Chevron Left
Back to Whole genome sequencing of bacterial genomes - tools and applications

Learner Reviews & Feedback for Whole genome sequencing of bacterial genomes - tools and applications by Technical University of Denmark (DTU)

4.6
stars
1,420 ratings

About the Course

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...

Top reviews

AP

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.

MB

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.

Filter by:

26 - 50 of 386 Reviews for Whole genome sequencing of bacterial genomes - tools and applications

By Erica Y

Sep 30, 2018

Good course for a beginner. Generally, help me understand whole genome sequencing of bacteria. Will follow other course that they have provide.

By Arvind K

May 14, 2021

Very knowledgeable

By umashankar

Jun 3, 2021

Very nice content

By NG, S L

Jun 20, 2022

What I liked:

- Procedures for each tool are introduced clearly

- No off-topic lectures

- Each lecture's duration is appropriate

- The tutorial final quiz is helpful in consolidating our understanding of applying the tools

What needs to be improved:

- Describing the principles behind each tool (e.g. for CSI Phylogeny, I am only taught how to use it but I do not understand why SNPs are used for creating a phylogenetic graph).

- Some terms like "serology" and "SNP" are expected to be understood, so this is NOT a beginner's course as indicated (as of June 2022, these terms were also not explained in "Antimicrobial resistance - theory and methods").

- Would rather have a fullscreen presentation than videotaping the lecturer with the background because the words on the slides were too small. Could emulate Zoom playbacks where lecturers share fullscreens and have their talking heads on the right hand corner.

- For the tutorial final quiz video, it will be more challenging and more likened to real life if the lecturer doesn't tell us what tools to use and their functions (I guess this is why it is a beginner's course haha).

(- Less important but Shinny's accent is sometimes hard to decipher and the transcript translates wrongly but I do not blame her since she is not a native English speaker. Suggestion: find someone to fix the transcript for people who rely on visual learning (i.e. reading transcripts)?)

--------------------------------------------

All in all, it definitely took some time for me to digest the applications and procedures for each tool. Luckily, when I really used them, they appeared to be user-friendly, so even if I forgot some steps mentioned in the lectures, I could deduce from the itembars.

Thank you to all lecturers for your knowledge!

By Catherine M (

Oct 23, 2020

Can not even pass the first quiz, even with correct answers. The two videos based off the questions don't answer some of the questions if at all, and a google search or more in depth search revealed the correct answers, however the quiz continued to be incorrect no matter what correct answers you gave it.

By Piotr

Jun 29, 2021

Week 1 videos just throw a bunch of acronyms, without explaining anything, not even in depth, but in their relevance for the topic of the course. Similiarly, later weeks continously bring more terms with little explanation of them and providing little logic how are they connected to each other. Quizes don't relate to informations from vidoes anyhow or do so only in some of questions. Quizes don't provide any feedback.

By Gail C

Oct 18, 2021

The assignments are very difficult and I dont think the lectures provide enough information to do the assignments. Dont recommend this course.

By Aedrian A

Jan 22, 2021

This is an excellent course, both in itself and as a state-of-the-art follow-up to the DTU's "Antimicrobial resistance - theory and methods" course. This offering truly presents the expertise and the achievements of DTU in the field. The graded activities are interactive and a good review of principles in bioinformatics, using the homegrown free-to-use resources by the institution. Conventional routine microbiologists and academic scientists working in the field should own the relevant skills to generate and handle molecular microbiological data, and this course is a good place to start.

By hira a

Jun 7, 2023

The course was really well-organised. The assignments were really amazing and by solving the assignments I learned a lot. I love Bioinformatics. The lectures were delivered very nicely and each lecture was of a suitable length. Due to this, after listening to one lecture I was able to understand it really well. I really enjoyed doing the last analysis assignment and because of it I was able to understand the pipeline for Whole genome sequencing of bacterial genomes. Being a microbiologist, I wholeheartedly appreciate the efforts put into the making of this course.

By Nhung N

Oct 22, 2022

Thank you very much to all lecturers and organizers for the course.

It is my first online course. I enjoyed the course very much and gained more knowledge whole genome sequencing of bacteria. I will surely use and apply this platform to my near future work.

I wish you all great success in building more applied tools for WGS analyses.

I would like to have a certificate but I can only afford half of the fee. I would like to ask for your favor if you kindly help me with half price.

Thank you very much once again.

