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00:46 < archels> http://www.davidbrin.com/SKEPTICcontactperils.pdf
00:46 < archels> 2009
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02:33 < archels> https://www.youtube.com/watch?v=DTNY6aJ7jlo
02:34 < archels> okay, now someone do this with a head-mounted FLIR and overlaid augmented reality
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04:06 < JayDugger> archels, that's fairly similar to the synthetic vision systems in modern business jets.
04:07 < JayDugger> Not head-mounted, but FLIR and AR overlay both apply.
04:14 < archels> not familiar with those, do you have a link?
04:15 < archels> like a windscreen HUD?
04:15 < JayDugger> I am, no link, exactly like that with FLIR video projected on it.
04:15 < JayDugger> Hang on...let me look for an image.
04:17 < JayDugger> https://flic.kr/p/6rKfE3
04:18 < JayDugger> Like that, but with a second green video portion, a raster image from the FLIR. (That's a flight simulator, so the runway looks false.)
04:19 < JayDugger> http://www.flightglobal.com/assets/getasset.aspx?itemid=39326
04:20 < JayDugger> That's a better image, but not of a real HUD. The AR overlays don't photograph that well.
04:20 < JayDugger> I know the previous image shows a real HUD's overlay.
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04:22 < archels> hmm, that's not so much enhancing reality though as projecting some data on top of it
04:23 < archels> without maitaining the spatial relation between the projected and the projected upon
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04:26 < JayDugger> What did you have in mind?
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05:01 < archels> I guess something a bit like this - http://www.magicvisionlab.com/pub/weir_ismar12/thumbnail.jpg - just a heatmap overlay on your visual field
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06:07 < kanzure> asdf
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06:13 < FourFire> ?
06:14 < eudoxia> another system definition facility
06:18 < kanzure> hi eudoxia
06:18 < eudoxia> hi kanz
06:18 < eudoxia> are you planning on starting an octopus farm to uplift octopuses
06:19 < eudoxia> through selective breeding
06:19 < poppingtonic> or iterated embryo selection?
06:20 < eudoxia> maybe it could even be automated
06:20 < kanzure> well that really depends on what you mean by planning
06:20 < eudoxia> like a machine that uses a camera and computer vision to select embryos with large brains and eyes and automatically discards/lets them pass at a rate of thousands of babby octopuses an hour
06:21 < kanzure> selecting for large eyes may not be a good idea
06:21 < archels> s/uplift/upload/
06:21 < kanzure> i dunno if there's anything to upload, they probably don't have much to say
06:22 < poppingtonic> http://www.nickbostrom.com/papers/embryo.pdf
06:24 < kanzure> unfortunately since this is a bostrom article 80% of this file is going to be bullshit about how much i should hate myself for thinking about embryo selection at all
06:24 < poppingtonic> haha
06:26 < poppingtonic> though i didn't actually see anything like that
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06:26 < eudoxia> there's a lot of other bullshit in that pdf though
06:27 < eudoxia> watermarks, instructions for the editor, "author query form", some other shit
06:27 < eudoxia> journals need to embrace minimalism
06:27 < kanzure> journalisms need to embrace "give bryan all the papers"ism
06:28 < kanzure> s/journalisms/journals
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06:30 < poppingtonic> "Our analysis suggests that human embryo selection will not be a major factor in world affairs in the medium term unless either it becomes very widely adopted or IES becomes feasible and is used by a nontrivial minority. In either of those cases, however, it would significantly increase world human capital, and, in the case of IES, possibly create individuals with unprecedented levels of cognitive capacity."
06:31 < archels> "Our analysis suggests that x will not be a major factor unless it becomes a major factor"
06:32 < kanzure> archels for president
06:32 < poppingtonic> unless someone really really wants it to happen
06:35 < kanzure> octopus would be much easier to work with for those purposes
06:35 < cluckj> kanzure, thx
06:36 < cluckj> beta cell transplants, which that basically is, only work for a short time before the immune system destroys them again
06:36 < kanzure> you could transform pre-existing cells
06:36 < kanzure> from your body
06:36 < kanzure> which should be immune-compatible
06:36 < cluckj> buuuuut if somatic cells are being transformed, you can just do it over and over again
06:39 < cluckj> I think the immune response is targeting cells that produce insulin
06:39 < cluckj> so those somatic cells that have been transformed would eventually be destroyed as well
06:41 < kanzure> there was another 2014 igem project about resetting certain acquired immunities
06:47 < cluckj> hmm
06:47 < kanzure> see http://diyhpl.us/wiki/dna/projects/
06:47 < cluckj> I really need to get my biohack on and see how I got T1 before I mess with anything
06:47 < cluckj> when you get T1 at age 30, there are multiple possible causes
06:48 < cluckj> it's probably genetic predisposition + viral infection
06:48 < cluckj> I asked my endocrinologist if we could run some genetic tests and he said it wasn't worth the money
06:48 < kanzure> "you are a worthless human being"
06:49 < kanzure> "wtf is a genetic test?"
