--- Log opened Wed May 29 00:00:41 2013 00:03 -!- gene_hacker [~chatzilla@cpe-70-113-91-92.austin.res.rr.com] has quit [Ping timeout: 256 seconds] 00:11 -!- kmo [~kmo@apn-37-247-252-163.dynamic.lte.plus.pl] has joined ##hplusroadmap 00:11 -!- kmo [~kmo@apn-37-247-252-163.dynamic.lte.plus.pl] has quit [Changing host] 00:11 -!- kmo [~kmo@unaffiliated/kmo] has joined ##hplusroadmap 00:44 -!- cogitokat [~kat@ip70-171-6-179.ga.at.cox.net] has quit [Read error: Connection reset by peer] 01:14 -!- kmo [~kmo@unaffiliated/kmo] has quit [Quit: Leaving] 01:23 -!- cogitokat [~kat@ip70-171-6-179.ga.at.cox.net] has joined ##hplusroadmap 01:34 -!- monkeynipples_ [monkeynipp@gateway/shell/xzibition.com/x-hdakhvcnrllauxws] has quit [Ping timeout: 252 seconds] 01:34 -!- monkeynipples [monkeynipp@gateway/shell/xzibition.com/x-limclsbnhgqsinqx] has joined ##hplusroadmap 01:48 -!- monkeynipples [monkeynipp@gateway/shell/xzibition.com/x-limclsbnhgqsinqx] has quit [Ping timeout: 252 seconds] 01:50 -!- monkeynipples [monkeynipp@gateway/shell/xzibition.com/x-xylliwngsdzjxqid] has joined ##hplusroadmap 01:52 -!- pad2 [~not@69.158.79.13] has joined ##hplusroadmap 01:53 -!- zdap [~not@69.158.79.13] has quit [Read error: Connection reset by peer] 02:06 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has joined ##hplusroadmap 02:38 -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap 03:23 -!- DonnchaC_ is now known as DonnchaC 03:55 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has joined ##hplusroadmap 04:20 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has joined ##hplusroadmap 04:25 -!- Juul_ [~Juul@50-0-83-116.dsl.static.sonic.net] has quit [Quit: Leaving] 04:40 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has quit [Quit: My MacBook has gone to sleep. ZZZzzz…] 05:11 -!- oblique [~oblique@unaffiliated/oblique] has quit [Quit: leaving] 05:29 -!- superkuh [~superkuh@unaffiliated/superkuh] has quit [Remote host closed the connection] 05:36 -!- superkuh [~superkuh@unaffiliated/superkuh] has joined ##hplusroadmap 05:38 -!- Viper168_ [~Viper@unaffiliated/viper168] has joined ##hplusroadmap 05:40 -!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 260 seconds] 06:05 -!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap 06:51 -!- phillyj [~chatzilla@static-96-227-241-38.phlapa.fios.verizon.net] has joined ##hplusroadmap 06:53 < phillyj> anyone know if github is a good place to use for project collaborations? I have no experience with this stuff. 06:55 -!- helleshin [~talinck@69-61-156-24.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap 06:56 -!- ThomasEgi [~thomas@185.5.8.81] has joined ##hplusroadmap 06:56 -!- ThomasEgi [~thomas@185.5.8.81] has quit [Changing host] 06:56 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has joined ##hplusroadmap 07:25 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has quit [Ping timeout: 276 seconds] 07:36 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has joined ##hplusroadmap 07:46 -!- yorick [~yorick@oftn/member/yorick] has quit [Remote host closed the connection] 08:07 -!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap 08:12 -!- yorick [~yorick@oftn/member/yorick] has quit [Remote host closed the connection] 08:17 -!- yorick [~yorick@oftn/member/yorick] has joined ##hplusroadmap 08:22 -!- Viper168_ [~Viper@unaffiliated/viper168] has quit [Ping timeout: 256 seconds] 08:23 -!- Viper168 [~Viper@node2.18.251.72.1dial.com] has joined ##hplusroadmap 08:23 -!- Viper168 [~Viper@node2.18.251.72.1dial.com] has quit [Changing host] 08:23 -!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap 08:24 < kanzure> phillyj: for software or hardware, yes. 08:24 < kanzure> or website development 08:24 < kanzure> or papers written in TeX or w/e. 08:27 -!- makoLime [~mako@103-9-42-133.flip.co.nz] has quit [Ping timeout: 248 seconds] 08:31 < brownies> or... everything. 08:33 < kanzure> not really. i don't think you should throw .docx files into there. 08:36 -!- abumirqaan [uid2969@gateway/web/irccloud.com/x-nviqvhruvafcdpmt] has quit [Ping timeout: 246 seconds] 09:02 < phillyj> ok, cool 09:02 < phillyj> i've seen cathal put up lab protocols on it 09:04 -!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has joined ##hplusroadmap 09:05 -!