MSc Genomic Medicine / Course details
Year of entry: 2024
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Course unit details:
Pharmacogenomics and Stratified Healthcare
|Unit level||FHEQ level 7 – master's degree or fourth year of an integrated master's degree|
|Teaching period(s)||Semester 1|
|Available as a free choice unit?||Yes|
Pharmacogenomics and Stratified Healthcare
Pharmacogenomics (PGx) is defined by the Food and Drug Administration (FDA) as: "The study of variations of DNA and RNA characteristics as related to drug response". PGx is utilised in two main areas:
(a) To inform the drug development process and
(b) To help inform personalised prescribing and/or the stratification of patients into sub-groups
In both cases, PGx focuses on the predictive outcome of drug interventions. This may involve the utilisation of companion diagnostics (CDx) alongside drug therapeutic treatment. A typical CDx might be a molecular assay that, for instance, measures specific mutations to stratify sub-populations, select appropriate medication or tailor dosages to a patient's specific needs.
PGx has the potential to change healthcare significantly, since differences between patients' response to treatment can be partially explained by their genotype (pharmacokinetic, pharmacodynamic, and immunological genetic variability). Using PGx data alongside other clinical information can be used to develop individualised or stratified healthcare for patients. It may also contribute towards a more effective and safer use of drugs, potentially decreasing costs, resulting from drug toxicity and lack of efficacy, by identifying patients most likely to respond positively to a particular drug at a particular dose.
1. Genomic basis of drug response including: drug mechanisms of action, drug effectiveness and drug toxicity, including: pharmacokinetics, pharmacodynamics and immune hypersensitivity responses, discussing ethnic differences and how these are/might be applied in prescribing practice.
2. Use of genomic information, for targeted drug development with particular emphasis on the genes encoding metabolic enzymes, drug transporters and drug receptors and drug:drug interactions
3. Companion diagnostics and NHS service delivery models
4. Different types and examples of genomic-targeted intervention (examples of genomically-targeted clinical, therapeutic or lifestyle choices)
5. Genomic biomarkers and genetic polymorphisms leading to inter-individual variability in drug response: SNPs, short sequence repeats, haplotypes, DNA epigenetic modifications, e.g. methylation, deletions or insertions, copy number variants, RNA expression levels, RNA splicing, microRNA levels
6. Use of biomarkers and genetic testing in treatments other than cancer
This module aims to provide the student with the in-depth knowledge, understanding and analytical skills to consider the current and emerging research and application of pharmacogenomics and stratified healthcare to ensure a personalised healthcare approach for patients.
By the end of the course the student should be able to:
1. Discuss and evaluate the mechanism of several examples of genomically-determined differential drug responses, and adverse drug reactions
2. Appraise the strategies and analytical approaches for stratifying patients for optimal drug response or to avoid adverse drug reactions; including an awareness of ethnic differences, and how these translate into the design and utilisation of 'companion diagnostics
3. Identify and analyse the challenges and limitations of pharmacogenetic studies
4. Identify and evaluate the different types of current and emerging biomarkers used in personalised medicine
5. Discuss and critically evaluate how genomic information can enable development and utilisation of drug targeted for particular genotypes; including a consideration of pharmacoeconomics
6. Identify the ethical, legal and social issues (ELSI) that could accompany patient stratification for healthcare advice or intervention and discuss the use of patient stratification to improve the diagnosis and treatment of disease.
Teaching and learning methods
Prior to teaching
Preliminary reading and self-directed study materials will be sent out to all students approximately 2 weeks before the course. This is to ensure that prospective students have sufficient familiarity with the scientific background to this study area and to ensure that they will be able to benefit, fully, from the teaching delivered during the 3 day course.
During the 3 day face to face "in house" course
A series of 10 - 15 interactive lectures covering the key themes and concepts. Morning lectures will be followed by group and team-based learning (TBL) activities to consolidate and further discuss the key content.
Afternoons will be hands-on workshops, where students will work individually, in pairs or in small inter-professional groups (IPE). During the workshops they will learn to use, critically evaluate and apply the knowledge gained in the lectures and group sessions and report back (verbally) to the rest of the class on their findings.
After the course
Assignments will be submitted, via Turnitin, to check for plagiarism, and will be marked within 3 weeks. Students will receive individualized feedback.
