Ero.coli - a synthetic biology game
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| Number of Parts | 199 | |
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| License | CC Attribution 2.0 Belgium: You are free to use, adapt and copy, distribute and transmit the work or content in adapted or unchanged form for any legal purpose as long as the work is attributed to the author in the manner specified by the author or licensor. | |
| Identifiers | 10.5446/32518 (DOI) | |
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00:00
Game theoryProgrammer (hardware)Presentation of a groupOpen setNetwork topologyOpen sourceLibrary catalogProjective planeMereologyData managementComputer animation
00:46
Figurate numberField (computer science)Computer animationLecture/Conference
01:15
Functional (mathematics)CASE <Informatik>Port scannerDifferent (Kate Ryan album)Universe (mathematics)Windows RegistryFormal languageField (computer science)SequenceGroup actionGame theoryInformationBit rateControl flowCategory of beingWeb pageStandard deviationGreen's functionMereologyLibrary catalogLink (knot theory)
02:50
Category of beingRight angleMereologyQuantificationMultiplication signGame theoryBitComputer simulationLecture/Conference
03:31
Parameter (computer programming)Interactive televisionSign (mathematics)Direction (geometry)Decision theoryConcentricProteinMultiplication signWordXML
04:29
Right angleTerm (mathematics)NumberGame theoryElectronic mailing listTheory of relativityWave packetCross-platformSet (mathematics)Window1 (number)Lecture/Conference
06:24
Game theory1 (number)Cross-platformUniverse (mathematics)Revision controlMultiplication signMereologyZoom lensDepictionRight angleComplex (psychology)MultilaterationVideo gameReal numberRule of inferenceAdaptive behaviorPopulation densityMetropolitan area networkDescriptive statisticsComputer animation
07:58
Vector spaceRepository (publishing)Optical disc driveProteinRight angleGame theoryProduct (business)1 (number)FeedbackGreen's functionControl flowBit rateShared memoryCausalityMultilaterationOpen sourceFast Fourier transformBitMereologyObject-oriented programmingTouchscreenNear-ringCASE <Informatik>Software testingOrder (biology)Electronic mailing listBlock (periodic table)Affine spaceNumberLogical constantBlogArithmetic meanPredictabilityMultiplication signMathematical analysisPresentation of a groupGroup actionProcess (computing)VariancePhysicistView (database)Lecture/ConferenceComputer animation
11:56
MereologyGame theoryProcess (computing)Sound effectLecture/Conference
12:22
Food energyCellular automatonGame theoryState of matterVariety (linguistics)Computer animation
13:25
MereologyIntegrated development environmentLoop (music)Green's functionTetraederProteinCASE <Informatik>QuicksortExecution unitComplex systemView (database)XML
14:39
Right angleFunctional (mathematics)AxiomIntegrated development environmentTerm (mathematics)ResultantIncidence algebraRing (mathematics)OscillationLecture/Conference
15:06
Game theoryAxiom of choiceReal numberStudent's t-testProof theorySoftware testingCollaborationismDemo (music)Projective planeSimulationHacker (term)Image resolutionAreaProcess (computing)Degree (graph theory)Atomic numberEmailCASE <Informatik>Content (media)Complex (psychology)Surjective functionXML
16:21
TwitterLecture/Conference
16:44
Arithmetic meanGame theoryDecision theoryDressing (medical)Lecture/Conference
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SequenceMultiplication signNeuroinformatikState of matterDifferent (Kate Ryan album)View (database)Source codeMereologyContext awarenessVideo gameRight angleIntegrated development environmentData miningCASE <Informatik>MathematicsPhysical lawSocial classFrequencyProcess (computing)Gastropod shellOntologyArithmetic meanLine (geometry)SummierbarkeitPresentation of a groupWordFunctional (mathematics)Inclusion mapTouchscreenOnline helpTwitterLaptopWeb pageControl flowDesign by contractType theory
Transcript: English(auto-generated)
00:01
So I'd like to present the game I've been working on for months My name is Rafael and this is Alexandre. I'm a programmer and he's a community manager. We're working in Paris In the Cree, so maybe you were already there when Jesse was presenting Redwire
00:21
So we work together on different projects and the Cree is a lab whose activities are centered around education science and games also. The part is about games. So what we wanted to do with this game It was to do open science Using an open source game about an open catalog on biology
00:44
All right, so if you want to tweet during the presentation you can ask questions and we'll see later Or you can interrupt me if you want All right, so Do you know what synthetic biology is? Who knows about synthetic biology here? Nobody? Okay, the actual figure is
01:02
86% of people don't know what this is and it's kind of weird because in the last 10 years and in the future It has seen Like a tenfold increase in the money that can be made of it. So it can be in different fields. So medicine agronomy, etc. And
01:21
What is synthetic biology actually? It's a certain function using Biobricks so biobricks are really at the center of this technology Biobricks are standardized sequences of DNA. So DNA is a sequence of base pairs. So it's just information actually
01:43
It's it's information so you can code DNA and then print it in some companies to Create really the organism you have designed so Yeah, the biobricks are all in the registry of standard biological parts so I can show you a page of this
02:06
Registry, so it's a catalog of biobricks You have tons of categories of different biobricks that have different functions And what is interesting that you can take any break and put it in any organism. It will work because DNA is kind of universal language in every organism
02:21
So what we want to do in the game was to to link DNA with abilities So the central character is a bacterium and this bacterium You put genetic devices in it a genetic device is defined as a sequence of biobricks So this is a genetic device with four biobricks in this case
02:44
So in this case, I've put a gene That makes bacterium green fluorescence green green fluorescence protein and As you can see it's divided in in four categories The first part of the device says when the device is active so it can be all the time. It can be when
03:04
Precise molecule is here or when a precise molecule is not here. So this is a if part This is a end if part and this is a quantifier So should I produce a lot of JFP or just a bit and this is what part?
