课程信息
4.6
164 ratings
40 reviews
This course will cover the topic of Whole genome sequencing (WGS) of bacterial genomes which is becoming more and more relevant for the medical sector. WGS technology and applications are high on international political agenda, as the classical methods are being replaced by WGS technology and therefore bioinformatic tools are extremely important for allowing the people working in this sector to be able to analyze the data and obtain results that can be interpreted and used for different purposes. The course will give the learners a basis to understand and be acquainted with WGS applications in surveillance of bacteria including species identification, typing and characterization of antimicrobial resistance and virulence traits as well as plasmid characterization. It will also give the opportunity to learners to learn about online tools and what they can be used for through demonstrations on how to use some of these tools and exercises to be solved by learners with use of freely available WGS analysis tools . By the end of this course you should be able to: 1. Describe the general Principles in typing of Bacteria 2. Give examples of the applications of Whole Genome Sequencing to Surveillance of bacterial pathogens and antimicrobial resistance 3. Apply genomic tools for sub-typing and surveillance 4. Define the concept of Next-Generation Sequencing and describe the sequencing data from NGS 5. Describe how to do de novo assembly from raw reads to contigs 6. Enumerate the methods behind the tools for species identification, MLST typing and resistance gene detection 7. Apply the tools for species identification, MLST typing and resistance gene detection in real cases of other bacterial and pathogen genomes. 8. Describe the methods behind the tools for Salmonella and E.coli typing, plasmid replicon detection and plasmid typing 9. Utilize the tools for Salmonella and E.coli typing, plasmid replicon detection and plasmid typing in real cases of other bacterial and pathogen genomes. 10. Explain the concept and be able to use the integrated bacterial analysis pipeline for batch analysis and typing of genomic data 11. Demonstrate how to construct phylogenetic tree based on SNPs 12. Apply the phylogenetic tool to construct phylogenetic trees and explain the relatedness of bacterial or pathogen strains 13. Describe how to create your own sequence database 14. Utilize the MyDbFinder tool to detect genetic markers of interest from whole genome sequencing...
Globe

100% 在线课程

立即开始,按照自己的计划学习。
Calendar

可灵活调整截止日期

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Beginner Level

初级

Clock

建议:This course will run over 5 weeks, 2-3 hours a week

完成时间大约为10 小时
Comment Dots

English

字幕:English

您将获得的技能

NucleotideAntimicrobialGenomeMicrobiology
Globe

100% 在线课程

立即开始,按照自己的计划学习。
Calendar

可灵活调整截止日期

根据您的日程表重置截止日期。
Beginner Level

初级

Clock

建议:This course will run over 5 weeks, 2-3 hours a week

完成时间大约为10 小时
Comment Dots

English

字幕:English

教学大纲 - 您将从这门课程中学到什么

1

章节
Clock
完成时间为 1 小时

Module 1

Welcome and introduction to typing of bacteria and use of Whole genome sequencing applied to surveillance of bacterial pathogens and antimicrobial resistance...
Reading
3 个视频(共 32 分钟), 1 个测验
Video3 个视频
General Principles of typing of bacteria12分钟
Surveillance of Antimicrobial Resistance using whole genome sequencing12分钟
Quiz1 个练习
Module 120分钟

2

章节
Clock
完成时间为 1 小时

Module 2

Introduction to Next Generation sequencing...
Reading
3 个视频(共 37 分钟), 1 个测验
Video3 个视频
Introduction to Next-Generation sequencing (NGS)19分钟
De novo assembly- from raw reads to contigs: assembler tool description and application5分钟
Quiz1 个练习
Module 230分钟

3

章节
Clock
完成时间为 1 小时

Module 3

Whole genome sequencing tools- demonstration of analysis tools for species identification, MLST typing and finding resistance genes...
Reading
3 个视频(共 30 分钟), 1 个测验
Video3 个视频
MLST Typing: MLST tool description and applications8分钟
Resistance gene detection: Resfinder tool description and applications12分钟
Quiz1 个练习
Module 320分钟

4

章节
Clock
完成时间为 1 小时

Module 4

Whole genome sequencing tools- demonstration of analysis tools for Serotyping of Salmonella and Escherichia coli strains , and finding plasmid replicons...
Reading
3 个视频(共 24 分钟), 1 个测验
Video3 个视频
E. coli serotype identification: serotype finder tool description and applications6分钟
Plasmid replicon identification and plasmid typing12分钟
Quiz1 个练习
Module 420分钟
4.6
Direction Signs

50%

完成这些课程后已开始新的职业生涯
Briefcase

83%

通过此课程获得实实在在的工作福利
Money

29%

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热门审阅

创建者 PTSep 17th 2017

Thank you great team from DTU, I get to understand NGS via your detailed explanation and useful demonstration as well as example exercise. Cheers

创建者 SKMay 18th 2018

The contents of the course were really very good and with loads of knowledge. Thank you very much for improving my knowledge in this area.

讲师

Lina Cavaco

Ext Researcher
Copenhagen University- ICMM /Statens Serum Institut - Department for Bacteria, Parasites and Fungi

Pimlapas Leekitcharoenphon

PostDoc
Research Group for Genomic Epidemiology, DTU Food

关于 Technical University of Denmark (DTU)

DTU focuses on research in technical and natural sciences that contributes to the development of society. As an industrially orientated university, our goal is to supply high-level international research based on combining theory with constructing models and empirical methods....

常见问题

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