By Aina M

Oct 1, 2023

This is a great course for learning whole genome sequence analysis. I read some negative comments that this course is all about the advertisement of various tools developed by DTU. But one has to understand that all analysis tools are almost the same, if one learns how to use few of them, one will learn other tools easily. So this is a great course to understand that how whole genome sequence of an organism is analyzed through tools to have information you want about that organism.

By razieh e

Jul 25, 2022

this course was very interesting and provide researchers with the most advanced tools to research into various topics like antibiotic resistance, virulence factors and etc. as i am really interested in antibiotic resistance, it gave me alot of useful information. i appreciate DTU and people who were in charge of teaching for this course. i really appreciate MS Pimlapas Leekitcharoenphon because she was a skilled person in this regard and her teaching method was very good.

By Adewole A

Sep 12, 2021

I found the delivery of the course content quite interesting and the topics covered were perfectly explained to give both theoretical understanding and hands-on skills. The range of applications and tools covered on the DTU website will definitely be invaluable in carrying out detailed analysis of my sequence data. Thank you so much for the wonderful course and I would highly recommend it to anyone interested in bacterial WGS.

By Audrey V

Nov 21, 2018

I only just begin taking part in it and all I can say is I am enjoying it even though I am a bit behind schedule and my first attempt was 60%, I will try again and aim high with better understanding. Thank you for the opportunity and the financial aid that was approved for me to attend the course. I am determined to do my best. What I also like is the clear teaching or lecturing manner of all the presenters of the course.

By Kristine L C

Jul 9, 2020

Thank you to the entire DTU team that made this course. It's a very informative course with hands-on work using CGE tools developed. Glad that some aspects of the course are related to my line of study and this brought me even more knowledge to my passion in microbiology. Hoping for more courses from you soon! Thank you very much!

By Tahmina B

Mar 23, 2022

This course is very useful for bacterial genome analysis in respect of very technical and specialized identification of the resistant genes . I have learnt different skills from this course which will help my future research work in a large scale. Thanks to DTU team and Coursera team for this valuable course.

By Mihăiță S

Dec 7, 2020

It was a nice experience which i kindly recommend to everyone who is interested in improving their knowledge in microbial genomics, learning to use bioinformatics tools provided by the Center for Genomic Epidemiology but also to interpret the resulting data. Thank you for this amazing experience!

By AKM F H

Jun 10, 2019

This is a really good course for beginners as it explained the use of some fantastic web-based tools to detect bacterial ST, resistance, plasmid, MLST, and phylogeny. I have learned a lot of new techniques to analyze the whole genome of a bacterium. Thank you for giving me the opportunity.

By Muhammad M

Aug 24, 2023

The course is really interesting and knowledgeable for me. It was a new field for me, so initially, I felt some difficulties. However, by watching the lectures repeatedly, it became easier for me to grasp the concepts. In the end, I am very thankful to all of you."

Muhammad Mohsin Arshad

By Sebin J

Jul 9, 2020

It was a great course which introduced me into the world of whole genome sequencing and application of various tools for finding bacterial sub-typing, serotyping of plasmids and constructing phylogenetics trees. Really satisfied with course and looking forward to more courses like this.

By Amro H

Nov 11, 2019

Thank you for the very helpful informative course. Very useful online tools. and great effort.

Only may we try to improve the English subtitles and attach answer for the quiz even at the end of the course?

Thank you again for all of your help, you are doing an OUTSTANDING job.

By MITESH S

Apr 2, 2020

The course was very much helpful for my current work and it helped me understand many things especially on data analysis front of whole genome sequencing of bacteria. I would like to thank all the tutors of the course for giving their time for the development of this course.

By Mohamed E 2

Jul 28, 2018

Not to mention, the power of the tools illustrated in this course, I just wanna mention that I am senior student in bioinformatics bachelor degree and Dr. Pimlapas Leekitcharoenphon is by far the best instructor I have ever come across in the field till now. Thank you.

By Rutuja K

Mar 25, 2023

Amazing course to learn about whole genome sequencing during this session I have learned a lot about its tools and application in the field of genomes and bioinformatics. Thanks, Coursera and Technical University Denmark to provide this Amazing Knowledge full session.

By Orlando R

Nov 2, 2020

Congratulations to the team preparing and delivering the course it is very well designed, organized, and delivered, the presentations are clear, the quizzes are very helpful, the tools are excellent, in summary, a very good course, thank you very much to all of you.