--- Day changed Thu May 28 2009
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00:17 < genehacker> photosensors are cool
00:20 < genehacker> you think you make a fast response photosensor that causes hydrogen ions to be pumped out of the cell?
00:49 < fenn> pumping out would take energy
00:49 < fenn> if all you want to do is open a channel, look at the LiGluR... paper
00:50 < genehacker> you can do stuff with hydrogen ions
00:51 < fenn> copypaste link http://heybryan.org/books/papers/Millisecond-timescale, genetically targeted optical control of neural activity - Boyden.pdf
00:51 < genehacker> I want to make a photosensor useful for manufacturing stuff
00:51 < genehacker> that can be grown
00:51 < fenn> there was another paper i was reading but dunno where that went
00:54 < fenn> here's that paper http://linkinghub.elsevier.com/retrieve/pii/S0896627307003443
00:54 < fenn> Remote Control of Neuronal Activity with a Light-Gated Glutamate Receptor
00:54 < fenn> anyway
00:54 < fenn> you can use the same mechanism for proton channels too
00:55 < fenn> look at the diagram with the clamshell snail eyeball thingies
00:59 < fenn> figure 1
00:59 < genehacker> oh that works
00:59 < genehacker> close enough
00:59 < genehacker> SNAIL EYES?
01:00 < genehacker> sounds interesting
01:01 < fenn> oh it looks like they just tethered the glutamate molecule to the receptor with an azobenzene
01:01 < fenn> silly me
01:02 < fenn> when light strikes azobenzene it changes shape, stuffing the glutamate in the clamshell binding site
01:02 < fenn> which opens the ion channel
01:14 < genehacker> woohoo
01:14 < genehacker> I got a reed switch
01:17 < genehacker> and it's definately a reed switch
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02:01 < wrldpc> Old:  "Scientists in the US have shown that "electrocorticographic" signals from the brain can be used to manipulate an external device."  o.O
02:07 < fenn> quite old
02:08 < fenn> i assume you've been reading about braingate? that was 2003 i think
02:18 < wrldpc> yeah .. way old.
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07:12 < kanzure> there's a Cajal Blue Brain initiative?
07:17 < kanzure> ybit: maybe you should look into that?
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08:11 < kanzure> Quantum Entanglement in Photosynthetic Light Harvesting Complexes
08:11 < kanzure> http://arxiv.org/abs/0905.3787
08:21 < kanzure> ok, so I have some old software on my server that I wrote maybe as a joke or just because I was bored
08:21 < kanzure> the autoscholarzen stuff that flips up PDFs on the screen
08:21 < kanzure> it doesn't quite work because it endlessly generates zombie processes (oops)
08:21 < kanzure> and the navigation between one PDF to another is really lame (does not exist- not sure how to implement it without hacking ghostview or xpdf or something)
08:22 < kanzure> but I figure it might be worth using it now that I have a reasonable collection of sufficiently interesting papers
08:22 < kanzure> you know, as opposed to watching television all the time or something
08:24 < kanzure> I guess one way to implement keyboard navigation would be to make the xpdf processes conserve a history of which pages were viewed previously even if it's on to another file
08:24 < kanzure> so that next/previous buttons work
08:24 < kanzure> and then space for pause/unpause of the flipping stream
08:25 < kanzure> and an accelerator knob :) or something
08:25 < kanzure> "it's SCIENCE!"
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09:29 < genehacker> you might try using a blue glowing usb knob of doom or a maybe an accelerator pedal
09:30 < genehacker> to drive through papers
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09:58 < kanzure> adl.serveftp.org will be down until we refinish rewiring the mess of the electrical cord system in the lab
09:58 < kanzure> zotero 1.0.10 update is out apparently
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11:36 < genehacker> in the ADL I see?
11:36 < kanzure> yeah
11:36 < kanzure> we have some new boxes
11:37 < kanzure> and some nice keyboards
11:37 < kanzure> rerouted a lot of the power supplies and ethernet cables
11:37 < genehacker> do they have names yet?
