Shaun Aron

10:00

Tea Break

 

10:30

SNP and sample QC (Practical)

Shaun Aron

12:30

Lunch

 

1:30

Population Structure (Lecture + Practical)

Scott Hazelhurst

5:00

Workshop End

 

1stJuly 2015

9:00

Association Testing (Lecture)

Segun Fatumo and Victor Osamor

10:30

Tea Break

 

11:00

Imputation (Lecture)

Segun Fatumo

12:00

Lunch

 

1:00

Visualisation and post GWAS analysis (Lecture)

Segun Fatumo

2:00

Fine Mapping (Lecture)

Segun Fatumo

3:00

Complete GWAS practical exercise (Practical)

Shaun Aron

5:00

Workshop End