03:21
So what should I produce JFP or something else? all right, so so There is a simulator in the game. It's not just that you equip a device with this very pretty breaks like if How much what and if it's it's really simulated you put a device it creates a protein then protein interacts
03:47
With some reactions that maybe you don't know about and then finally you have the ability. So you have these complex Reactions that I cannot explain because I'm a programmer. I'm not a biologist. So it's very complex I don't know what the Listeria correction are, but I know that there are molecules going inside outside reacting enzymes that are
04:08
inactivating molecules then I compute the concentration of each molecule and then it gives the ability so I proved the JFP but maybe somewhere there's a reaction that destroys JFP. I don't know
04:21
I just put device it computes and then at the end I have the ability so Now it's zero time. All right, so Okay, the game is not running oh Yeah, it is No, we can't see it. All right, just a sec
04:41
Maybe I just open it again and to be okay. All right, should I Oh Okay, all right, so how should I
05:05
How do we I do that I have no idea Let me settings Okay settings Here, what should I do? I have no idea actually
05:23
Get the window Oh Yeah, you can just drop it just on the left Your own arrangement something like this On the top arrangement, yeah
05:41
And mirror this place down down down down. Yeah. All right I Think okay It was done
06:12
Okay start again All right, okay, hey
06:22
Yeah, so it's it's done using unity because it's cross-platform Okay so Alexander will Demonstrate the game and then comment what he will be doing. So this is just a plantation who is a bad guy We want to trust its video games. It's a story. It's blood driven. Okay, so here is your bacterium. So you're swimming around
06:45
There are some Kind of complex universe though. This is red. It's toxic. So I example is don't go in there. We don't have time I just pick up the Stuff okay, so you found the first dirty device
07:00
So this is the first part of the game you just find something and you equip it. So alexand will equip it So there is a complex Description of it. Okay. So now I have to flagella I go faster. So now I can go around What the what? Oh
07:22
Here is DNA the DNA of the bacterium here, right Yes DNA in later version of the game we plan to have a real zoom that goes into the DNA and you can put stuff and real like
07:40
Repeated this please cheat and go faster Which button sickle for the cheetah Okay Okay, whoa Okay, you're very good. All right. So here is a scientific part of the game So there is a depiction of the chemicals that are inside your bacterium
08:01
so FLH DC is a protein that That's enabled the creation of new flagella, so he has a small amount of it so he just has to to flagella Right. I'll just go through it Oops, okay
08:21
Oops Okay, so we try to make something artificial, you know, it's it's not realistic because you didn't want to have ethical problems We don't want to have a share shakalai going inside the human human body because it's a very dangerous Dangerous bacteria and it's causing infections. All right, so now he found a bio break
08:42
So a bio break is it's not a device so he cannot equip it he has to do something with it So it's a cause again is that you can craft you can take bio breaks and assemble your device So you go through this you you pick the the breaks. Okay, so this promoter so if then Quantifier so he will take the best one to have big production FLH DC. So it flagella producer
09:06
Okay, and then I did right now cut no, yes then equip All right, and now you can equip the new one Lower yes here and then unequipped order. All right
09:21
And now we have three flagella. So it's very fast Okay, so these are the the main main features of the game So as you have seen you pick up a device you can craft a device There are other steps later that I will explain so just I want to to describe what we've done technically We have been using unity as you saw earlier
09:43
We've been using github a lot. So we are using free and or open source solutions All right, so now the demonstration is finished I guess Okay, just a bit well you want to show the bad guy, okay
10:02
so sometimes you have a bad guy here and In this case if you don't have equipped the device that gives you three flagella you'll die So it's compulsory to use science. You cannot just move around at the say. Oh science is cool I'm just kidding, but guys etc. You have to use it. All right, I
10:23
Can also explain what you've seen on the top left side of the screen Yeah, it's a list of device that I quit with an overview of each biorex that constituted and now Yeah, we enter in a very interesting part. Okay, so here your blocks. There's a door blue stuff. You don't understand
10:41
Okay, what's going on? Hmm, so you explore a bit but I accept knows exactly where to go Right. Oh some rocks that move strange Oh, Jenny strength. Okay, what is this? so As you see it's not finished there should be more feedbacks we're working on this so now he has found a green fluorescence device
11:03
So green fluorescence work this way when you're when there is a blue light you turn green. It's not me. It's science Okay, so now as you see I have Jeff P and a high rate of FFT see so we've puts doors like this at That make it compulsory to use to use devices this way
11:25
Okay and then Okay tons tons of this game play go up. No, okay. So this is just a Kind of teaser later. We'll have red fluorescence Right, so here is a basic gameplay, you know to to make it immersive so that's your
11:47