- hehelleshin [~talinck@69-61-156-24.ubr1.dyn.lebanon-oh.fuse.net] has joined ##hplusroadmap 09:06 -!- helleshin 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[~augur@208.58.5.87] has quit [Remote host closed the connection] 11:13 -!- klafka [~klafka@204-16-157-18-static.ipnetworksinc.net] has joined ##hplusroadmap 11:15 -!- klafka_ [~klafka@204-16-157-18-static.ipnetworksinc.net] has joined ##hplusroadmap 11:15 -!- klafka [~klafka@204-16-157-18-static.ipnetworksinc.net] has quit [Read error: Connection reset by peer] 11:34 -!- augur [~augur@208.58.5.87] has joined ##hplusroadmap 11:54 -!- eudoxia [~eudoxia@r186-52-51-195.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap 11:54 < eudoxia> paperbot: http://dl.acm.org/ft_gateway.cfm?id=1869462&ftid=845668&dwn=1&CFID=333425031&CFTOKEN=51878698 11:54 < paperbot> no translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/7a01e5a892a6d7a9f408df01905f9359.pdf 11:56 < eudoxia> paperbot: http://dl.acm.org/ft_gateway.cfm?id=1869526&ftid=845715&dwn=1&CFID=333425031&CFTOKEN=51878698 11:56 < paperbot> no translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/67845a4fb5b009259c389f90ab02c1c0.pdf 12:01 < heath> eudoxia: i'm curious now if those studies took into account haskell :) 12:03 < eudoxia> heh 12:03 < eudoxia> >While in correspondance to [8] Lisp seems to 12:03 < eudoxia> have a positive impact on development time, it also seems 12:03 < eudoxia> that programming in (the statically typed programming 12:03 < eudoxia> language) Haskell requires less effort than for example 12:03 < eudoxia> Ada. 12:06 -!- oblique [~oblique@unaffiliated/oblique] has joined ##hplusroadmap 12:09 -!- a3nm [~a3nm@2001:41d0:8:3bb::1] has left ##hplusroadmap [] 12:13 -!- AshleyWaffle [~quassel@71-217-116-197.tukw.qwest.net] has joined ##hplusroadmap 12:13 -!- AshleyWaffle [~quassel@71-217-116-197.tukw.qwest.net] has quit [Changing host] 12:13 -!- AshleyWaffle [~quassel@unaffiliated/anastasiawyatt] has joined ##hplusroadmap 12:27 < kanzure> http://www.sciencedirect.com/science/activateaccess "To access ScienceDirect from outside your subscribing institutional IP range, your user account needs to be associated to your institution by validating your institutional email. Please enter your email address from the institution that offers you ScienceDirect (e.g. name@university.edu)." 12:27 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has quit [Ping timeout: 256 seconds] 12:27 < kanzure> hmm. so find some holes in some universities, register an email account on a random mail server (not the official mail server), and profit? 12:31 -!- oblique [~oblique@unaffiliated/oblique] has quit [Quit: leaving] 12:31 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has quit [Ping timeout: 245 seconds] 12:39 -!- oblique [~oblique@unaffiliated/oblique] has joined ##hplusroadmap 12:47 < archels> if you're already inside a box on the university network, just wget them 12:48 < kanzure> i wonder if i could route email to root@bryan.svcs.cs.pdx.edu through that form 12:48 -!- augur_ [~augur@208.58.5.87] has joined ##hplusroadmap 12:49 < archels> neither of my university mail addresses is even accepted 12:50 < kanzure> does your university subscribe to elsevier/sciencedirect? 12:50 -!- yorick_ [~yorick@oftn/member/yorick] has joined ##hplusroadmap 12:52 < archels> one I'm sure of, the other probably 12:52 < archels> (ru.nl, tue.nl) 12:54 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has joined ##hplusroadmap 12:54 -!- augur [~augur@208.58.5.87] has quit [Read error: Connection reset by peer] 12:54 -!- yorick [~yorick@oftn/member/yorick] has quit [Ping timeout: 276 seconds] 12:57 -!- phillyj [~chatzilla@static-96-227-241-38.phlapa.fios.verizon.net] has quit [Quit: ChatZilla 0.9.90 [Firefox 21.0/20130511120803]] 12:59 -!- ThomasEgi [~thomas@185.5.8.81] has joined ##hplusroadmap 12:59 -!- ThomasEgi [~thomas@185.5.8.81] has quit [Changing host] 12:59 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has joined ##hplusroadmap 13:36 -!- AshleyWaffle [~quassel@unaffiliated/anastasiawyatt] has quit [Remote host closed the connection] 13:39 -!- _sol_ [~Sol@c-174-57-58-11.hsd1.pa.comcast.net] has quit [Ping timeout: 252 seconds] 13:49 -!- eudoxia [~eudoxia@r186-52-51-195.dialup.adsl.anteldata.net.uy] has quit [Quit: leaving] 14:13 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has joined ##hplusroadmap 14:17 -!