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Technical University of Denmark (DTU)

Whole genome sequencing of bacterial genomes - tools and applications

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

状态:Bioinformatics
状态:Data Pipelines
初级课程小时

精选评论

SP

4.0评论日期:Sep 30, 2018

This course helped me a lot in determining bacterial typing. Just one question, in some quizzes I got some answers wrong so is there any way of knowing the right answer.

AR

5.0评论日期:May 18, 2023

Excellent course for students who don't know much about sequencing and its analysis. It's very easy and very understandable for students new to bioinformatics.

AA

5.0评论日期:Jul 21, 2020

Excellent Course. Many thanks to DTU and Coursera for providing such a wonderful course. I learned a lot of things from this course. This course is definitely a winner.

AM

5.0评论日期:Apr 22, 2024

This is an interesting course. I do not have any prior knowledge of bioinformatics but I was able to understand with constant practice. Thank you DTU! Thank you, Coursera!!!

TN

4.0评论日期:Apr 19, 2021

The course provides some basic ideas about sequencing and assembling in a fairly easy to understand manner. However, the parts of phylogenic trees are badly explained.

CS

5.0评论日期:Jul 21, 2020

Thank you very much coursera and all educators who helped me learn this WGS. This course is just awesome. It really helps me pursue my career. Once again thanks alot to DTU TEAM.

MO

4.0评论日期:Jan 2, 2025

The course is very educative, and I enjoyed the presentations. However, I found that I could not use most of the tools. It seems the web-based versions have been discontinued.

MA

4.0评论日期:Mar 21, 2022

This course was very informative and videos were very engaging. As a soil microbiologist this course provides you an introduction to tools which are being used in epidemiology.

KK

5.0评论日期:Oct 27, 2021

One of the best bioinformatics courses. We get to learn and get hands-on practice on free online bioinformatics tools. Well explanatory lectures to guide us on using bioinformatic tools.

UC

4.0评论日期:Jan 13, 2020

Please correct the text as there are many mistakes. It it simply not being typed correctly to what the teachers are actually saying. Otherwise I think it was a good course. I enjoyed it. Thanks :)

RN

5.0评论日期:Jan 19, 2023

Very Good Course!!! All the tutors were awesome and easy to understand. Overall the course met my needs. I am very happy and satisfied!!. Thank You coursera!!!

AP

5.0评论日期:Jul 19, 2020

Thank you very much for this course through which i learnt basic handling of bioinformatics tools and concepts of WGS. This will help me a lot while pursuing my PhD research work in my field.

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Robert Furrow
2.0
评论日期:Jan 28, 2019
Sören Wacker
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评论日期:Jan 7, 2019
shilpa yadahalli
1.0
评论日期:Feb 19, 2020
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2.0
评论日期:Dec 28, 2017
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5.0
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3.0
评论日期:Aug 19, 2017
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1.0
评论日期:Jan 19, 2023
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5.0
评论日期:Apr 3, 2020
Dr. Bindiya. E. S
5.0
评论日期:Apr 24, 2020
Sibel Z
1.0
评论日期:Aug 15, 2019
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评论日期:Aug 22, 2020
Anbazhagan P
5.0
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5.0
评论日期:Jun 10, 2019
Xiangyang Liu
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评论日期:Jun 30, 2019
Pham Thi Thanh Thuy
5.0
评论日期:Sep 17, 2017
WK Saniduni
4.0
评论日期:May 29, 2020
Агапов Антон Павлович
1.0
评论日期:May 8, 2022
Sneha Sekar
5.0
评论日期:Aug 28, 2020
Varun Chauhan
5.0
评论日期:Jan 1, 2020
Gourab Das
5.0
评论日期:Aug 20, 2017