2013-03-28.log

--- Log opened Thu Mar 28 00:00:40 2013
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cerillioHi00:17
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BioGuykanzure me? sorry I was looking at other stuff00:20
Lemminkainenhallo cerillio00:20
cerillioHi lemmi00:21
Lemminkainenwie geht's in your hood?00:27
BioGuyAnyone know if there are any federal laws a DIYBio community should know about regarding genetic engineering?00:28
cerillioTir00:28
cerillioTired00:28
LemminkainenBioGuy don't recombine toxin genes in knockout toxigenic bacteria00:29
BioGuyDo you have a reference for the law... and any others anyone can think of00:30
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kanzureBioGuy: mostly there are zoning restrictions that you should double check00:41
LemminkainenBioGuy the reggs I refer to are anti-bio-terrorism statutes00:41
Lemminkainendon't use anything that approaches pathogenic and you'll be fine00:42
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kanzurewell, there are ways to satisfy biosafety level requirements.00:45
BioGuyThe guy who started the group asked me when engineering organisms if there's any federal laws we should be aware of. My first instinct told me that this is so new I didn't think there were any... but now I'm second guessing myself. @Lemminkainen ya right now I think there will be a consensus that for all intents and purposes were going to be BSL-100:45
kanzurefor instance, waste disposal is necessary for bsl 1 i think.00:45
kanzurewhich usually means "hire some truck to pick up a colorful bin once in a while"00:45
Lemminkainenaye, waste disposal necessary00:45
Lemminkainenspecific genetic engineering laws don't really come into play until BSL200:46
kanzureno, your gut instinct is basically wrong... nothing about this is new.00:46
kanzurethere are local and state laws that you should know about00:46
BioGuyYou all know where I can get more information on chemical and biological wastes. I'm wondering if my best bet would be just to go down to city hall and ask them.00:47
Lemminkainennooooo00:47
kanzureyes you should get to know city hall00:47
kanzureLemminkainen: your advice sucks00:47
kanzureBioGuy: read these, http://diyhpl.us/wiki/transcripts/fbi-diybio-2012/00:47
Lemminkainenyeah kanzure let's have BioGuy go down to city hall and hope that the clerk is really receptive to the idea of unlicensed lab space opening00:48
kanzureLemminkainen: operating as a business entity carries with it some requirements, like complying with law.00:48
Lemminkainenfar better to have BioGuy get some education about this issue BEFORE talkign to city hall00:48
kanzureno, he said bsl-1 which usually includes registration/licensing of some sort.00:48
LemminkainenBioGuy you got a local university that does any research?00:50
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BioGuyYa thats another thing I need to look into - see how you can get licensed or register as a BSL-1. Its easy enough to find the CDC guidelines for BSL-1 labs, but I'm having trouble finding who you might go through to be certified.00:52
BioGuyIm thinking about going down to the small business development center too and see what they can help us out with.00:53
BioGuy*too00:53
Lemminkainenok, BioGuy we're running off on tangents here00:53
Lemminkainenlet's back u00:53
Lemminkainenp00:53
Lemminkainenwhat are you looking to do, exactly?00:54
kanzureBioGuy: be sure to ask genspace/biocurious for advice00:55
BioGuyBasically provide a space for decentralized and open independent research, development and technology in biology and biotechnology, while meeting federal, state and local regulations00:55
Lemminkainengood good00:59
Lemminkainenyour local university's OSEH people will know a lot and it would be valuable to befriend them01:00
BioGuyOSEH good to know, thanks for the tips. I've been thinking about trying to get in touch with the instructor from my college who taught our chemical and biological safety course... though I'm afraid of showing him the current space we have to work with Ha!01:07
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BioGuyKanzure what exactly are these: http://diyhpl.us/wiki/transcripts/fbi-diybio-2012/ They look like transcripts from discussions at hackerspaces maybe?01:20
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kanzureBioGuy: i typed these while at the fbi01:43
NilsHitze^^01:49
BioGuyOh... wait I think I may have heard of something about that. Was there something in 2012 where the FBI invited a bunch of DIYBio organizations to talk about what they were doing?01:50
kanzureyes. they also invited non-institutionally-affiliated individuals, such as myself.01:52
BioGuyHow was it? Was it a conference that went on for several days?01:55
kanzureit was fine. i typed those transcripts as they were happening, so there are lots of typos that should be forgiven..01:55