- yorick_ [~yorick@oftn/member/yorick] has quit [Remote host closed the connection] 14:35 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has quit [Ping timeout: 276 seconds] 14:56 -!- makoLime [~mako@103-9-42-133.flip.co.nz] has joined ##hplusroadmap 15:00 -!- Viper168 [~Viper@unaffiliated/viper168] has quit [Ping timeout: 256 seconds] 15:34 -!- EnLilaSko [EnLilaSko@unaffiliated/enlilasko] has quit [Remote host closed the connection] 16:00 -!- AshleyWaffle [~quassel@71-217-116-197.tukw.qwest.net] has joined ##hplusroadmap 16:00 -!- AshleyWaffle [~quassel@71-217-116-197.tukw.qwest.net] has quit [Changing host] 16:00 -!- AshleyWaffle [~quassel@unaffiliated/anastasiawyatt] has joined ##hplusroadmap 16:04 -!- Viper168 [~Viper@unaffiliated/viper168] has joined ##hplusroadmap 16:06 -!- ThomasEgi [~thomas@panda3d/ThomasEgi] has quit [Remote host closed the connection] 16:16 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has joined ##hplusroadmap 16:23 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has quit [Ping timeout: 276 seconds] 16:25 -!- smeaaagle [~smeaaagle@2002:6ca6:4fb1::6ca6:4fb1] has quit [Read error: Operation timed out] 16:29 -!- smeaaagle [~smeaaagle@2002:6ca6:4fb1::6ca6:4fb1] has joined ##hplusroadmap 16:33 < kanzure> "Bryan: There was an off list discussion where we decided we liked google pages better than mediawiki." 16:33 < kanzure> uh.. well, i give them points for not liking mediawiki, but google pages seems like a step in the opposite direction. 16:38 -!- gene_hacker [~chatzilla@cpe-70-113-91-92.austin.res.rr.com] has joined ##hplusroadmap 16:38 < kanzure> "The main problem was that not enough people were using the wiki. And since we were already comfortable using google docs to do collaborative editing, and google groups for the mailing list, I think it makes sense to switch to a somewhat better integrated platform." 16:38 < kanzure> how unfortunate. 16:39 < kanzure> gene_hacker: hi 16:44 -!- eudoxia [~eudoxia@r186-52-168-69.dialup.adsl.anteldata.net.uy] has joined ##hplusroadmap 16:44 < eudoxia> kanzure: it only gets worse, doesn't it? 16:45 < kanzure> that's the east bay diybio group. voting for google lock-in. really mind boggling. 16:45 < kanzure> also, when did this happen? http://cia.vc/ 16:46 < kanzure> "CIA.vc, the open source "version control informant", was a source code commit notification service. It helped people collaborate more efficiently on open source projects, by broadcasting code changes over Internet Relay Chat." 16:46 < kanzure> "This project first went online back in 2003, when the internet was a very different place. Since then, IRC and Subversion have taken a back seat to Twitter and Github. For many people, the service offered by CIA would be just as relevant today as it was when the site first went live; but for myself as well as many former and potential supporters of the project, this sort of centralized fast-paced development just isn't as compelling. ... 16:46 < kanzure> ... Technology moves on, and I've personally moved on." 16:46 < kanzure> http://scanlime.org/2011/05/cia-vc-service-is-down-indefinitely/ 16:46 < kanzure> http://shadowm.rewound.net/blog/archives/245-CIA.vc-is-dead.html 16:46 < kanzure> .title https://lwn.net/Articles/518955/ 16:46 < yoleaux> CIA.vc shuts down [LWN.net] 16:46 < eudoxia> why did he have to call it CIA 16:48 < kanzure> pretty neat to see the source code up though http://code.google.com/p/cia-vc/source/browse/ 16:50 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has joined ##hplusroadmap 16:54 -!- WinterIsComing [~textual@pool-108-35-189-82.nwrknj.fios.verizon.net] has quit [Ping timeout: 264 seconds] 17:03 -!- chris_99 [~chris_99@unaffiliated/chris-99/x-3062929] has quit [Quit: Leaving] 17:10 < gene_hacker> know of any good hackerspaces in california kanzure? 17:11 < kanzure> noisebridge, los angeles biohackers, biocurious, sudo room 17:12 < kanzure> if you are willing to accept a commercial entity as an answer, then techshop too. 17:12 < gene_hacker> sudo room? 17:12 < gene_hacker> is hacker dojo any good 17:12 < kanzure> hacke rdojo is a bunch of office chairs 17:12 < kanzure> *hacker dojo 17:12 < gene_hacker> techshop is waaaaaay too expensive 17:12 < gene_hacker> that's what I thought 17:12 < kanzure> then you want noisebridge 17:13 < kanzure> biocurious is also useful but has no machining capability whatsoever 17:13 < kanzure> btw noisebridge is on irc in #noisebridge 17:14 < gene_hacker> definately visiting biocurious on their bioluminescent night 17:14 < gene_hacker> can one just drop into noisebridge? 