11:37 < kanzure> minsky is the new box
11:37 < kanzure> davinci is the server
11:38 < kanzure> newell is one of the boxes I was doing windows pythonOCC development on
11:38 < kanzure> chomsky is also floating around here somewhere
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12:19 < kanzure> http://woodysprops.com/page1.html
12:19 < kanzure> I'm thinking of adding one of these to my apartment.
12:19 < kanzure> something like this? http://woodysprops.com/005.jpg
12:21 < Utopiah> nerd antique, how fashionable
12:21 < genehacker_> hahaha
12:21 < kanzure> I want to do this:
12:21 < kanzure> http://woodysprops.com/037.jpg
12:21 < kanzure> *that's* what I want in my apartment
12:21 < genehacker_> what would you use it for
12:22 < kanzure> world domination
12:22 < kanzure> other nefarious activities
12:22 < kanzure> etc.
12:22 < Utopiah> classic
12:22 < genehacker_> of course
12:23 < Utopiah> in the volcanic island
12:23 < genehacker_> you know that modern day war rooms(they call em fusion centers cuz they fuz a whole bunch of data together) just use big screens and touch screens I think
12:23 < genehacker_> hey you know what?
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12:23 < kanzure> no
12:23 < kanzure> I don't know what
12:24 < genehacker_> if we drill a sufficiently deep hole we might be able to make our own volcano
12:24 < genehacker_> one way to drill a really deep hole is to use a very power laser
12:25 < genehacker_> like an oxygen iodine laser
12:25 < kanzure> another way is bacteria
12:25 < genehacker_> bacteria don't work at the temperature of magma now do they?
12:25 < kanzure> well, they should.
12:25 < genehacker_> in b4 cool the whole damn hole
12:25 < kanzure> force 'em to by growing a ridiculously heat resistant strain
12:26 < genehacker_> that's crazy
12:26 < genehacker_> no that's batshit crazy
12:26 < kanzure> out of the crazy things you bring up in here,
12:26 < genehacker_> we'd have to make silicon based life for that
12:26 < kanzure> growing a heat-resistant strain is not anything of concern.
12:27 < genehacker_> Temperatures of most magmas are in the range 700°C to 1300°C
12:27 < genehacker_> find me something that isn't killed by that
12:28 < kanzure> I said grow/evolve one.
12:28 < kanzure> also, show me a technique for proving life doesn't already exist in magma or something
12:28 < kanzure> I have not yet read any studies about people attempting to find life in magmas
12:29 < genehacker_> highest temperature that anything lives at is 122 degrees C
12:29 < kanzure> and before that, the highest was 121 celsius
12:29 < genehacker_> yeah :(
12:30 < genehacker_> I don't think proteins can exist at 700 degrees Celsius
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12:31 < kanzure> this should be an easy experiment
12:31 < kanzure> first start with some colonies that grow optimally at 37 degrees (typical incubator)
12:31 < kanzure> then ramp it up and keep on selecting for the colonies that grow the best at the different temperatures
12:32 < kanzure> the trick would be making an incubation chamber that has fine-tuned temperature controls I guess
12:32 < genehacker_> anyway if something lives at really high temperatures, why don't we find stuff in autoclaves or steel foundaries?
12:32 < kanzure> do people look in steel foundaries?
12:32 < genehacker_> they look in airplane fuel tanks
12:32 < kanzure> is there any particular resource that life could live off of in steel foundaries other than the metals?
12:33 < kanzure> it's not like they're dumping nutrients into the smelting pots all the time :p
12:33 < genehacker_> found mysterious corrosion, turned out there's bacteria that corrodes fuel tanks to live or something like tha
12:33 < kanzure> heh, I doubt they corrode pistons though :)
12:33 < genehacker_> they can reduce metals though
12:33 < kanzure> kind of hard to live in that environment
12:33 < genehacker_> pistons?