gnushahttps://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=3a507f59 Bryan Bishop: add berlin contact01:56
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BioGuyNo worries I'm glad you did it, its a good resource.02:05
kanzurethere was also a similar event held in 2011 but electronic devices were not permitted.02:09
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-!- Topic for ##hplusroadmap: biohacking, nootropics, transhumanism, open hardware | sponsored by george church and the NRA | http://gnusha.org/logs http://diyhpl.us/wiki http://groups.google.com/group/diybio | banned by the Federal Death Administration | official paperbot fan club04:23
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ParahSailincomplying with laws is for germans08:16
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ThomasEgiactually.. it is impossible for germans to comply with laws09:06
ThomasEgiwe have so many, that no matter what you do.. you break them.09:06
ThomasEgieven if you do nothing because sometimes laws are contradicting. so either you break the one, or the other, but not breaking any is flat out impossible09:07
eleitlthe Gedankenpolizei would want to have a word with you, mein Herr.09:14
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EnLilaSkopaperbot: http://link.springer.com/article/10.1023%2FA%3A1021786431815?LI=true09:47
paperboterror: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/CASE%20REPORT%3A%20Intestinal%20Malabsorption%20as%20a%20Manifestation%20of%20Obstructive%20Sleep%20Apnea.pdf09:47
jrayhawkThomasEgi: http://www.harveysilverglate.com/Books/ThreeFeloniesaDay.aspx the U.S. has the same problem, at least09:51
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ParahSailin"Did you really think we want those laws observed? said Dr. Ferris. We want them to be broken. ...The only power any government has is the power to crack down on criminals. Well, when there aren't enough criminals one makes them. One declares so many things to be a crime that it becomes impossible for men to live without breaking laws."10:07
ParahSailinalso, above i did not intend to imply that current germans are like historical germans10:08
ThomasEgiin terms of laws, they are ways worse today10:17
eleitlI'm off. See you Tuesday.10:26
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kanzure"By linking a number of different datasets that had not previously been used by researchers, Williams was able to measure when genes were sequenced, which genes were held by Celera's intellectual property, and what subsequent investments were made in scientific research and product development on each gene. Williams' conclusion points to a persistent 20-30 percent reduction in subsequent scientific research and product development for those ...11:05
kanzure... genes held by Celera's intellectual property."11:05
kanzurehttp://observationalepidemiology.blogspot.com/2013/03/intellectual-property.html11:05
kanzurenaturally, we all understand that celera is evil because venter tried to patent the human genome11:06
browniesheh, he did?11:13
browniesdidn't anyone point out there was some prior work?11:13
kanzurethere was not prior work. celera was the only company trying to sequence the human genome.11:13
kanzurelater the federal government became interested11:14
kanzureand then we got into the human genome project race11:14
browniesit was a subtle joke, wrapped around my scintillating insight that there's a difference between "discovering" and "inventing"11:14
brownieswouldn't it have made more sense to just patent the appraoches they used to sequence it?11:15
kanzurebtw my new plan for my caching problem is to have a worker strip GET params, check if the content is the same as the first time/this time, then add the url to a "always strip GET params off of these urls" table to avoid future repeat http requests.11:15
kanzureno, because other people had patented that ;)11:15
brownieshaha11:15
brownieskanzure: seems like a simple enough approach11:16
kanzurecelera had this massive web application back in 1995 or something where you could log in and get "super secret human genome access" or something11:16
kanzureof course, you had to pay billions11:16
browniesheh11:17
ParahSailincelera was not the first group to be sequencing human genome, but they were the first company11:18
kanzureright11:18
EnLilaSkopaperbot: http://www.ajo.com/article/S0002-9394%2804%2901488-6/abstract11:33
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/fe646e4a82cd869e7804b48af566310e.txt11:33
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kanzurehmm http://www.whitehouse.gov/blog/2013/03/27/white-house-hangout-maker-movement11:50
kanzurehttp://www.cas.org/news/media-releases/springer-and-cas-collaborate12:06
kanzurespringer is dumping some data into cas' system i guess.12:06