17:14 < kanzure> if you are in san francisco then let us know, there's a few people in here who you should hang out with 17:14 < kanzure> yes you can just drop into noisebridge, but sometimes you have to complain loudly to be let in (either call someone you know, or find the doorbell, or something) 17:15 < gene_hacker> going to be in san francisco 17:15 < kanzure> also you should stop by langton labs and meet 3scan/cambrian genomics/other people 17:15 -!- eudoxia [~eudoxia@r186-52-168-69.dialup.adsl.anteldata.net.uy] has quit [Read error: Connection reset by peer] 17:16 < kanzure> hah you could meet up with carl crott (delinquentme).. he's been building his orbital shaker and liquid handler. 17:16 < kanzure> also Juul 17:17 < gene_hacker> what's langton labs? 17:18 < kanzure> communal living space for a group of molecular biologists and creative folks 17:18 < kanzure> houses http://3scan.com/ and http://cambriangenomics.com/ 17:18 < gene_hacker> cool 17:20 < kanzure> has some fun people like http://anselmlevskaya.com/ and http://craneium.net/ 17:20 -!- delinquentme [~asdfasdf@pool-71-182-199-191.nwrknj.fios.verizon.net] has joined ##hplusroadmap 17:20 < delinquentme> paperbot, http://www.ncbi.nlm.nih.gov/pubmed?term=perspectives%20on%20whole%20organ%20assembly 17:20 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/67ee5fb646ad3d800a9cbb08bea1c5b3.txt 17:20 < kanzure> delinquentme: hey, gene_hacker will be in SF soon and you should hang out with him 17:21 < delinquentme> gene_hacker, !!! 17:21 < gene_hacker> sup 17:21 < delinquentme> when are you gonna be in town??? 17:21 < gene_hacker> like saturday through tuesday 17:21 < delinquentme> aww fack. I'm getting back 6/6 17:22 < gene_hacker> oh well 17:22 < kanzure> delinquentme: hook him up with some people? 17:22 < delinquentme> currently in pittsburgh 17:22 < gene_hacker> what sort of liquid handler are you making? 17:22 < delinquentme> gene_hacker, what are you into homeslice?? 17:22 < gene_hacker> not much as of yet 17:24 < delinquentme> gene_hacker, I wish it was made ... kanzure Im interested in one which can be fabbed on chip 17:24 < kanzure> gene_hacker does things like http://www.instructables.com/id/Build-a-Polar-3-D-Printer-from-Legos/ 17:24 < kanzure> or erm.. http://boingboing.net/2008/09/01/howto-make-a-3d-prin.html 17:24 < kanzure> honestly i forget the url 17:25 < gene_hacker> trying to get my master degree, trying to design a simple machine controller(as in relays) that can be 3d printed 17:25 < gene_hacker> trying to design some 3d printable relays, and looking for a way to print a fluid stepper motor 17:25 < kanzure> you should definitely go to biocurious at least for a little while. they might have an event on saturday or in the evenings. 17:26 < gene_hacker> so a microfluidic liquid handler then? 17:27 < gene_hacker> I assume you are using PDMS or something like that? 17:43 < delinquentme> gene_hacker, thats wild!! 17:44 < gene_hacker> what? 17:44 < delinquentme> the polar lego printer :D 17:44 < delinquentme> gene_hacker, yeah so the macro liquid handler I had I didn't like bc its not actually BUILDING on techniques which could get us mass reproducibility 17:45 < delinquentme> http://strong-flower-9013.herokuapp.com/ << LH002 17:45 < delinquentme> SO microlfuidics + some integrated circuit scale manufacturing 17:45 < delinquentme> and you've got a hella replicable liquid handler for like 500 17:45 < gene_hacker> nice 17:46 < gene_hacker> for invitro work? 17:46 < delinquentme> however im geeking out on replacement organs and cantilevers right now 17:46 < delinquentme> gene_hacker, yeah I mean unless you knwo someone whos cool with me attaching a 2x3x3 foot cube to their body 17:47 < delinquentme> Id be willing to do the implanting free of charge 17:47 < delinquentme> however they'd have to sign a bit of paperwork 17:47 < delinquentme> kanzure, whatchoo know about functionalized cantilevers in microfluidics for biomarker detection? 