• Event
  • Scientific training

Nanopore metagenomics: from sample to analysis 2022

Learn how to extract DNA from metagenomic samples. prepare libraries, carry out nanopore sequencing and analyse the data.

Start date:

26 April 2022

End date:

28 April 2022

Time:

10h00 - 15h00

Venue:

Virtual (via Zoom)

Enquiries:

training@earlham.ac.uk

Registration deadline:

27 March 2022

Cost:

£150

About the event.

What is the workshop about?

The goal of this course is to provide an overview of in-field, real-time nanopore sequencing using the Oxford Nanopore Technologies (ONT) platform. This course will cover experimental considerations, sample collection and preparation theory, plus data analysis and visualisation. Hands-on opportunities for data analysis of metagenomic data will cover the use of EI’s MARTi software and will be provided via virtual machines. You will also have the opportunity to discuss and apply lessons to your own projects with EI’s experts and a representative from Oxford Nanopore Technologies during an optional Q&A session.

What will I learn?

  • Experimental considerations for nanopore sequencing
  • Advantages and disadvantages of different extraction protocols
  • Familiarity with different DNA QC and library construction methods
  • Familiarity with nanopore sequencing outputs
  • Common analysis tools for alignment, assembly and classification of nanopore data
  • Capabilities of nanopore’s epi2me cloud-based data analysis platform
  • Effective use of MARTi software for real-time data analysis for species identification and quantification

Who is this event for?

You should be in the early planning stages of a project, wanting to understand the different approaches to sample preparation and explore options for comprehensive and rapid data analysis.

Course prerequisites

Some basic level of experience with the Linux command line is useful, but not essential. Necessary commands will be provided throughout the hands-on sessions.

You MUST attend a pre-course drop-in session to enable us to provide access to your virtual machine for the course, typically two weeks before the course start-date.

This training forms part of our BBSRC National Capability in Advanced Training

Programme.

Day 1 - 26 April 2022

Time

Topic

10:00 - 11:00

Welcome and Introductions (Flash Presentations)

11:00 - 12:00

Course overview and introductory lecture

12:00 - 13:00

Lunch Break

13:00 - 14:00

Lecture: DNA extraction

14:00 - 15:00

Demonstration: DNA extraction

Day 2 - 27 April 2022

Time

Topic

10:00 - 11:00

Lecture: Library construction

11:00 - 12:00

Lecture: Overview of bioinformatics

12:00 - 13:00

Lunch Break

13:00 - 14:00

Demonstration: Library construction

14:00 - 15:00

Demonstration: Sequencing and epi2me

Day 3 - 28 April 2022

Time

Topic

10:00 - 11:00

Lecture: QC with pycoQC and analysis with MARTi

11:00 - 12:00

Hands on session: QC and analysis

12:00 - 13:00

Lunch Break

13:00 - 14:45

Optional Q&A section about participants’ individual projects

14:45 - 15:00

Final wrap up, questions & feedback

Further information.

This event is currently being offered virtually, via Zoom. We will review this in January 2021, and may open for in-person registrations (at an increased registration cost) in January following a review of the COVID-19 situation and restrictions. If you would wish to convert your registration to in-person, should we offer this option, please advise us (via training@earlham.ac.uk).

Please carefully review our standard online event booking terms and conditions prior to registering for this event. Completing an online registration and associated payment process will mean that you are bound by these terms and conditions. Any supplemental terms or changes to these conditions on a per event basis will be included on this page. If you have any queries regarding our events or in relation to your booking, please contact us at training@earlham.ac.uk

  • Register today.

Registration deadline: 27 Mar 2022 - 23:45

Participation: First come, first served