Kurskatalog forskarutbildning - VT19

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Titel Analysis of genome wide association data
Kursnummer 2767
Program Epidemiologi
Språk Engelska
Antal högskolepoäng 1.5
Datum 2018-03-08 -- 2018-03-14
Kursansvarig institution Institutet för miljömedicin
Särskild behörighet Knowledge corresponding to Biostatistics I: Introduction for epidemiologists and Epidemiology I: Introduction to epidemiology or equivalent courses.
Kursens syfte The aim is to enable students to independently perform a complete genome wide association study (GWAS) analysis in a computationally effective and statistically correct manner.
Kursens lärandemål After the course the student should be able to execute a standard genome wide association study (GWAS) analysis using various tools (Linux, plink, R, among others). More specific the student should be able to:
- Create directories, move files and perform other standard tasks using Linux-type commands.
- Perform standard quality control procedures and filter data accordingly using plink, define the logic behind each quality assessment and explain why high quality data is essential.
- Perform tests of association and apply multiple testing correction, interpret and discuss the result.
- Investigate the presence of biases, identify reasons for their presence and manage different ways to correct for these.
- Use the language R to read and write files, and to illustrate results from each step of the GWAS analysis.
- Perform secondary analysis and review the results.
Kursens innehåll The course follows a standard GWAS analysis of a real data set of a complex trait, from receiving the data to processed and illustrated association results. During the course the student will use multiple different tools and computer languages.
Arbetsformer The course focuses on active learning and includes introductory lectures, practical hands on analysis of GWAS data sets as well as group discussions.
Obligatoriska moment The individual examination (summative assessment).
Examination To pass the course the student must fulfill the learning outcomes. This will be assessed through a written individual report outlining the commands used and discussing their relevance as well as the achieved results.
Kurslitteratur och övriga läromedel Plink Manual: http://zzz.bwh.harvard.edu/plink/ Scientific articles and introductory material distributed by course teachers.
Antal studenter 8 - 25
Urval av studenter Eligible doctoral students, with required prerequisite knowledge, prioritized according to 1) the relevance of the course syllabus for the applicant's doctoral project (according to written motivation), 2) date for registration as a doctoral student (priority given to earlier registration date). To be considered, submit a completed application form. Give all information requested, including a description of current research and motivation for attending, and an account of previous courses taken.
Övrig information Course dates are March 8, 9, 12, 13 and 14. The individual examination will be performed as a take-home examination.
Ytterligare kursledare
Tidigare omdöme av kursen omdöme
Kursansvarig Boel Brynedal
Institutet för miljömedicin

Kontaktpersoner Johanna Bergman
Institutet för miljömedicin


Nobels väg 13