17:48 < delinquentme> I'm guessing you've got a research paper folder? 17:48 < gene_hacker> I was thinking more like nematodes and other biological models you can fit in a test tube 17:48 < gene_hacker> detecting a bacterium by it's weight? 17:49 < Viper168> babies 17:49 < kanzure> gene_hacker: have you seen davidad's work on his nematode simulator? 17:49 < Viper168> in really big test tubes 17:49 < kanzure> oh also kirka did a thing recently.. 17:49 < kanzure> http://fennetic.net/irc/kirka_worm_simulator.gif 17:49 < gene_hacker> yup 17:50 < gene_hacker> this? http://www.artificialbrains.com/openworm 17:50 < kanzure> that was 09:40 < kirka> If someone is interested here is my simple physical model of c.elegans http://anonymousdelivers.us/49074 17:51 < kanzure> openworm is http://openworm.org/ 17:51 < kanzure> but davidad's things are at http://nemaload.davidad.org/ 17:52 < kanzure> oh come on now he's just showing off to us "David's research is personally funded by Larry Page, CEO of Google." 17:52 < gene_hacker> delinquentme there's this: http://docs.lib.purdue.edu/cgi/viewcontent.cgi?article=1000&context=nanodocs 17:53 < kanzure> .title 17:53 < delinquentme> The fucking issue with *ALL* simulations is false negatives 17:53 < yoleaux> kanzure: Sorry, that doesn't appear to be an HTML page. 17:53 < delinquentme> no one has a good fucking answer for that. 17:53 < gene_hacker> and it 17:53 < delinquentme> we need actual testing. 17:54 < gene_hacker> 's probably cheaper to grow a whole bunch of nematodes and experiment on them than it is to simulate them 17:54 < delinquentme> gene_hacker, the sim is probably faster 17:54 < delinquentme> that is im guessing, is the primary advantage... but yes it seems like " false negative " is a dirty word around any simulation operation 17:54 < kanzure> gene_hacker: actually someone did that and uploaded 10,000 hours of video 17:55 < gene_hacker> where? 17:55 < kanzure> ftp://anonymous@ftp.mrc-lmb.cam.ac.uk/pub/tjucikas/wormdatabase/results-12-06-08/Laura%20Grundy 17:55 < kanzure> more information can be found here: http://wormbehavior.mrc-lmb.cam.ac.uk/ 17:55 < gene_hacker> sounds like a great training dataset 17:56 < kanzure> i haven't actually watched any percentage of these videos, so i can't comment on quality.. i hear it's okay. 17:56 < gene_hacker> for a computer I mean 18:04 -!- klafka_ [~klafka@204-16-157-18-static.ipnetworksinc.net] has quit [Remote host closed the connection] 18:06 < delinquentme> kanzure, functionalized cantilevers? 18:06 < kanzure> dunno, look in http://diyhpl.us/~bryan/papers2/microfluidics/ 18:06 < delinquentme> any info .. or thoughts? I'd love a way to release the biomarkers post binding as well :D 18:06 < kanzure> i am busy fixing javascript things 18:06 < delinquentme> for paperboot? 18:06 -!- delinquentme [~asdfasdf@pool-71-182-199-191.nwrknj.fios.verizon.net] has quit [Quit: Leaving] 18:07 -!- klafka [~klafka@204-16-157-18-static.ipnetworksinc.net] has joined ##hplusroadmap 18:08 -!- zdap [~not@bas5-kingston08-1177886073.dsl.bell.ca] has joined ##hplusroadmap 18:08 -!- pad2 [~not@69.158.79.13] has quit [Ping timeout: 264 seconds] 18:11 -!- klafka [~klafka@204-16-157-18-static.ipnetworksinc.net] has quit [Remote host closed the connection] 18:13 < kanzure> no not paperbot :( 18:24 -!- yashgaroth [~ffffff@cpe-66-27-118-94.san.res.rr.com] has joined ##hplusroadmap 18:25 < yashgaroth> paperbot: http://www.nature.com/mt/journal/v21/n5/abs/mt201333a.html 18:25 < paperbot> HTTP 401 unauthorized http://www.nature.com/mt/journal/v21/n5/pdf/mt201333a.pdf 18:25 < yashgaroth> noooooo 18:26 < kanzure> yashgaroth: http://diyhpl.us/wiki/articles 18:26 < kanzure> yashgaroth: (try the russian one) 18:27 < yashgaroth> it sends me to a forums homepage? if you mean sci-hub 18:28 < kanzure> well first you need to be in russia 18:29 < yashgaroth> 1 sec 18:29 -!- lichen_ [~lichen@c-24-21-206-64.hsd1.or.comcast.net] has quit [Quit: Lost terminal] 18:29 < kanzure> set proxy to 109.198.126.112:8080 then try again 18:29 < kanzure> or 46.21.240.253:3128 18:30 < yashgaroth> man I ain't got time to be setting proxies 18:30 -!- superkuh [~superkuh@unaffiliated/superkuh] has quit [Quit: the neuronal action potential is an electrical manipulation of reversible abrupt phase changes in the lipid bilayer] 18:49 -!