programme.md

title	Course Program
navigation	0

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Other relevant links

• General notes on using the IT infrastructure during the course
• EMBO-hosted webpage for the course
• Twitter search results for for #EMBOPPI and Course tweeters list

DAY 1 - Monday 30 May 2016

Time	Activity	Responsible	Location
09:00–10:30	Introduction to Linux command-line (I)	Allegra Via
10:30–11:00	Coffee break
11:00–12:30	Introduction to Linux command-line (II)	Allegra Via
12:30–14:00	Lunch + Introduction round i.e. speed networking
14:00–15:30	Introduction to PPI networks	Tamas Korcsmaros
15:30–16:00	Coffee break
16:00–17:00	Plenary: Medical informatics	Lars Juhl Jensen
17:00–17:30	Coffee break
17:30–19:00	Protein association networks with STRING	Lars Juhl Jensen
19:30-	Dinner on the boat

DAY 2 - Tuesday 31 May 2016

Time	Activity	Responsible	Location
09.00–10.30	Network visualization with Cytoscape (I)	Scooter Morris & Nadya Doncheva
10.30–11.00	Coffee break
11.00–12.30	Network visualization with Cytoscape (II)	Scooter Morris & Nadya Doncheva
12.30–13.30	Lunch
13.30–15.30	Chimera protein structure (I)	Scooter Morris
15.30–16.00	Coffee break
16.00–17.00	Plenary talk	Ora
17.00–17.30	Coffee break
17.30–19.00	Working with your own data
19.00–	Unseminar	Aidan Budd & Holger Dinkel

DAY 3 - Wednesday 01 June 2016

Time	Activity	Responsible	Location
09.00–10.30	Structure and interfaces of PPIs	Allegra Via
10.30–11.00	Coffee break
11.00–12.30	Peptide and protein docking
12.30–13.30	Lunch
13.30–15.30	Working with own data or
	Peptide and protein docking II
15.30–16.00	Coffee break
16.00–17.00	Plenary: TBA	Toby Gibson
17.00–17.30	Coffee break
17.30–19.00	MSA and Jalview	Holger-Aidan-Toby

DAY 4 - Thursday 02 June 2016

Time	Activity	Responsible	Location
09.00–10.30	Protein families and domains and annotation transfer (I)	Marco Punta
10.30–11.00	Coffee break
11.00–12.30	Protein families and domains and annotation transfer (II)	Marco Punta
12.30–13.30	Lunch
13.30–15.00	Protein feature prediction and homology modelling	Miguel Andrade
13.00-15.45	Parallel: EMBL meeting
15.00–16.00	Working with own data
17.00–	Excursion

DAY 5 - Friday 03 June 2016

Time	Activity	Responsible	Location
09.00–10.30	Repeats and low complexity regions	Miguel Andrade
10.30–11.00	Coffee break
11.00–12.30	Intrinsically disordered proteins	Zsuzsa Dosztanyi
12.30–13.30	Lunch
13.30–15.00	Linear Motif Biology (I)	Holger Dinkel & Toby Gibson
15.00–15.30	Coffee break
15.30–17.00	Linear Motif Biology (II)	Holger Dinkel & Toby Gibson
17.00–17.30	Coffee break
17.30–19.00	Working with own data or
	Automated access of online tools using REST interfaces	Holger Dinkel & Toby Gibson

DAY 6 - Saturday 04 June 2016

Time	Activity	Responsible	Location
09.00–10.30	Molecular dynamics to study PPIs	Natasha Wood
10.30–11.00	Coffee break
11.00–12.30	Network visualization with Cytoscape combined session	Scooter Morris, Nadya Doncheva & Lars Juhl Jensen
12.30–13.30	Lunch
13.30–15.00	Working with own data
15.00–15.30	Coffee break
15.30–17.00	Pulling all together - Summary	Tamas Korcsmaros
17.00–	Closing

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