12:33 < genehacker_> oh in car engine
12:33 < kanzure> yeah, the exploding types
12:34 < genehacker_> shame that nothing can live there
12:34 < genehacker_> you know what I wonder?
12:34 < genehacker_> I wonder why there aren't any lifeforms with diamond in them or metal plates
12:35 < genehacker_> is metal hard to obtain in the environment?
12:36 < genehacker_> there are certainly copper binding proteins, I'd like to make something that makes metal plates
12:36 < genehacker_> so I can make "protein walls" for my bacterially induced geofront
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--- Log closed Thu May 28 13:52:43 2009
--- Log opened Thu May 28 13:52:54 2009
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14:06 < kanzure-> hm, wonder why that happened
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14:47 < drazak_> kanzure-: bacteria can live in diesel, and probably jet fuel, I bet it could find a use for Fe or to carbon fixate from steel
14:51 < kanzure-> I didn't say otherwise :)
14:53  * drazak_ just sayin
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15:11 < xp_prg> genehacker your very smart
15:11 < genehacker> huh?
15:11 < genehacker> what now?
15:12 < genehacker> my diybio post?
15:29 < kanzure-> these new boxes look spiffy
15:30 < genehacker> can they fly?
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15:37 < kanzure-> they can hum.
15:37 < kanzure-> does that count?
15:37 < genehacker> no that doesn't count
15:37 < drazak_> genehacker: what's your name
15:38 < genehacker> Gene Hacker
15:40 < genehacker> ok not really
15:40 < genehacker> my real name is John Smith
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16:24 < kanzure> I don't like how my IP address randomly changed today.
16:34 < fenn> kanzure: should i be over there?
16:35 < kanzure> eventually, yeah
16:35 < kanzure> I suggest taking a laptop so that you're not disabled for a few hours
16:37 < genehacker> don't like kanzure?
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16:37 < genehacker> that
16:38 < genehacker> is a great thing
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17:09  * fenn gets on bicycle
17:09 < fenn> tallyho!
17:12  * xp_prg gets on the bycycle with fenn
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18:16 < katsmeow-afk>  Japanese researchers have genetically engineered monkeys whose hair roots, skin and blood glow green under a special light, and who have passed on their traits to their offspring, the first time this has been achieved in a primate.
18:16 < katsmeow-afk> They spliced a jellyfish gene into common marmosets
18:16 < katsmeow-afk> The protein glows under blue and ultraviolet light
18:17  * katsmeow-afk wonders ho well the marmosets see in blue and uv light now that the insides of their own eyes (and their retinas) will glow when that lightis present
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19:32 < kanzure> Hi ober.
19:44 < ober> hello
19:44 < ober> missed last nights meeting but saw the email
19:45 < fenn> where was "last nights meeting"?
19:54 < kanzure> Austin Hacker's Association.
19:56 < kanzure> which apparently is mostly for security professionals
19:56 < kanzure> hm, I thought it meant hackers in general
19:56 < kanzure> biohackers, lifehackers, peoplehackers, bytehackers, tree hackers, ..
19:59 < ober> Magias
19:59 < ober> Mangias even.
20:02 < genehacker> we're not biohackers
20:02 < kanzure> why nto?
20:02 < kanzure> *not?
20:02 < genehacker> we're "amateur biologists"
20:03 < genehacker> hacker scares people
20:03 < genehacker> we need to do some PR
20:03 < genehacker> so we don't get vanned
20:04 < kanzure> bullshit
20:04 < kanzure> just stop doing any PR
20:04 < genehacker> I'm joking
20:05 < genehacker> and parodying diybio
20:05 < genehacker> which is concerned with such
20:05 < genehacker> topics as PR
20:06 < genehacker> everyone wants to do PR but not real bio
20:06 < genehacker> but let's get to the point
20:06 < genehacker> you got any papers on making phosphoramidite nucleosides?
20:07 < ultraleibniz> yes, somewhere. let me think.