- gene_hacker [~chatzilla@cpe-70-113-91-92.austin.res.rr.com] has quit [Ping timeout: 256 seconds] 18:54 -!- FooQuuxman [~test@c-98-215-254-55.hsd1.il.comcast.net] has quit [Read error: Operation timed out] 19:05 -!- DoktorUnicorn [~DoktorUni@c-76-27-127-22.hsd1.ut.comcast.net] has joined ##hplusroadmap 19:05 < kanzure> DoktorUnicorn: hello 19:26 -!- delinquentme [~asdfasdf@pool-71-182-199-191.nwrknj.fios.verizon.net] has joined ##hplusroadmap 19:37 -!- makoLime [~mako@103-9-42-133.flip.co.nz] has quit [Ping timeout: 258 seconds] 19:40 -!- lichen [~lichen@c-24-21-206-64.hsd1.or.comcast.net] has joined ##hplusroadmap 19:53 < heath> paperbot: http://onlinelibrary.wiley.com/doi/10.1002/anie.201005931/abstract 19:53 < paperbot> no translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/3011fd5d1349d902d74ab0ecd92576d7.txt 19:53 < heath> paperbot: https://www.sciencemag.org/content/336/6085/1171.abstract 19:54 < paperbot> SSLError: [Errno 1] _ssl.c:504: error:140770FC:SSL routines:SSL23_GET_SERVER_HELLO:unknown protocol (file "/usr/local/lib/python2.7/dist-packages/requests/models.py", line 632, in send) 19:55 -!- ielo [~ielo@184.88.56.168] has joined ##hplusroadmap 19:59 < kanzure> paperbot needs your help 19:59 < kanzure> paperbot needs people 20:00 < kanzure> because people need paperbot. ok this is a bad advertisement, but you get the idea. 20:03 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has joined ##hplusroadmap 20:10 < kanzure> Juul: hey gene_hacker is coming through SF on saturday-tuesday, you fancy a time to meet up? he wanted to stop by noisebridge or some other hackerspace. 20:13 -!- ielo [~ielo@184.88.56.168] has quit [Ping timeout: 264 seconds] 20:15 < delinquentme> Juul, !!!!!!!!!!!!!!!!!!!!!!!!! 20:15 * delinquentme hugs 20:15 < Juul> hi delinquentme :) 20:15 < delinquentme> sooooo when we're talking about antibodies functionalized to a substrate... 20:16 < delinquentme> is there a way to say .. detach given analytes from the binding sites? 20:16 < delinquentme> I'd guess it can be done through a current change... 20:17 -!- klafka [~klafka@c-67-174-253-229.hsd1.ca.comcast.net] has joined ##hplusroadmap 20:17 < delinquentme> as I believe the impedance changes through the cantilever when additional alalytes attach 20:17 < delinquentme> hence we can measure the quantity of a given biomarker through a sample 20:17 < delinquentme> NOW... if they could be detached ... we've got an awesome system for marker-free detection 20:18 < delinquentme> ALSO I was thinking about a solution for type 1 diabetes 20:18 < delinquentme> apparently people have developed microfluidic wells with "molecular caps" which can be detached 20:19 < delinquentme> so i'm thinking what if you could implant someone with a chip full of insulin wells ... and sample blood glucose levels ... on spike address a cap from the well and release the insulin 20:26 < delinquentme> le blah. 20:27 < delinquentme> nobody larvs mar 20:27 < delinquentme> kanzure, hug? 20:27 < delinquentme> klafka, harg? 20:28 < kanzure> wait longer. not everyone can jump to action at once. i'm still bugging some debuggers for some other bugged bug things. 20:41 < delinquentme> does anyone know of a good bay area accountant? 20:43 < delinquentme> paperbot, http://www.ncbi.nlm.nih.gov/pubmed/11533645 20:43 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/1a2e3b414c2e1a6242e6cdc924196d6e.txt 20:44 < jrayhawk> T1Ds are also amylin and glycogen dysregulated 20:45 < Juul> delinquentme, that's interesting, do you have a link to the article about molecular caps? 20:45 < Juul> i'm not very well-versed in antibodies. 20:45 < delinquentme> Juul, Its in this book I picked up ... lemme see if I can find the ref for it 20:45 < delinquentme> but yeah they're individually addressable molecule tops which could be popped off 20:46 < delinquentme> the question is what would the refill process look like 20:46 < delinquentme> or like better yet! what if you could design a surface/skin mounted delivery system 20:47 < Juul> i think darpa has funded some research on that 20:47 < delinquentme> was reading about a process called anisotropic etching which researchers have used to create delivery systems which are JUST the right size for delivery w/o nerve end interaction 20:48 < delinquentme> IE painless and skin-mounted drug / substance delivery 20:53 < delinquentme> Juul, from what you know ... when we're talking about detaching an analyte from a bound docking surface 20:53 < delinquentme> that process... what would it be called? Any idea? 20:59 < kanzure> cleaving 21:00 < delinquentme> Dr. Thomas, I've come across a paper of yours and I'm wondering if your group has pursued any means to detach a given analyte from the functionalized cantilever. I'd guess that a given pulse of electricity would do the trick? 