kanzure"Springer and Chemical Abstracts Service (CAS) - the world’s authority for chemical information - will collaborate to include thousands of new experimental procedures for chemical reactions reported in Springer journals in the CAS databases. This collaboration will increase the visibility of articles with experimental procedures published in 165 Springer chemistry journals from 1985 to the present"12:06
kanzurethat was via Peter Carlton <pcarlton@cas.org>12:06
kanzure"AAAS moderator: Adam Ruben, scientist-comedian" there's another science comedian?12:11
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browniesthere shouldn't be any. science is serious business.12:18
kanzurethere was another one named brian malow12:19
kanzurepaperbot: http://jeb.biologists.org/lookup/doi/10.1242/jeb.08393112:19
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/Exposure%20to%20multiple%20cholinergic%20pesticides%20impairs%20olfactory%20learning%20and%20memory%20in%20honeybees.pdf12:19
kanzureso, is this the main cause of the drop in the bee population?12:19
kanzureyou could start raising bees with lower-than-environmental doses of the poison in their environment and just breed them until they have a higher tolerance (assuming that you have a sufficiently large population and that there are variations in receptors or whatever the hell bees have for an immune system if anything)12:21
kanzurehttp://www.bbc.co.uk/news/science-environment-2195854712:21
jrayhawkhttp://www.ncbi.nlm.nih.gov/pmc/articles/PMC2950847/ was a somewhat more convincing explanation12:29
kanzurepaperbot: http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.001318112:29
paperboterror: HTTP 500 http://diyhpl.us/~bryan/papers2/paperbot/Iridovirus%20and%20Microsporidian%20Linked%20to%20Honey%20Bee%20Colony%20Decline.pdf12:30
jrayhawki guess they're not exclusive12:30
kanzurei wasn't aware of an rna virus at play in bumblebees12:31
ParahSailinthat fungicide they put on seed is responsible for colony collapse12:36
ParahSailiner, no, the neonicotinoids12:37
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fenni heard it was some kind of fungus12:45
ParahSailinlol bromenshank (first author) is a known bayer shill12:46
ParahSailinhttp://money.cnn.com/2010/10/08/news/honey_bees_ny_times.fortune/index.htm12:46
ParahSailinfenn: no, it came out a year or two ago that it was clothianidin and thiamethoxam which are commonly coated on corn seeds12:48
fennwhy would bees ever come into contact with corn seeds12:48
jrayhawkoh, interesting12:49
ParahSailinthats not the only places those pesticides are used12:49
ParahSailinmaybe plants uptake the pesticides and make it available to bees in nectar too12:50
ParahSailinpaperbot: http://www.sciencemag.org/content/336/6079/35112:51
paperbothttp://diyhpl.us/~bryan/papers2/paperbot/Neonicotinoid%20Pesticide%20Reduces%20Bumble%20Bee%20Colony%20Growth%20and%20Queen%20Production.pdf12:51
ParahSailinthis was the "big paper"12:51
ParahSailinsometimes i feel like i'm the only one with long-ranging memory12:54
ParahSailinother than kanzure12:54
chris_99can anyone recommend any chemistry textbooks?13:16
ParahSailinorganic, physical, high school?13:17
chris_99is there any that cover bother the former13:18
ParahSailinthose are gonna be separate books13:21
chris_99hmm how about something like http://www.amazon.co.uk/Chemistry%C2%B3-Introducing-inorganic-physical-chemistry/dp/0199277893/ref=sr_1_1?s=books&ie=UTF8&qid=1364502084&sr=1-113:21
ParahSailinopencourseware or torrents13:23
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kanzuregnome-paint is unusable14:20
bkerotuxpaint!14:22
kanzurei always end up using kolourpaint.. thought i would try something new. nope. bad idea.14:22
jrayhawkfenn: http://toxsci.oxfordjournals.org/content/114/1/1.full a review that agrees with your assessment of BPA research14:41
ParahSailinpaperbot: http://pubs.acs.org/doi/pdf/10.1021/jf010028%2B14:44
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/7a7ce44c21d597f927734b21124b9ad9.pdf14:44
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ParahSailinpaperbot: http://www.jstor.org/discover/10.2307/362448?uid=2&uid=4&sid=2110194081639115:24
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/The%20New%20England%20Origins%20of%20Mormonism.pdf15:24
DMXRoidpaperbot: http://www.jstor.org/discover/10.2307/1991070?uid=3739840&uid=2134&uid=2&uid=70&uid=4&uid=3739256&sid=2110183403440315:25
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/On%20a%20Correct%20Measure%20of%20Inflation.pdf15:25
ParahSailinkanzure: watermarks detected "This content downloaded from 131.252.130.248 on Thu, 28 Mar 2013 18:24:33 PM"15:25
DMXRoidfucking tits15:25
kanzureParahSailin: file a bug report, https://github.com/kanzure/paperbot/issues15:25
kanzureoops wait15:25
kanzurehttps://github.com/kanzure/pdfparanoia/issues15:25
ThomasEgiDMXRoid, ... that results in a strange mental image.15:26