20:07 < genehacker> I also need some way to draw an internal gear in cad
20:07 < ultraleibniz> what is an internal?
20:08 < genehacker> hold up
20:08 < genehacker> http://www.bpt.on.ca/106059.gif
20:08 < genehacker> this
20:10 < genehacker> I need one of those so I can make this:
20:10 < genehacker> http://www.act.sys.okayama-u.ac.jp/kouseigaku/research/okamoto_wobble_06/english.htm
20:11 < genehacker> and 3d print a working motor
20:11 < genehacker> err make that stepper motor for a 3d printer I'm building
20:13 < kanzure> http://www.bhk-lab.com/publications/2003/69.pdf
20:15 < genehacker> you do know we get free 3d prints on the machine on the 3rd floor?
20:18 < kanzure> hm, in the acknowledgments of that paper they thank "the Lab for Modified Nucleic Acid Systems".
20:19 < kanzure> why do I keep seeing references to Tetrahedron Letters
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20:34 < fenn> you need to set up wondershaper on the server and route outgoing packets through it
20:35 < fenn> so it doesnt take thirty seconds to load a webpage
20:41 < kanzure> better?
20:56 < fenn> no. i guess i dont know what the problem is
20:56 < kanzure> try again.
20:56 < fenn> might be my computer somehow
20:56 < kanzure> I turned it off and reconfigured.
20:56 < kanzure> please excuse the delay in service.
20:59 < fenn> still takes about 30 seconds. i can get an IP from nslookup in about 1 sec so i dont think it's DNS issues
21:00 < kanzure> are you torrenting?
21:00 < kanzure> my lag is 2.02 on this lappy, 1.16 on the monolith, ..
21:01 < fenn> nope just email and web
21:03 < kanzure> is it possible that god hates me
21:03 < fenn> error does not compute
22:01 < genehacker> so how soon do you think we can start getting results from SKDB?
22:01 < genehacker> before 2010?
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22:53 < greenshoe> ultraleibniz: kanzure-: me -> aha
22:53 < greenshoe> hey.
22:56 < genehacker> ?
23:01 < greenshoe> hey -
23:02 < greenshoe> ultraleibniz mentioned this channel on  list for Austin Hackers, so I thought I'd /join and see who was here.
23:04 < greenshoe> I'm starting to get plugged into the community here in Austin.. Probably not doing much security related stuff right now, as I need to find some work, and there's a hardware project I'd like to do first...
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23:16 < kanzure> genehacker: I think that would be reasonable (before 2010), yes.
23:17 < genehacker> ok good
23:17 < kanzure> right now it's just me pretending to know lisp, and that's the holdup more than anything else
23:17 < genehacker> here's the deal
23:17 < kanzure> once I translate it back into pseudocode, the symbolic equation extraction mechanism can be generically applied to the hardware representation format
23:18 < genehacker> do you know what hyperinflation is?
23:18 < kanzure> "In economics, hyperinflation is inflation that is "out of control", a condition in which prices increase rapidly as a currency loses its value. ..."
23:18 < genehacker> yeah
23:19 < genehacker> well absolute worst case we could experience it here the earliest around 2010
23:20 < kanzure> out of who's control?
23:21 < genehacker> in other words I'd like to engineer some redundancy to insure that we have progress
23:22 < genehacker> *engineer redundancy into the system
23:22 < kanzure> which system?
23:23 < genehacker> everything
23:24 < genehacker> IE let's make miniature factories so if hyperinflation happens it won't affect us
23:24 < genehacker> or something like that
23:48 < greenshoe> building a forge is a good first step.
23:49 < greenshoe> If you can refine metal, you can make just about anything you'd normally have to buy.  Plus, you can recycle metals.  In prctice you get a lesser quality metal without haveing some new raw material to mix in...
23:49 < greenshoe> but still useful.
23:56 < greenshoe> or I'm missing some elaborate allegory.  See yaz.
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