21:00 < delinquentme> that might sound slightly ignorant 21:00 < kanzure> you can usually wash away certain antibodies 21:02 < yashgaroth> elution 21:02 < kanzure> i was about to say "yashgaroth probably has some terminology, but he isn't around", but then i thought better of it because it would be disappointing, but you delivered. you delivered. 21:02 < yashgaroth> not sure how electrocution affects antibody binding 21:03 < yashgaroth> or how you read a microcantilever in a tiny chip 21:03 < yashgaroth> implanted chip, anyway 21:03 < kanzure> microcantilevers is how afm works, you bounce light off of them and read curvature. 21:04 < yashgaroth> cramming an afm into your arm seems like a hassle 21:04 < kanzure> most afm setups are big because people suck at stability 21:04 < kanzure> stabilization or w/e 21:04 < kanzure> not like financial stability. :( 21:04 < yashgaroth> also, developing a membrane that only lets in tiny molecules like glucose, and also somehow doesn't get encapsulated by the body 21:05 < kanzure> isn't that what dialysis cellulose membrane things do? 21:05 < yashgaroth> none of them have pores that small, and they would get encapsulated 21:06 < yashgaroth> I suppose if they block almost all proteins the pore size is mostly irrelevant 21:07 < yashgaroth> implantable or other constant-monitoring biomarker sensors are one of them holy grails 21:07 < kanzure> haven't we had digestable jpeg-transmitting capsules for a while now? 21:08 < delinquentme> yashgaroth, there are a few ways to read the cantilever 21:08 < yashgaroth> that's not actually inside the body if you take a strict biologist's view, the digestive tract is epithelial 21:09 < delinquentme> thats actually a really interesting way to make a hella small AFM... 21:09 < delinquentme> ahhh ok so mass / dampening 21:09 < kanzure> an afm cantilever is already small.. what do you think they do, poke atoms with a 5 foot pole? 21:09 < delinquentme> but the whole system isnt 21:10 < delinquentme> yashgaroth, the issue is though what if we've got 400 biomarkers we're detecting ... that means nearly a single wash step for every cantilever 21:11 < yashgaroth> well washing with acid or high salt or both will usually knock off most stuff 21:11 < kanzure> huh? i don't understand your setup. 21:11 < yashgaroth> wait, 400 different biomarkers? 21:11 < kanzure> most people just put biomarkers on a plate and then they look at the plate. 21:11 < delinquentme> electrocution sounds like it could work because you've already got interaction forces between analyte and the binding site ... give it sufficient energy and maybe it will cause some kind of bump to a new minima 21:11 -!- gene_hacker [~chatzilla@cpe-70-113-91-92.austin.res.rr.com] has joined ##hplusroadmap 21:11 < kanzure> i think they even do this with cmos things 21:12 < yashgaroth> electricity will probably denature and/or destroy your protein 21:12 < delinquentme> yashgaroth, kanzure I'm thinking over what a microfluidic setup for tons of biomarkers 21:12 < delinquentme> yashgaroth, you're saying the one I've got on the cantilever as a binding site? 21:12 < delinquentme> I mean it depends on the protein 21:12 < yashgaroth> sure, that one 21:13 < heath> paperbot: http://pubs.acs.org/doi/abs/10.1021/nl103427w 21:13 < paperbot> error: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/Single-Molecule%20Kinetics%20and%20Super-Resolution%20Microscopy%20by%20Fluorescence%20Imaging%20of%20Transient%20Binding%20on%20DNA%20Origami.txt 21:13 < delinquentme> yashgaroth, you lame ;D 21:13 < delinquentme> ONES 21:13 < delinquentme> excruse 21:14 < delinquentme> http://en.wikipedia.org/wiki/Surface_plasmon_resonance 21:14 < delinquentme> I still fail to grok where the plasmon operation