--- Log opened Sat Jul 27 00:00:37 2013
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07:46 < superkuh> paperbot: http://www.nature.com/npp/journal/vaop/ncurrent/full/npp2013164a.html
07:47 < paperbot> http://libgen.org/scimag/get.php?doi=10.1038%2Fnpp.2013.164
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08:43 < archels> http://vimeo.com/71064267
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09:54 <@kanzure> .title
09:54 < yoleaux> Glassified: Ruler with transparent display to supplement physical drawing on Vimeo
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10:47 <@kanzure> paperbot: http://stke.sciencemag.org/cgi/content/abstract/sigtrans;6/285/ra62
10:47 <@kanzure> .title
10:47 < yoleaux> Superresolution Microscopy Reveals Nanometer-Scale Reorganization of Inhibitory Natural Killer Cell Receptors upon Activation of NKG2D -- Pageon et al. 6 (285): ra62 -- Science Signaling
10:48 < paperbot> http://libgen.org/scimag/get.php?doi=10.1126%2Fscisignal.2003947
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10:50 <@kanzure> shopbot is using kickstarter as part of their launch campaign for a product.. http://www.handibot.com/
10:50 <@kanzure> "Our plan is that the Handibot will be open source hardware tool (initial model now available on GitHub), that it will be operated by task- or job-oriented "apps" that will be made available as free and open or paid (depending on the developers choice),"
10:50 <@kanzure> i can't find the promised git repository..
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11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=664283c6 Bryan Bishop: link to the recent nature.com article
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=0752d919 Bryan Bishop: diybio group in bogotá, columbia
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=643c82dc Bryan Bishop: biohacker in kiev, ukraine
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=d5f68ccd Bryan Bishop: update biohackers in pittsburgh
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=8e3a69f1 Bryan Bishop: update biotechnbeyond members
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=7cb58718 Bryan Bishop: even more pittsburgh people
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=64ebb355 Bryan Bishop: document an indiana biohacking group
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=89c58153 Bryan Bishop: place div anchors near columbia group
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=a83188e5 Bryan Bishop: fix biohacker in lawrence, kansas
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=3853b4a2 Bryan Bishop: biohackers in perth, australia
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=f01a6844 Bryan Bishop: patrik and other hackers at counterculturelabs.org
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=06a63be1 Bryan Bishop: biohackers in moscow
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=33560598 Bryan Bishop: another biohacker in ukraine
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=350c7c57 Bryan Bishop: some biohackers in italy
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=27873b8e Bryan Bishop: hackers from são paulo, brazil
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=87c7b56a Bryan Bishop: diybio group in minneapolis, minnesota
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=30ba7c17 Bryan Bishop: biology team in philadealphia
11:24 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=046109df Bryan Bishop: fix up the houston biohacking peeps
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11:26 <@kanzure> oh darn, i didn't even notice the philadealphia TYPO
11:28 -!- mode/##hplusroadmap [+oooo fenn ParahSail1n klafka heath] by kanzure
11:28 <@kanzure> heath: you should add yourself to that file
11:56 <@kanzure> any chance i can convince one of you to try brlcad + swig?
11:56 <@kanzure> oh yuck.. http://www.bulletproofexec.com/51-transhumanism-technology-the-future-with-natasha-vita-more-podcast/
11:56 <@kanzure> jrayhawk_: it's spreading
12:05  * heath didn't think <div /> was valid
12:08 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=5b7f6a71 heath: 
12:08 <@heath> added (with no comment, oops)
12:11 <@kanzure> the divs are just for link anchors instead of <a name=>.
12:12 <@kanzure> huh, is this guy saying that you can do cookie tossing from a gmail html attachment that loads an iframe? is that even allowed? http://homakov.blogspot.com.es/2013/07/googleusercontentcom-fun-or-snowden-is.html
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13:00 <@kanzure> i don't think the content is worth reading, but the title was chuckle worthy http://blog.penelopetrunk.com/2009/01/08/5-time-management-tricks-i-learned-from-years-of-hating-tim-ferriss/
13:37  * heath is curious what are the sequences used for gates in this paper
13:37 <@heath> http://dna.caltech.edu/Papers/DNA_logic_circuits2006.pdf
13:37 <@heath> .title
13:37 < yoleaux> heath: Sorry, that doesn't appear to be an HTML page.
13:37 <@heath> eh, it doesn't do pdfs, i forget
13:37 <@heath> Enzyme-Free Nucleic Acid Logic Circuits.
13:42 <@kanzure> it's almost as if you've never read the paper that resulted from my work on that topic
13:42 <@heath> because i haven't
13:42 <@heath> linkage?
13:42 <@heath> is it the one where you weren't credited?
13:43 <@kanzure> yes.
13:43 <@kanzure> http://diyhpl.us/~bryan/papers2/ellington/Modelling%20amorphous%20computations%20with%20transcription%20networks%20-%202009.pdf
13:45 <@kanzure> jrayhawk_: what was your earlier point about me being a terrible person for not having a long list of non-engineering-related tasks for people to do?
13:45 <@kanzure> jrayhawk_: i can't remember the full structure of that argument/complaint.
