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DEGREE REGULATIONS & PROGRAMMES OF STUDY 2013/2014
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DRPS : Course Catalogue : School of Biological Sciences : Postgraduate

Postgraduate Course: Linkage and Association in Genome Analysis (PGBI11086)

Course Outline
SchoolSchool of Biological Sciences CollegeCollege of Science and Engineering
Course typeStandard AvailabilityAvailable to all students
Credit level (Normal year taken)SCQF Level 11 (Postgraduate) Credits20
Home subject areaPostgraduate Other subject areaNone
Course website None Taught in Gaelic?No
Course descriptionThis course builds on Population and Quantitative Genetics (in PGBI11001) and Statistics and Data Analysis (PGBI11003). It introduces the analytical approaches of linkage and association to dissect genetic variation and identify causative loci.
Entry Requirements (not applicable to Visiting Students)
Pre-requisites Students MUST have passed: Population and Quantitative Genetics (PGBI11001)
Co-requisites
Prohibited Combinations Other requirements None
Additional Costs None
Information for Visiting Students
Pre-requisitesPGBI11001
Recommended PGBI11003 and PGBI11085
Displayed in Visiting Students Prospectus?No
Course Delivery Information
Delivery period: 2013/14 Semester 2, Available to all students (SV1) Learn enabled:  Yes Quota:  None
Web Timetable Web Timetable
Course Start Date 13/01/2014
Breakdown of Learning and Teaching activities (Further Info) Total Hours: 200 ( Lecture Hours 36, Supervised Practical/Workshop/Studio Hours 24, Programme Level Learning and Teaching Hours 4, Directed Learning and Independent Learning Hours 136 )
Additional Notes
Breakdown of Assessment Methods (Further Info) Written Exam 60 %, Coursework 40 %, Practical Exam 0 %
No Exam Information
Summary of Intended Learning Outcomes
On successfully completing the course, students will have an understanding of the analytical approaches of linkage and association for the dissection of genetic variation of complex traits and the identification of causative loci. They will be aware of the potential shortfalls of these techniques and be able to identify the most appropriate analyses for particular problems. They will be familiar with current practices in genome analysis for complex trait dissection and have skills required to implement them.
Assessment Information
Two in-course assessments (data analysis reports) (each 20%), two class tests (problem solving and essay) (each 30%).
Special Arrangements
None
Additional Information
Academic description Not entered
Syllabus Session Topic
1 Introduction to molecular markers: genotype calling, quality control
2 Linkage: testing for linkage, estimating recombination fraction, development of genetic maps
3 Basic concepts of QTL mapping in inbred line crosses
4 Extensions to outbred crosses and multiple QTL
5 Significance and precision: issues and the use of sampling methods.
6 Predicting power to detect QTL
7+8 QTL mapping in complex pedigrees
9 Linkage disequilibrium including patterns in natural populations
10 Introduction to association in quantitative traits
11 Basic issues in association: significance, estimation, validation, stratification
12 Stratification: Identification and analytical approaches to avoid problems
13+14 Case-control studies: odds and risk ratios, generalised linear models.
15 Use of multiple markers: haplotypes, regional estimates
16 Imputation: use of reference population data to infer additional genotypes
17 Potential causes of $ýmissing heritability&©: how likely and routes to discovery, considering rare variants, GxG, GxE, CNV, epigenetics
18 Meta analysis: combining data across many studies.
19 Post analysis investigation of results: gene identification, gene set enrichment, functional consequences.
20 Future developments: next generation sequencing
Transferable skills Not entered
Reading list Not entered
Study Abroad Not entered
Study Pattern Not entered
KeywordsLAGA
Contacts
Course organiserDr Sara Knott
Tel: (0131 6)50 5444
Email: s.knott@ed.ac.uk
Course secretaryMrs Jennifer Morris
Tel: (0131 6)50 5513
Email: jennie.morris@ed.ac.uk
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