E-learning/Blended learning delivered via Blackbaord
Evidence-based learning supported by course notes, reading lists, audio lectures/podcasts, case studies and online tutorials/webinars
Knowledge and understanding
1. List the factors influencing the inter-individual variability in patient response to medication e.g. age, gender, pathology, concomitant medication, lifestyle, adherence
2. Define the terms pharmacogenomics and pharmacogenetics (PGx)
3. Define the terms single nucleotide polymorphism (SNP), haplotype and allelic variant 4. Describe the contribution of large scale Genome Sequencing Projects and genome wide association studies to our understanding of inter-individual pharmacogenetic variability
5. Describe the impact of PGx on the drug development process
6. Use of PGx in informing clinical trial design
7. Define drug response (efficacy, toxicity and therapeutic window)
8. Describe the pharmaco-economic importance of Adverse Drug Reactions (ADRs) 9. Define adverse drug reaction - how can one be sure it is due to the drug, listing examples -scoring cases, use of Yellow cards and role of MHRA
10. Understand those aspects of drug response (pharmacokinetics, pharmacodynamics and immunological hypersensitivity) where pharmacogenetic variability can lead to ADRs
11. Give examples of metabolic enzymes (especially CYP450s), transporters and receptors which have clinically- significant genetic polymorphisms
12. Know where to find information on inherited variants which affect patient response to drugs e.g. abacavir-sensitivity, TPMT deficiency, DPD deficiency
13. List examples of specific medications and associated pharmacogenetic tests 14. Briefly, describe the methodology of pharmacogenetic testing
15. List some of the Ethical, Legal and Social Issues (ELSI) surrounding PGx testing 16. List some of the possible patient benefits and limitations (e.g. ethnic variability) of personalized medicine, time to testing, incomplete relationship
17. List some of the barriers to implementing PGx testing into clinical practice e.g. HCP education and pharmacoeconomics
18. Describe named examples of drugs, diseases and genes implicated in the areas of oncology, neuropsychiatry and cardiovascular medicine ? where PGx is either already influencing practice or likely to influence practice in the near future.
19. Describe what is meant by "Point of care" testing and "Direct to consumer" testing 20. The use of multiplex tests e.g Amplichip, introduction of whole genome sequencing technologies
21. Describe companion studies and the development of companion diagnostics
- Critically evaluate a wide range of information to assist with clinical judgements and decision making.
- Interpret data and convert into knowledge for use, in a clinical setting, by healthcare colleagues, individual patients and groups of patients
1. Identify and be able to use appropriate online databases and personalised prescribing tools
2. Know where to find information on pharmacogenetic polymorphisms (SNP, ClinVar, Ensembl)
3. Know where to find information on genetically-inherited disorders affecting drug response (OMIM)
4. Know where to find information on pharmacogenetic tests (GTR)
5. Know where to find information on drugs where PGx may be an issue (PharmGKB) 6. Know where to find information on PGx dosing guidelines (CPIC)
7. Work in partnership with NHS colleagues and other professionals (within an interdisciplinary team) to advise patients and their carers and to optimise patient care. 8. Present information clearly in the form of written reports.
9. Interpret evidence from a range of online resources and integrate this into the sum of patient information for the interpretation and implementation of pharmacogenetic test results for patients.
Transferable skills and personal qualities
- Actively seek accurate and validated information from a wide range of available sources.
- Communicate effectively by presenting complex ideas in simple language in both oral and written formats.
- Self-direct their learning and reflect upon that learning, identifying areas for further improvement.
|Written assignment (inc essay)||50%|
Personalised verbal and written feedback.
New Clinical Genetics, Second Edition, by Andrew Read and Dian Donnai Rang & Dale's Pharmacology 8th Edition
Authors: James Ritter Rod Flower Graeme Henderson Humphrey Rang Attia J, Ioannidis JP, Thakkinstian A, McEvoy M, Scott RJ, Minelli C, Thompson J, Infante Rivard C, Guyatt G. How to use an article about genetic association: A: Background concepts. JAMA. 2009 Jan 7;301(1):74-81. doi: 10.1001/jama.2008.901. Erratum in: JAMA. 2009 Mar 11;301(10):1024
Relling MV, Evans WE. Pharmacogenomics in the clinic. Nature. 2015 Oct 15;526(7573): 343-50. doi: 10.1038/nature15817. PMID: 26469045
Collins SL, Carr DF, Pirmohamed M. Advances in the Pharmacogenomics of Adverse Drug Reactions. Drug Saf. 2016 Jan;39(1):15-27.PMID: 26650062
Sim SC, Kacevska M, Ingelman-Sundberg M. Pharmacogenomics of drug-metabolizing enzymes: a recent update on clinical implications and endogenous effects. Pharmacogenomics J. 2013 Feb;13(1):1-11. PMID: 23089672
Yiannakopoulou ECh. Pharmacogenomics of phase II metabolizing enzymes and drug transporters: clinical implications. Pharmacogenomics J. 2013 Apr;13(2):105-9. PMID: 23044602
|Independent study hours|
|William Newman||Unit coordinator|