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15:05 <@heath> unfortunately i don't have much of antying to say except i don't know why it'
15:05 <@heath> s Frezza et. al. in section 3.3 and Winfree and co-workers earlier in the paper :)
15:06 <@heath> it was a short, plesant read, not sure why i never took the time to read it previously
15:10 <@heath> what does the C stand for in C1.0 and C2.0?
15:10 <@heath> "construct"
15:11 <@heath> it's the name of the oligo
15:11 <@heath> yeah?
15:13 <@heath> ^directed at anyone who cares to read the paper, not necessarily le bryan
15:15  * heath rereads
15:17 <@heath> just a variable name it seems
15:26 <@heath> .title https://www.youtube.com/watch?v=yXd4EJMg4aA
15:26 < yoleaux> Where computation and fabrication meet: Using computers to mimic biology (Zack Booth Simpson) - YouTube
15:27 <@heath> that's played about 3 times now in the background
15:27  * heath is curious what happened which prevented you, kanzure, from being credited
15:34 <@kanzure> didn't stick around at that lab long enough
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17:30 <@heath> any idea how much dictionary.com is bringing in?
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18:13 <@kanzure> google groups is incorrectly parsing email headers, https://groups.google.com/forum/#!topic/diybio/qyUPU9HhXYg
18:14 <@kanzure> here's the raw headers: https://groups.google.com/forum/#!original/diybio/qyUPU9HhXYg/_3A5AscNj08J
18:14 <@kanzure> oops i mean https://groups.google.com/forum/message/raw?msg=diybio/qyUPU9HhXYg/_3A5AscNj08J
18:14 <@kanzure> it looks like the problem is with the Content-Type header
18:17 <@kanzure> the headers are getting into his message text and also it's acting like his reply is a new thread (although it's possible that he intentionally stripped whatever headers are necessary for figuring out which thread/email he was replying to)
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18:33 <@kanzure> fellowman: hi
18:35 <@ParahSail1n> paperbot, http://endo.endojournals.org/content/102/6/1925.long
18:35 < paperbot> http://libgen.org/scimag/get.php?doi=10.1210%2Fendo-102-6-1925
18:36 <@ParahSail1n> paperbot: http://dx.doi.org/10.1210%2Fendo-102-6-1925
18:36 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/bd3371bca2ab3881b095dce21ed0794b.txt
18:36 <@ParahSail1n> paperbot: http://dx.doi.org/10.1210%2Fendo-102-6-1925
18:36 < paperbot> http://diyhpl.us/~bryan/papers2/paperbot/11c3dd4254ada964207578912fc880a6.txt
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19:46 <@kanzure> the next version of pdfparanoia is going to be dubbed nsaparanoia
19:46 <@ParahSail1n> we all know you're a fed
19:48 <@heath> i don't understand how we are able to engineer proteins and yet protein design is NP hard
19:49 <@kanzure> it depends on how you define engineering
19:50 <@heath> kanzure: if you have time, would you expand on this? this has been bugging me a little while now
19:50 <@kanzure> if i delete a fragment of a protein by removing a few domains, is that engineering?
19:50 <@kanzure> it's mostly just a philosophical debate and it doesn't matter
19:55 <@ParahSail1n> the amount of "engineering" in what people are doing these days is very primitive
19:56 < gradstudentbot> Someone stole my pipette.
19:56 <@kanzure> it's a hugely ridiculous amount of guesswork
19:57 <@kanzure> sometimes there are practical and obvious reasons to not put two residues next to each other
19:57 < yashgaroth> most protein engineering is directed evolution
19:57 <@kanzure> there is some under the name 'rational protein design' or something
19:58 <@kanzure> but yeah much more in forced selection projects
19:58 < yashgaroth> if you have the crystal structure I imagine that makes it a bit easier to manually tinker
19:58 < yashgaroth> or there's protein fusion, the lazy man's engineering
19:59 <@ParahSail1n> people have made de novo enzymes and theyve been crap, but still pretty amazing they worked at all
20:00 < yashgaroth> yeah the baker lab does some amazing stuff considering
20:04 <@kanzure> my experience with protein engineering has been limited to just deleting or adding extra residues in dna polymerase variants
20:05 <@kanzure> i am still unhappy with ribbon models to visualize protein structure
20:06  * kanzure pokes proteinbot
21:10 <@heath> thanks
21:10 <@heath> from the video linked earlier
21:10 <@heath> """As long as we were trying to mimic birds, we never suceeded. it was when we gave up trying to mimic them and started an engineering discicipline of building wind tunnels and isolating lift from drag, that we begin to make progress. And only once we had an engineering discipline of aeronautics were we able to go back and ask the question "how do birds fly?" So engineering and science are coupled to each other, you have to have both of them to make
21:10 <@heath>  progress..  and biology has been constrained for centuries by the fact that it has not had an engineering discipline that goes along with it."""
21:13 <@ParahSail1n> i think flapping is a big part of their flying
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21:29 <@heath> if you have the space...
21:29 <@heath> http://archive.org/details/Best_of_8_Bit_Collective-2006-2011
21:29 <@heath> it's worth all 19gb
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23:56 <@heath> are these overlapping? https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2860119/figure/F1/?report=objectonly
23:56 <@heath> these +channels
23:56 <@heath> hm, or is this a 3d microfluidic chip...
--- Log closed Sun Jul 28 00:00:38 2013