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MB5522: ADVANCED BIOINFORMATICS AND GENOME SEQUENCING (2021-2022)

Last modified: 31 May 2022 13:05


Course Overview

An exciting course that brings a student right up to date with bioinformatics, genome assembly and annotation technology. You, the student, will analyse the genome of an unknown bacterium from the environment. The genome of this isolate has been extracted and whole genome sequenced. You will then assemble your own bacterial genome and functionally annotate it, taught by expert bioinformaticians from our Centre for Genome-Enabled Biology and Medicine. Your analysis will enable you to identify the species you have isolated, its metabolic and environmental responses, growth constraints and regulation, cell surface markers and antibiotic resistance, producing a full inventory of genes and their presumptive functions. Overall, the course prepares a student for future employment in a biosciences workplace, where genome sequencing and annotation is becoming an everyday tool of modern biotechnology.

Course Details

Study Type Postgraduate Level 5
Session Second Sub Session Credit Points 15 credits (7.5 ECTS credits)
Campus Aberdeen Sustained Study No
Co-ordinators
  • Dr E Collie-duguid

What courses & programmes must have been taken before this course?

  • Either () or Master Of Science In Industrial Biotechnology
  • Any Postgraduate Programme

What other courses must be taken with this course?

None.

What courses cannot be taken with this course?

None.

Are there a limited number of places available?

No

Course Description

This course will take students through the exciting and challenging process of analysing the sequence of a bacterial genome from an environmental isolate. The course will teach students how to quality filter and trim raw sequencing data, assemble a genome, quality control the output, annotate genes, and carry out functional gene analysis using modern bioinformatics, to produce an assembled genome and full inventory of the genes of a novel bacterial isolate. This course will develop your knowledge and skills in bioinformatics analysis of genomic data, and you will learn how to use scripting via the command line and the Galaxy interface.


Details, including assessment, may be subject to change until 31 July 2022 for 1st half-session courses and 23 December 2022 for 2nd half-session courses.

Contact Teaching Time

Information on contact teaching time is available from the course guide.

Teaching Breakdown

  • 1 Computer Practical during University weeks 27 - 31, 33
  • 2 Computer Practicals during University week32
  • 1 Seminar during University week27
  • 1 Tutorial during University weeks 26, 34

More Information about Week Numbers


Details, including assessment, may be subject to change until 31 July 2022 for 1st half-session courses and 23 December 2022 for 2nd half-session courses.

Summative Assessments

Class Test

Assessment Type Summative Weighting 15
Assessment Weeks 34 Feedback Weeks 39

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Feedback

1 hour exam. Feedback per question with marking.

Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Report: Individual

Assessment Type Summative Weighting 60
Assessment Weeks 35 Feedback Weeks 38

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Feedback

Feedback per question with marking.

Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Course Blog

Assessment Type Summative Weighting 5
Assessment Weeks 27,28,29,30,31,32,33 Feedback Weeks 27,28,29,30,31,32,33

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Feedback

Tutor answers to questions and feedback to comments, as relevant.

Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Computer Programming Exercise

Assessment Type Summative Weighting 20
Assessment Weeks 32 Feedback Weeks 35

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Feedback

1.5 hour exam. Feedback per question with marking.

Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Formative Assessment

Class Test - Multiple Choice Questions

Assessment Type Formative Weighting
Assessment Weeks 27,28,30,32 Feedback Weeks 27,29,31,32

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Feedback

MCQs on genome assembly process, outputs, and caveats. Marking and feedback during tutorial.

Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Resit Assessments

Viva

Assessment Type Summative Weighting
Assessment Weeks Feedback Weeks

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Feedback
Learning Outcomes
Knowledge LevelThinking SkillOutcome
Sorry, we don't have this information available just now. Please check the course guide on MyAberdeen or with the Course Coordinator

Course Learning Outcomes

Knowledge LevelThinking SkillOutcome
ConceptualAnalyseExplain the underlying principles of the tools used and analyse your outputs to determine the validity and limitations of the approach and/ or data.
ProceduralApplyDevelop skills in Unix and the command line within a HPC infrastructure.
ConceptualEvaluateCritically evaluate your findings in the context of the field of microbial genomics and the global health challenge of antimicrobial drug resistance.
ConceptualEvaluateDemonstrate knowledge by explaining and critically appraising through written presentation appropriate to specialists in the field of genomics.
ProceduralCreateApply and enhance these informatics skills to perform analysis of a genomics dataset (next generation sequencing data) using bioinformatics software to assemble a bacterial genome and identify ARGs.

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