Genomics students carrying out research in the lab

Quality control, imputation and analysis of genome-wide data

Key information


Enquiries:
gcdshort.courses@imperial.ac.uk

Duration:
Five days, 2-6 July 2018

Location:
Hammersmith Campus, London, UK

Course fee:
See 'course fees' section - several variations available

Course leader:
Inga Prokopenko

Apply for this course [download]Tentative timetable 2018 [download]

Applications are now open for our 2018 course - the closing date for applications will be when all places are taken. 25 places are available in total.


The course will enable human geneticists to analyse their large-scale genetic data using standard analytical approaches and freely available software tools. The course will cover statistical background for association studies; a primer on scripting in the most frequently used computational environments, design and analysis of such studies, interpretation of the results. Each topic will be covered by a lecture, followed by a practical exercise, which will include the use of the state-of-art software tools and example datasets.

At the end of the course, participants will be able to undertake quality control, imputation and analysis of genome-wide data using standard statistical approaches and software tools. Meta-analysis of genome-wide association studies and analysis of rare variants will also be among their skills. They will be able to evaluate critically the results of association analysis and visualise them. They will know the requirements to the study design and findings for publications in peer-reviewed journals.


Audience

Geneticists facing the need to analyse from small to large-scale human genotyping data in relation to their effect on common human traits and diseases. Scientists and students in training aiming to undertake SNP-based association analyses, genome-wide association studies and their meta-analyses. Researchers willing to understand better the statistical approaches and analytical procedures for the genetic association studies.


Applicants’ background

Applicants should understand basic genetic principles such as modes of inheritance, DNA and gene structure, SNPs and other genetic variants, principles of crossing over and recombination, concepts of heritability and penetrance. Additionally, knowledge of basic statistical tests and some command line scripting skills would be an advantage.


Course content

This course will enable you to analyse large-scale genetic data using standard analytical approaches and freely available software tools. The course will cover statistical background for association studies; primer on scripting in the most frequently used computational environments, design and analysis of such studies, interpretation of the results. Each topic will be covered by a lecture, followed by a practical exercise, which will include use of the state-of-art software tools and example datasets. Practical exercises will be tailored to illustrate the ideas discussed during lectures and will be accompanied by discussion of the results.
 
Topics covered:

  • Introduction to statistics for geneticists
  • Introduction to Linux and R
  • Genome-wise association studies (GWAS)
  • Quality Control (QC) for GWAS
  • Association analysis
  • Population structure
  • Imputation of GWAS
  • Meta-analysis of GWAS
  • Analysis of rare variants
  • Genetic risk scores
  • Mendelian randomization

Three guest lectures will be given by renowned scientists in the field of human genetics.

There will be no need to bring yout own laptop or data. Computers will be available at the venue; datasets will be designed and provided for each analytical exercise.


Applications

Applications and all accompanying documentation should be submitted to the Course Administrator using email: gcdshort.courses@imperial.ac.uk

Application documents:

  • Application form
  • A curriculum vitae (résumé) in English, including work and research experience
  • A letter of motivation in English (max. 500 words)
  • A signed letter of recommendation from a supervisor

Course fees

Depending on whether you are an academic or non-academic, and whether or not you wish to be provided with accommodation, the rate you pay will be as per the table below.

Early-bird rates (with discount) are available to those who book and make full payment before 25 May 2018. Thereafter, standard rates will apply.

 AcademicNon-academic
Early-bird (with accommodation) £750 £1,150
Early-bird (without accommodation) £650 £1,050
Standard rate (with accommodation) £850 £1,250
Standard rate (without accommodation) £750 £1,150
Information correct at time of publishing, but subject to change.
  • Payment information will be provided to applicants after their registration has been verified.
  • Please note a cancellation fee may be required if the attendee changes their mind - see terms and conditions in the Application form and terms and conditions (Word).

Accommodation

Accommodation will be at Beit Hall, South Kensington, and the course venue will be at the Imperial College Hammersmith campus.

Beit Hall, located within the Beit Quadrangle, is one of Imperial’s most historic buildings. The hall is named after benefactor and member of the College Governing Body, Otto Beit, who funded its construction in the early-1900s.

Also situated within the Quadrangle is the Imperial College Union, and due to this fact, Beit Hall is a lively place to stay.


ESHG Scholarships

A limited number of European Society of Human Genetics (ESHG) scholarships are available for young scientists in training from European countries. Preference will be given to ESHG members and researchers from ESHG-specified countries which are disadvantaged economically (see a full list of qualifying countries) although scholarships are not limited these groups. Scholarships will cover the full attendance fee only- beneficiaries would still need to pay for their own travel and subsistence needs.

Closing date for scholarship applications - 1 May 2018.


Organising Committee