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06:49 < cluckj> lol
06:50 < cluckj> he was looking at it from a clinical standpoint, where the kind of T1 I had would really have no effect on my treatment
06:50 < cluckj> he's right in that regard because he has no idea about the biohax
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06:54 < cluckj> once the baby is old enough I will be able to get back to genspace and do some genetic testing
07:01 < kanzure> human vitamin c synthesis by stealing a gene from lemurs http://2014.igem.org/Team:UST_Beijing/Project
07:03 < cluckj> yesss
07:29 < kanzure> http://2014.igem.org/Team:Cambridge-JIC "Marchantia polymorpha is our novel, eukaryotic multicellular chassis. Being a liverwort, it is one of the most primitive land plants around. Its small size and relative genetic simplicity make it easy to work with and an exciting new model organism in synthetic biology. Content to grow on agar plates, marchantia can be bioengineered in a standard lab with minimal extra equipment."
07:31 < cluckj> "primitive"
07:37 < archels> kanzure: how far are we with retroviral therapy on humans?
07:38 < kanzure> bacterial explosives remediation of TNT and nitroglycerin http://2014.igem.org/Team:Exeter/Project
07:38 < archels> be it in the clinic, in hackerspaces or in Russia
07:38 < kanzure> archels: well we have stuff that works, but nobody wants to use it or something
07:39 < archels> not even the biohackers? c'mon
07:40 < cluckj> it's not like anybody has died from retroviral therapy or anything...
07:41 < kanzure> this is interesting, optical control of the genetic expression of a specific receptor, where each different receptor allows a different virus with genetic payloads to enter the cell http://2014.igem.org/Team:Freiburg/Project/Overview
07:41 < kanzure> protein complements as biosensors of protein activity in cells http://2014.igem.org/Team:EPF_Lausanne
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07:51 < kanzure> electronic component/part selector/solver http://edasolver.com/
07:53 < ParahSailin> you dont use genetic engineering for bioremediation
07:54 < ParahSailin> generally you just give a carbon source or electron acceptor and one of the billions of species of bug in the dirt will take care of it
07:55 < ParahSailin> i feel like that igem team should have talked to at least one faculty member of an environmental engineering dept before wasting their time
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07:56 < ParahSailin> or done a single lit search apparently http://link.springer.com/article/10.1007/s10532-008-9182-6
07:57 < ParahSailin> but no, they have to try to make an effective metabolic pathway in a new bug by haphazardly sticking in transgenes
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08:33 < kanzure> http://2014.igem.org/Team:BUGSS_Baltimore/Project "Baltimore Underground Science Space ... developing a new Biobrick for Pfu DNA polymerase, which offers a replication error rate approximately 6 fold lower than that of Taq polymerase... The team is now working to develop a kit for easy purification of Pfu polymerase with the goal of reducing the cost of this essential tool"
08:45 < kanzure> well this makes me feel pretty dumb:
08:45 < kanzure> http://2014.igem.org/Team:Cooper_Union/TdT_project
08:45 < kanzure> they incorporated tdt into an alternative to phosphoramidite/oligonucleotide synthesis
08:45 < kanzure> instead of giving up when they couldn't electronically control tdt
08:48 < kanzure> Minhaz Ud-Dean, S.M. (2008) A Theoretical Model for Template-Free Synthesis of Long DNA Sequence. Syst. Synth. Biol. 2:67-73
08:48 < kanzure> "In the controllable system proposed by Ud-Dean, the reversibility of a 3' acetyl protective group was achieved by lowering pH during each cycle and thereby activating a deacetylase enzyme that is active at lower pH. During this step, TdT is also inactivated by the shift to lower pH, thereby preventing the addition of extra nucleotides. Our system simplifies this novel approach by using thermolabile reversible 3' protective groups. Since ...
08:48 < kanzure> ... our system uses heat to deprotect the dNTPs, only one step is needed instead of two, decreasing the time that is needed to add one base pair. This greatly increases the kinetics of the system since the time it takes to complete a full synthesis is equivalent to the time that it takes to complete one cycle multiplied by the number of base pairs that will be synthesized. "
08:50 < superkuh> sci-hub's new wrapper proxy for IEEE stuff is great.
08:50 < superkuh> Well, new to me at least.
09:01 < ParahSailin> hm that sucks that TdT is thermolabile
09:06 < kanzure> strange that they didn't do any dna sequencing of their results
09:06 < kanzure> or maybe they did and it doesn't work :)
09:11 < archels> any recommendations for 240VAC surge suppressors?