You want to see you want to to play and actually we've made a test of this game In France in an exhibition near Paris and Lots of children do not know anything about DNA. I told them DNA and they were like, I don't know
12:01
I'm sorry But they were really interested in making the just a bacteria move and see that they could change the phenotype of the bacterium So add new flagella to make it faster to move etc. And part of the success of this game is that The artist made a really awesome job
12:22
Make it really Immersive and nice to play so you really want to play this game, right? So now Alexander can you cheat to finish the game very quick? I'm almost there. Okay, I'm on there Alright, so just no, okay Please don't die as it state of the game
12:42
All right, see quite a cheater Also Right, so what's going on? Okay, oh yeah Here it's a very sure He was using too much energy because there's two devices. It's not free to add devices into a bacterium because
13:05
The more devices you have the more in NP it costs because there is a cell machinery behind this So if you move if your red fluorescence and if you have tons of flagella It consumes a lot of energy. Okay, we'll stop here because we don't have time. I'm sorry, okay
13:29
So, okay now I'll just give a very quick explanations about what you've seen So you've seen the first gameplay loop that is a easy part So you pick up the device you equip it into the bacterium then your your green. Okay, it's easy
13:44
It's like you find a sword or equip it you can you kill guys Okay, next step is medium so you craft it so you find in the sword you find Special emerald you put the emerald on the sword and then it's magic. You have plus two attack. Okay, so it's like this
14:01
So here I could replace JFP by RFP and it would work instantly and Then the hard part so it's an interesting part. This is science. So we want to create very complex system So as I told you there is an if here and if here So if you produce a protein here that that is
14:21
Inhibiting this and this inhibits this you have a switch So if there is an amount of tet R here Then this would be inhibited and this would be active and this will create RFP So your battery will be red, but if there is like I then it will you will be protected So this is another function. It protects you from toxin. So according to what in the environment
14:44
There is a switch and you are as a red or either protecting protected from toxins All right, and we can do tons of stuff like this as oscillators You have you can have a bacterium that blinks green or blinks blinks red or alternatively red and and green you can do tons
15:00
of stuff Right. So my conclusion The results we won a competition in Paris about About science so it was international game for education and research So here we had been design award because it was nice no June's choice because tons of kids were playing with it all right, and What our prospects?
15:23
What you saw was just a proof of concept a demo. So does it work or not is interesting Is it immersive do people understand what's going on want to polish it and make tests with students and other kids We want to to see what they they want more and on the long haul we have tons of projects We want to do crowdsourcing so like fold it
15:41
We want to solve real problems of science using this maybe in collaboration with biohackers in Paris we have contacts with lapayas, which is a Lava fire hackers in Paris you want to do multiplayer to make some fights So you would equip some devices counter devices counter counter devices and so on on to collaborate with really labs
16:00
Want to make a simulation tool? So that's when you have done a good simulation You can print your battery as I said earlier and have your bacteriums that does the real stuff We want yeah, so it's really love experiments, and we want to make it a learning tool for MOOCs Because where I work it's a lab, but it's also
16:20
An institution where there are some licensed students and master students So we could make people play instead of go to courses and that's awesome because they could learn just by playing All right, so thank you and please visit December Design Tweet ask us questions with them for this. Thank you questions some questions around
16:54
Yes, so you can go to a design decision by you don't come you will have to kiss on the dress Respiratory you can just pull it and pay with the game
17:11
So I can't hear
18:09
I
18:25
Don't We do
19:08
You gain I
19:43
Know
20:11
As you can see by your breaks to pick like four by your breaks
20:32
If you pick up a device you can make a copy of it There is no
20:41
The You can write us on Twitter
21:13
Oh
22:20
Would ignore it Yeah
22:42
I Can just unify just take your time I don't have much
23:00
I May I Give me Maybe understood x-ray, it's easy
23:30
Maybe someone wants to twist page up Well, I'm standing back there yeah, I need to see what was written there right
24:08
Well enough found do you have to activate it with some kind of button oh No, sometimes there's these function keys you have to kind of look Yeah, seven now. I've had this happen to
24:24
20 contract connects to defeat We want to use my computer There's no presentation on here just what's not Oh There is a screen oh, yes
24:40
But if you start with my full screen, okay, and now it's back
25:14
Okay looks correct yeah ignore this one no
25:28
Don't You have a normal full shell for me
25:41
so not in a I Just opened one, but not in a screen session. Yeah, I just opened a new shell, but it's It's ah It's doing strange stuff XR and R. Yeah, I Don't know what's going on here
26:01
I'm typing in a different shell Maybe typing in this one we use my laptop mine will be working
26:48
Hello I'm Fabian from the battle for best not project and
27:01
Like in the morning. I don't have prepared much, so I need your help