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Working together against COVID-19

1 Reply Jonny Hankins

This post was prepared by Anna Pellizzone, a science writer and an independent researcher at the Bassetti Foundation.

Makers

As many of us face lockdown and restricted movement, it is certainly worth thinking about what we ourselves might be able to do from our homes to help in the battle against the COVID-19 pandemic. There are plenty of initiatives around that are pushing technology into new fields, with 3D printing certainly one of the most prominent technologies.

News of respirator valves produced using 3D printers has spread across the world. Thanks to the meeting of three minds, a journalist (Nunzia Vallini, Giornale di Brescia), a Maker from Milan (Massimo Temporelli, FabLab Milano) and an entrepreneur (Cristian Fracassi from Isinnova), pieces required for the machines used in the Intensive Care Department of Chiari Hospital (Italy) are being produced in the hospital itself.

The “3D Printing Unite for COVID-19” forum is another interesting collaboration. Through the forum, makers from across the world share ideas aimed at responding to the emergency. You can read more about the Chiari story there. This is an open-source initiative headquartered in Ireland which aims to resolve the problem of the shortage of  ventilators, learn more here in Forbes.

And there is plenty more. João Nascimento runs the OpenAir project, with the aim of finding new, fast, open-source and accessible ways to produce much-needed medical equipment. Lots of interesting stuff here too.

If you are the competitive type (and well set up), the UBORA project, has launched the UBORA design competition 2020, with the title “Open source medical technologies for integral management of COVID-19 pandemia and infectious disease outbreaks”.

Play Your Part

You too can play a role though without technical expertise and home technology by participating in Coronaselfcheck, a platform that works to map data on the spread of COVID-19 through a personal self-check. Check out the privacy and descriptions of aims before you make a decision, but everything is anonymous and helps through mapping contagion.

And of course fold.it, a platform many of you will know, where users who play have been able to help researchers to discover new antiviral drugs that might be able to stop the coronavirus. The most promising solutions will be tested at the Institute for Protein Design of the University of Washington. We are all citizen scientists at heart.

Remaining in the area of protein folding, another contribution that we can all make is to offer our own PC’s computational capacity by downloading and running folding@home – similar to BOINC projects.

There is also a lot of open-source software available that allows the sharing of useful research data. Nextstrain is an open-source application that works to track the evolution of viruses and bacteria, while GISAID is a free open-access platform that promotes the sharing of the genetic sequences of virus genomes such as influenza, bird flu and COVID-19.

And finally check out this article from Wired and you will be in self-isolation heaven.

Keep us informed if you find any others please: anticovid19(at)fondazionebassetti.org
Replace the (at) with an @

Let’s all push and show them what we can do if we all work together.

Online Gamers as Scientists

16 Replies Jonny Hankins

If you thought that online gamers were just a load of geeks, incapable of socializing with the outside world, and living within the confines of their own in their bedrooms, you might like to have a look this website called Foldit. Foldit is a game, but its aim is to solve puzzles for science, and players have recently made some remarkable inroads into the world of protein modelling. Below is a model of an Amino Acid, and it is this type of thing that gamers manipulate.
An Amino Acid Protein MoleculeThis article that explains the process is in the online journal Nature, Structure and Molecular Biology, and begins with the following statement:

“Following the failure of a wide range of attempts to solve the crystal structure of M-PMV retroviral protease by molecular replacement, we challenged players of the protein folding game Foldit to produce accurate models of the protein. Remarkably, Foldit players were able to generate models of sufficient quality for successful molecular replacement and subsequent structure determination. The refined structure provides new insights for the design of antiretroviral drugs.”

The fold it game has existed for a couple of years now. Players create protein structures, with the most stable and low energy structures scoring the most points.

The gamers in general are not scientists and they manually manipulate the model from a base form that is provided to them at the start of the operation. They have a variety of tools but the most important thing is that they have better spatial reasoning skills than computers. Computer models had tried to solve the problem cited above for 10 years without success, gamers produced an adequate model that was then refined by scientists in just 3 weeks.

We could draw similarities to citizen science, having seen posts on this blog discussing loaning out some of your computer’s spare hard disk space and memory to solve scientific problems, and the now common use of similar set ups in astronomy.

Just this week the Astronomy and Telescope journal is entitled Citizen Science, and addresses the issue of amateurs classifying high definition photos of far off galaxies. They say that it is the future of astronomic discovery. See my post on The Bassetti Foundation website for a lay explanation.

The gaming process is an interesting innovation though, as it uses skills that may not be particularly associated with science, but reveal themselves to be extremely important.