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10:26 < kanzure> 09:01 <+TallTed> the big perk from their IndieGoGo campaign is a trip to "see [their] particle accelerator in action"... why does a solar panel manufacturer need a particle accelerator? https://www.indiegogo.com/projects/rayton-solar-cheaper-than-fossil-fuels
10:45 < kanzure> haha genspace didn't listen to everyone complaining about DNA2.0's licensing policies on the diybio mailing list http://2014.igem.org/Team:Genspace/Project/IP-Free_Genes
10:45 < kanzure> that's what you get for isolationism i guess
11:08 < kanzure> "we did not actually succeed in transferring the entire genome of Streptococcus thermophilus into Bacillus subtilis" http://2014.igem.org/Team:LA_Biohackers/Project
11:09 < kanzure> "We currently have the methods to assemble large fragments of chemically synthesized DNA but no method for turning a piece of DNA into a functioning cell, aside from the method performed by the Venter Institute which only works on the smallest of bacterial chromosomes. With our strategy one could build the synthetic chromosome piecewise inside of Bacillus subtilis as part of the B subtilis chromosome. When the synthetic portion of the ...
11:09 < kanzure> ... chromosome is complete it is segregated from the B subtilis chromosome and is now contained within a functioning cytoplasm without the need for transferring it to a competent recipient cell. This would allow for the construction of large chromosomes using modular parts or chemically synthesized gBlocks or larger assemblies."
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11:12 < kanzure> microglia ("mobile immune cells of the brain") conversion of human astrocytes into neurons, to remove astrogliosis build-up of glial scars caused by neural insults like brain injury, stroke and neurodegenerative disease http://2014.igem.org/Team:Lethbridge
11:12 < erasmus> that is why I'm growing my brainwith nsi
11:14 < kanzure> food allergen biosensor http://2014.igem.org/Team:Linkoping_Sweden
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11:25 < kanzure> an expansion of the repertoire of ribosomes for the synthesis of proteins to select from hundreds of non-proteinogenic building blocks (rather than only amino acids) http://2014.igem.org/Team:Marburg:Project:NRPS
11:27 < kanzure> that seems like a great way to do directed evolution projects
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11:32 < eudoxia> kanzure: have you had any new thoughts re:skdb since the last time we talked about it, when you said it took a wrong approach to hardware package management?
11:33 < kanzure> i don't think i said that
11:34 < eudoxia> 2014-05-07.log:12:46 <kanzure> skdb is the wrong design, or at least, the wrong shape of the hypothetical solution
11:34 < kanzure> i still agree that more cad would be useful
11:34 < kanzure> and that comment was talking about project maintainers and incentives or something
11:35 < eudoxia> yes, something about lacking incentives to write packages
11:35 < kanzure> the actual management of packages is a non-problem, in the sense that once you have them the workflows are quite similar to current software package maintenance workflows
11:37 < kanzure> octopart sort of has a lot of incentives to do packaging of electronics parts, but they don't do that
11:42 < kanzure> ecoli production of scFv antibodies http://2014.igem.org/Team:Michigan
11:44 < kanzure> geeze they really are worse than geocities http://2014.igem.org/Team:Missouri-Columbia/OurProject
11:47 < cluckj> holy crap it just needs a flickering starscape background and it IS geocities
11:47 < eudoxia> holy shit
11:52 < yorick> that has to be on purpose
11:53 < yorick> at least that's some skilled marquee usage
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12:39 < kanzure> enzymatic conversion between human blood types http://2014.igem.org/Team:Tuebingen
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12:56 < kanzure> "patentability index" http://2014.igem.org/wiki/images/8/84/AnnexIFinal.pdf 
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13:15 < poppingtonic> wow, that page is just...wow. are those cells?
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13:39 < kanzure> genetically recoded organism (GRO)
13:39 < kanzure> haha i get it. instead of calling it a GMO.
13:45 < kanzure> https://github.com/igemsoftware
13:52 < eudoxia> amazing, i found luke parrish on github trying some random usernames (docl)
13:54 < kanzure> updated http://diyhpl.us/wiki/dna/projects/ including the interesting projects from igem 2014
13:54 < kanzure> or at least, not including most of the not interesting projects
14:09 < kanzure> .wik ribosome display
14:09 < yoleaux> "Ribosome display is a technique used to perform in vitro protein evolution to create proteins that can bind to a desired ligand. The process results in translated proteins that are associated with their mRNA progenitor which is used, as a complex, to bind to an immobilized ligand in a selection step." — http://en.wikipedia.org/wiki/Ribosome_display
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17:02 < fenn> "why does a solar panel manufacturer need a particle accelerator?" to embed dopant atoms below the surface of the silicon crystal
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19:22 < bbrittain> I like GIO
19:23 < bbrittain> Genetically Improved Organism
19:23 < bbrittain> and you can just say guy-o
19:23 < superkuh> scholar.google.com has effectively blocked the sci-hub proxy frame by incompatible captcha.
19:24 < superkuh> Oh, nevermind. Disabling JS fixes it.
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22:11 < kanzure> "industrial" eeg http://www.biosemi.com/products.htm
22:12 < kanzure> "It's rather curious the website says it's written in C against the libbitcoin library, as libbitcoin is a C++ library that doesn't even export C headers." brilliant
22:52 < kanzure> also: charcoal is a good answer, not lightning or wildfires
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