Difference between revisions of "OxDNA users and developers workshop"

From OxDNA
(Attendees)
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Oliver Henrich, University of Strathclyde; Using oxDNA in the LAMMPS code
 
Oliver Henrich, University of Strathclyde; Using oxDNA in the LAMMPS code
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Will Kaufhold, University of Cambridge; Rapid in silico prototyping of proximity sensitive DNA nanostructures
  
 
Ard Louis, University of Oxford
 
Ard Louis, University of Oxford
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Michael Selby, University of Oxford
 
Michael Selby, University of Oxford
  
Petr Šulc, Arizona State University
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Rahul Sharma, École polytechnique fédérale de Lausanne
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Petr Šulc, Arizona State University; Towards simulations and design of large DNA/RNA systems with oxDNA/oxRNA
 
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Revision as of 20:49, 10 July 2019

We are planning to hold an oxDNA users and developers workshop in Oxford from September 2-5 2019. The aim of the workshop is to bring together both developers and users of the oxDNA and oxRNA models not only to share current research projects, but also to set the agenda for the future development of the oxDNA and oxRNA models, code and infrastructure, as well as to identify (and begin to address) current shortcomings. Particular foci are likely to be inter-operability of DNA design and simulation tools, user-friendly tools to improve oxDNA accessibility for non-expert users.

Location

Beecroft Building, Department of Physics, University of Oxford (map).

Beecroft2.jpg Beecroft3.jpg Beecroft7.jpg

Schedule

All attendees are welcome to give a short research presentation as part of the workshop.

Monday, Tuesday am: Short research presentations from all/most attendees. These will help to highlight the range of work for which oxDNA is being used, tools that have been developed, and wish lists for future development.

Tuesday pm: Discussion-based sessions to define the agenda for future development and to identify key targets and outline plans for implementation.

Wednesday, Thursday: "Hackathon": Begin to address the simpler targets (e.g. improve documentation of newer features, incorporation of existing external utilities into oxDNA infrastructure, develop and test simpler utilities). Make detailed plans for future development and collaborations. Users to get help in utilizing more advanced code features.

Registration

There are no registration fees. There will be a workshop dinner on Tuesday 3 September.

To register for the workshop fill in this form

Accommodation options

A number of rooms (not en suite) have been reserved at The Queen's College on their main site. These would cost £57.60 per night. These rooms can be booked here. To access these rooms the code DOYE2019 needs to be entered before selecting the dates.

Bed and breakfast rooms at other colleges can be booked here.

Travel

The closest airport to Oxford is Heathrow, and the quickest transport from Heathrow airport to Oxford is via coach. More travel information can be found here.

Sponsors

We are grateful for support from the John Fell Fund.

Attendees

Erik Benson, University of Oxford; Evolutionary refinement of DNA nanostructures using coarse-grained molecular dynamics simulations

Hemani Chhabra, University of Oxford

Lorenzo Di Michele, University of Cambridge

Jonathan Doye, University of Oxford

Hannah Fowler, University of Oxford

Oliver Henrich, University of Strathclyde; Using oxDNA in the LAMMPS code

Will Kaufhold, University of Cambridge; Rapid in silico prototyping of proximity sensitive DNA nanostructures

Ard Louis, University of Oxford

Thomas Ouldridge, Imperial College; Non-equilibrium information processing: modelling with oxDNA

Flavio Romano, Universitá Ca Foscari di Venezia

Lorenzo Rovigatti, Sapienza Universitá di Roma

Michael Selby, University of Oxford

Rahul Sharma, École polytechnique fédérale de Lausanne

Petr Šulc, Arizona State University; Towards simulations and design of large DNA/RNA systems with oxDNA/oxRNA