Postgraduate Course: Linkage and Association in Genome Analysis (PGBI11086)
|School||School of Biological Sciences
||College||College of Science and Engineering
||Availability||Available to all students
|Credit level (Normal year taken)||SCQF Level 11 (Postgraduate)
|Home subject area||Postgraduate
||Other subject area||None
||Taught in Gaelic?||No
|Course description||This 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.
Information for Visiting Students
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
|Course Start Date
|Breakdown of Learning and Teaching activities (Further Info)
Lecture Hours 36,
Supervised Practical/Workshop/Studio Hours 24,
Programme Level Learning and Teaching Hours 4,
Directed Learning and Independent Learning Hours
|Breakdown of Assessment Methods (Further Info)
|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.
|Two in-course assessments (data analysis reports) (each 20%), two class tests (problem solving and essay) (each 30%).|
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
|Course organiser||Dr Sara Knott
Tel: (0131 6)50 5444
|Course secretary||Mrs Jennifer Morris
Tel: (0131 6)50 5513
© Copyright 2013 The University of Edinburgh - 13 January 2014 4:48 am