happens here 21:14 < delinquentme> operation = "interaction" 21:15 < yashgaroth> also note that all these super-awesome microfluidics and plasmon resonance analysis techniques take place with a machine that's bigger than most diabetics 21:15 < delinquentme> yashgaroth, currently yeah 21:15 < delinquentme> why though 21:15 < yashgaroth> I don't know, quantum shit 21:16 < delinquentme> hahahaha 21:16 < delinquentme> percieved value 21:16 < delinquentme> " if its the size of a fucking car they think they're getting more for their money " 21:16 < delinquentme> " Just throw a few lead bricks in it " 21:17 < delinquentme> SCIENCE! ( marketing ) 21:18 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has quit [Ping timeout: 264 seconds] 21:19 -!- AshleyWaffle_ [~quassel@71-217-116-197.tukw.qwest.net] has joined ##hplusroadmap 21:21 -!- devrando1 [~devrandom@50-0-206-254.dsl.dynamic.sonic.net] has quit [Ping timeout: 240 seconds] 21:21 -!- AshleyWaffle [~quassel@unaffiliated/anastasiawyatt] has quit [Ping timeout: 264 seconds] 21:22 -!- devrandom [~devrandom@50-0-206-254.dsl.dynamic.sonic.net] has joined ##hplusroadmap 21:22 < delinquentme> yashgaroth, I just posted that on FB :P 21:25 < heath> paperbot: http://www.nature.com/nnano/journal/v7/n6/full/nnano.2012.73.html 21:25 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/Molecularly%20self-assembled%20nucleic%20acid%20nanoparticles%20for%20targeted%20in%20vivo%20siRNA%20delivery.pdf 21:26 -!- Juul [~Juul@c-67-170-193-114.hsd1.ca.comcast.net] has joined ##hplusroadmap 22:16 < heath> paperbot: http://www.nature.com/ncomms/journal/v4/n4/full/ncomms2690.html 22:16 < paperbot> HTTP 401 unauthorized http://www.nature.com/ncomms/journal/v4/n4/pdf/ncomms2690.pdf 22:22 < heath> paperbot: https://www.sciencemag.org/content/335/6070/831 22:22 < paperbot> SSLError: [Errno 1] _ssl.c:504: error:140770FC:SSL routines:SSL23_GET_SERVER_HELLO:unknown protocol (file "/usr/local/lib/python2.7/dist-packages/requests/models.py", line 632, in send) 22:23 < kanzure> still don't know why that's a problem 22:26 < heath> https://www.microryza.com/ :: follow and fund research (kickstarter for science) 22:26 < kanzure> you are about two years slow 22:26 < kanzure> also they got into ycombinator this year 22:29 < heath> paperbot: https://www.sciencemag.org/content/338/6106/506.abstract 22:29 < paperbot> SSLError: [Errno 1] _ssl.c:504: error:140770FC:SSL routines:SSL23_GET_SERVER_HELLO:unknown protocol (file "/usr/local/lib/python2.7/dist-packages/requests/models.py", line 632, in send) 22:29 < kanzure> i don't think you understand.. https on sciencemag.org isn't gonna work until someone fixes paperbot. 22:32 < heath> i was publically logging notes to myself... but i can just bring it to ##note-to-self 22:32 < heath> publicly rather* 22:35 < heath> http://wired.jp/2013/05/05/dnahackers/ 22:58 < heath> http://www.bio-x.cn/foldna/ :: a webserver for DNA nanostructure autoscaffold and autostaple 22:58 < heath> paper describing it: http://www.hindawi.com/journals/jnt/2012/453953/ 23:04 < heath> http://molbot.org/ :: molecular robotics research group 23:06 -!- gene_hacker [~chatzilla@cpe-70-113-91-92.austin.res.rr.com] has quit [Ping timeout: 264 seconds] 23:08 -!- kmo [122@d30-138.icpnet.pl] has joined ##hplusroadmap 23:08 -!- kmo [122@d30-138.icpnet.pl] has quit [Changing host] 23:08 -!- kmo [122@unaffiliated/kmo] has joined ##hplusroadmap 23:12 -!- klafka_ [~klafka@c-24-6-18-31.hsd1.ca.comcast.net] has joined ##hplusroadmap 23:15 -!- klafka [~klafka@c-67-174-253-229.hsd1.ca.comcast.net] has quit [Ping timeout: 264 seconds] 23:17 < heath> Congressional Biomedical Research Caucus 2013 Briefing Series :: http://www.coalitionforlifesciences.org/cbrc/cbrc-briefings/cbrc-briefing-schedule 23:19 -!- DoktorUnicorn [~DoktorUni@c-76-27-127-22.hsd1.ut.comcast.net] has quit [Ping timeout: 276 seconds] 23:19 -!- DoktorUnicorn [~DoktorUni@c-76-27-127-22.hsd1.ut.comcast.net] has joined ##hplusroadmap 23:20 < heath> https://www.sciencemag.org/content/328/5986/1662.abstract 23:26 -!- ParahSailin [~Rob@50-194-178-148-static.hfc.comcastbusiness.net] has quit [Read error: Connection reset by peer] 23:27 -!- ParahSailin [~Rob@50-194-178-148-static.hfc.comcastbusiness.net] has joined ##hplusroadmap --- Log closed Thu May 30 00:00:41 2013