About this Course

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Learner Career Outcomes

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started a new career after completing these courses

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got a tangible career benefit from this course

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Shareable Certificate
Earn a Certificate upon completion
100% online
Start instantly and learn at your own schedule.
Flexible deadlines
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Approx. 14 hours to complete
English
Subtitles: English

Learner Career Outcomes

67%

started a new career after completing these courses

60%

got a tangible career benefit from this course

25%

got a pay increase or promotion
Shareable Certificate
Earn a Certificate upon completion
100% online
Start instantly and learn at your own schedule.
Flexible deadlines
Reset deadlines in accordance to your schedule.
Approx. 14 hours to complete
English
Subtitles: English

Offered by

Technical University of Denmark (DTU) logo

Technical University of Denmark (DTU)

Syllabus - What you will learn from this course

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Week
1

Week 1

3 hours to complete

From sampling to sequencing

3 hours to complete
10 videos (Total 112 min), 13 readings, 2 quizzes
10 videos
Introduction to metagenomics10m
Considerations and controls for metagenomic/microbiome projects10m
Introduction to antimicrobial resistance11m
Sampling for surveillance18m
Sampling at farms and slaughterhouses14m
Sample storage2m
Isolation of DNA from complex samples10m
Sample processing for viral metagenomics7m
Sequencing platforms12m
13 readings
Glossary20m
Get started !5m
Introduction to metagenomics2m
Considerations and controls for metagenomic/microbiome projects2m
Introduction to antimicrobial resistance2m
Sampling for surveillance5m
Sampling at farms and slaughterhouses2m
Sample storage2m
Isolation of DNA from complex samples2m
Notes on library preparation5m
Sequencing platforms10m
Assessment case-study - part 15m
Assessment case study - part 22m
2 practice exercises
Module 1 assessment - part 18m
Module 1 assessment - part 212m
Week
2

Week 2

3 hours to complete

FROM READS TO RESULTS

3 hours to complete
6 videos (Total 64 min), 11 readings, 1 quiz
6 videos
Overview of available metagenomic analysis tools7m
MGmapper13m
ResFinder database5m
Demo of metagenomic classification using KRAKEN16m
Real example of metagenomic analysis - lessons learned14m
11 readings
General introduction to bioinformatics analysis of metagenomics data5m
Overview of available metagenomic analysis tools10m
MGmapper10m
MGmapper - Best mode vs Full mode10m
ResFinder database3m
Assessment case-study - part 310m
Samples sheet10m
Report A - FastQC results10m
Report B - MGmapper results10m
Report C - KRAKEN results10m
Report D10m
1 practice exercise
Module 2 assessment24m
Week
3

Week 3

8 hours to complete

Interpretation of results and potential of metagenomics for surveillance

8 hours to complete
6 videos (Total 81 min), 16 readings, 6 quizzes
6 videos
Metagenomic assembly and binning: reconstructing genomes from reads15m
Application of metagenomics in surveillance - methods (part 1)10m
Application of metagenomics in surveillance - methods (part 2)16m
Application of metagenomics in surveillance - opportunities and challenges21m
Farewell3m
16 readings
Virtual Machine setup1h
Analysis and visualization of read count data10m
Metagenomic assembly and binning: reconstructing genomes from reads10m
Application of metagenomics in surveillance - methods10m
Potential of metagenomics for surveillance10m
Challenges of metagenomics for surveillance10m
Assessment case-study - part 45m
Report D10m
Epidemiology sheet and Report E10m
Introduction5m
Final quiz - section I - Sampling10m
Final quiz - section II - Quality control30m
Final quiz - section III - Bioinformatics analysis of metagenomics30m
Final quiz - section IV - Interpretation of metagenomics results10m
Final quiz - section V - Final quiz - section V - Analysis of metagenomics results in a surveillance context10m
Extra material for final assessment10m
6 practice exercises
Module 3 assessment10m
Final quiz - section I - Sampling18m
Final quiz - section II - Quality control30m
Final quiz - section III - Bioinformatics analysis of metagenomics30m
Final quiz - section IV - Interpretation of metagenomics results30m
Final quiz - section V - Analysis of metagenomics results in a surveillance context30m

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