• Event
  • Scientific training

Signalling Networks: From Data to Modelling

This course provides an introductory overview about the most useful resources and tools to investigate signalling pathways and network, and also to introduce basic approaches to model signalling events.

Start date:

01 April 2019

End date:

05 April 2019

Time:

09h30 - 17h00

Venue:

Earlham Institute

Registration deadline:

11 March 2019

Cost:

£300 excluding accommodation

About the event.

What is the course about?

Signalling pathways and networks are very important to regulate and control cellular processes, cell fate, and their malfunctions often lead to diseases, such as cancer or diabetes. This course provides an introductory overview about the most useful resources and tools to investigate signalling pathways and network, and also to introduce basic approaches to model signalling events. Hands-on trainings will give a wide overview on tools and concepts related to signalling networks.

What will I Learn?

In this course you will learn how to use Cytoscape, where to find the most reliable signalling data, how to reconstruct, analyze and visualize a network. You will also learn how to develop your own models, mostly with logic modeling, what other modeling approaches exist, and how you can apply a model for your own research work.

Course Prerequisites

No programing skills and modeling background are required. Knowledge on biological systems, especially signalling is desirable but not essential.

Target Audience

Graduate students, post-doc, group leaders with interest to understand the resources and tools to reconstruct signalling pathways and networks and use omics data to model them with different approaches. The course could be useful for modelers coming with non-signalling background, and experimental bench biologist who would like to develop small but useful models for their own system.

Programme.

Day 1 - 01 April 2019

Time

Topic

12:00 - 13:00

Lunch and registration

13:00 - 13:30

Welcome and introduction

13:30 - 14:30

Working with signalling networks - why and how?
Tamás Korcsmáros, EI

14:30 - 15:00

Coffee

15:00 - 16:00

Flash presentations from delegates

16:00 - 17:00

Speed dating

Day 2 - 02 April 2019

Time

Topic

09:00 - 09:30

Coffee

09:30 - 10:30

Signalling pathways and their visualisation
Tamás Korcsmáros, EI

10:30 - 11:00

Coffee

11:00 - 12:30

Resources and standards for studying signalling interactions
Livia Perfetto, EMBL-EBI

12:30 - 13:30

Lunch

13:30 - 14:30

Keynote lecture: Jasmine Fisher
Principal Researcher, Microsoft Research Cambridge.
Professor of Systems Biology, University of Cambridge.

14:30 - 15:30

Data Analysis with Cytoscape
Livia Perfetto, EMBL-EBI

15:30 - 16:00

Coffee

16:00 - 17:00

Advanced analysis and visualisation with Cytoscape
Livia Perfetto, EMBL-EBI

Day 3 - 03 April 2019

Time

Topic

09:00 - 09:30

Coffee

09:30 - 09:45

Recap of day 1

09:45 - 10:45

Data visualisation with Cytoscape
Márton Olbei and Agatha Treveil, EI

10:45 - 11:00

Coffee

11:00 - 12:00

Regulatory networks
Padhmanand Sudhakar, EI

12:00 - 13:00

Lunch

13:00 - 14:30

Integrating omics data to signalling networks and functional analysis
Tamás Korcsmáros, EI

14:30 - 15:00

Coffee

15:00 - 17:00

Hands-on with Cytoscape and own data
Márton Olbei, Agatha Treveil and Lejla Gul, EI

Day 4 - 04 April 2019

Time

Topic

09:00 - 09:30

Coffee

09:30 - 09:45

Recap of day 3

09:45 - 10:45

Lecture: From literature curated signalling networks to boolean models
Dénes Türei, Saez-Rodriguez Group, University of Heidelberg

10:45 - 11:00

Coffee

11:00 - 12:30

Hands-on session: Using pypath and CellNOpt
Dénes Türei, Saez-Rodriguez Group, University of Heidelberg

12:30 - 13:30

Lunch

13:30 - 14:30

Systematic functional analysis and integration of quantitative multi-omic datasets
Dénes Türei, Saez-Rodriguez Group, University of Heidelberg

14:30 - 15:00

Coffee

15:00 - 17:00

Hands-on: KSEA, DOROTHEA, PROGENY, CARNIVAL, PHONEMES
Aurélien Dugourd, Saez-Rodriguez Group, University of Heidelberg

18:30 - 22:00

Course dinner - Trattoria Rustica

Day 5 - 05 April 2019

Time

Topic

08:30 - 09:00

Coffee

09:00 - 09:15

Recap of day 4

09:15 - 10:30

Discussion and work with own data

10:30 - 11:00

Coffee

11:00 - 12:30

Discussion and work with own data

12:30 - 13:00

Wrap up and final Q&A

13:00 - 14:00

Lunch and departure

Further information.

Registration includes lunch and refreshments, plus access to the training materials and the course dinner on Thursday evening.

Fees and accommodation.

Limited accommodation is available at Broadview Lodge, UEA at an additional cost of £68.40 per night including breakfast.

Related reading.