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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:Medical Science and Research
状态:Taxonomy
初级课程小时

精选评论

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.

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:Nov 3, 2020

excellent instructors... really enjoyed the course ...my sincere thanks to all the instructors for their effort...looking forward to meet them in forecoming sessions...thanks a lot

DS

5.0评论日期:Apr 23, 2020

A course which is worthy for a researcher who is involved in whole genome analysis and pathogen identification. The course gives a base to the use of cge website.

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.

MH

4.0评论日期:May 22, 2020

It's a very nice course for the beginner to know different tools and their applications. I am feeling happy to receive it and I can understand the genome sequence.

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.

FA

5.0评论日期:Apr 2, 2020

A well structured course covering a broad range of topics, and being a part of this course was an amazing learning experience..Thanks to DTU and Coursera family....

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!!!

XL

5.0评论日期:Jun 29, 2019

The course is using cutting-edge genome sequencing technology and the authentic software to showcasing the applications and tools of genome sequencing. It is a great chance to learn it.

MB

5.0评论日期:Jun 9, 2019

Excellent course with a wealth of information about tools and applications of whole genome sequencing. Presented in a very lucid and interesting manner, very crispy and simplified course.

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Robert Furrow
2.0
评论日期:Jan 28, 2019
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3.0
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1.0
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5.0
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5.0
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1.0
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WK Saniduni
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评论日期:May 29, 2020
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1.0
评论日期:May 8, 2022
Sneha Sekar
5.0
评论日期:Aug 28, 2020
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评论日期:Jan 1, 2020
Gourab Das
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评论日期:Aug 20, 2017