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DMXRoidThomasEgi: depends on whether tits is the subject or the object15:26
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DMXRoidi <3 you guys though15:27
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@kanzuremight be gone for a bit, please proceed to do my evil bidding for me15:28
@ParahSailingo to where?15:28
@fenn"hundreds of millions of dollars wasted on BPA research" is sort of hard to believe15:35
@fennjrayhawk: i never claimed any position on BPA besides "gee this is confusing"15:35
@ParahSailinanything that gets people to throw out old plastic stuff and buy new plastic stuff is a good market to research15:35
@fennand that it wasn't a transhumanist topic15:35
@kanzureParahSailin: there's this "austin hackers anonymous" event tonight so i thought i'd go and present some things15:37
@fenndo they have a 12 step recovery plan15:38
@kanzuregod i hope so15:38
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brownies"My name is Brownies, and I used to write PHP"16:29
* brownies sobs16:29
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* nsh kicks brownies while she's down. SHAME HARDER17:54
* nsh comforts brownies in a cynical ploy to fasten the onset of stockholm syndrome17:54
* nsh reduces soap rations17:54
browniesshe?17:55
browniescalm down there, champ17:55
nshwell, i tend to use 'he' on the basis of no-women-on-the-internet, but demographics are evening out and i thought, hey, if i'm going to assume anyone on irc is a woman, i'm going to pick the person crying to themselves about coding PHP17:57
nshnah, i'm just foolin'17:58
@kanzureouch18:05
browniesyou've all done it18:17
browniesyou've all written PHP and then regretted it18:17
@kanzure"dongle.. can we say dongle anymore? does anyone feel uncomfortable?"18:18
@kanzure"me, i feel sorta uncomfortable"18:18
@kanzure"well it's okay because you're fired"18:18
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@kanzureok back.19:43
@kanzureakamai has "silence requirements" https://news.ycombinator.com/item?id=545721420:58
browniesperhaps just an inept way to say "NDAs" ?21:18
@kanzuremost of the NDAs i've seen don't say "you can never admit you signed this NDA"21:21
@kanzurehttp://www.phreedom.org/presentations/reverse-engineering-and-security/reverse-engineering-and-security.pdf21:28
@kanzurethat phreedom seems to be alexander sotirov21:28
@kanzurei think our phreedom was evgeny egorochkin21:28
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@kanzurehttp://openwetware.org/index.php?title=User:Jonathan_Cline/Notebook/Sensomatic/20130323&action=render#%281%2923:19
@kanzurehttp://openwetware.org/index.php?title=User:Jonathan_Cline/Notebook/Sensomatic/2013032323:19
@kanzure"I gave a short presentation at the Carlsbad bio-incubator tonight that was well received.  This project proposal is based on a separate DIYBio presentation and later discussions with Cory Tobin of LA Biohackers.  The goal of the sensomatic project is to create a tool which eliminates the bring-up hassles of many microbio projects (culturing related).   Cory's real (i.e. perhaps to be published) bio project is used as a proxy for requirements ...23:19
@kanzure... generation of the Sensomatic.  Along with the requirements:  simplicity, low cost, and built to solve a specific problem."23:19
yashgarothyeah he recorded a presentation on it tonight for the video23:19
@kanzurehttp://wiki.biohackers.la/Nitrogenase_Directed_Evolution23:19
@kanzurehe seems to still be using yaml for Robotics::Tecan. neat.23:21
@kanzure"just say no to xml" man this guy is serious he might be dangerous23:22
@kanzurepaperbot: http://www.frontiersin.org/Neural_Circuits/10.3389/fncir.2013.00052/abstract23:37
paperbotno translator available, raw dump: http://diyhpl.us/~bryan/papers2/paperbot/CASK%20and%20CaMKII%20function%20in%20the%20mushroom%20body%20_%20neurons%20during%20Drosophila%20memory%20formation.pdf23:37
@kanzureyashgaroth: what video?23:37
yashgaroththe one we're doing for indiegogo and/or microryza23:38
@kanzuremicroryza is presently raising money on wefund i think23:38
yashgarothhow deep does the rabbit hole go23:38
@kanzurei'm not sure why. i can't think of any potential exits that they might have. even at 50x valuation you'd only earn $50k on that investment (i think it's capped at $1k/person).23:39
yashgarothbut surely there's billions in crowdfunding ecologists to go observe [cute animal] and discover why they're going extinct23:40
@kanzureeven if there is, i don't see how microryza would be valuable based on that. what are they going to do, sell themselves to NIH ?23:41
@kanzurei suppose science exchange has a small chance of being purchased by one of the mega chemical companies23:41
@kanzureor big pharma somewhere. those guys love stuff about outsourcing to CROs.23:42
yashgarothand microryza is only competing with non-profit/gov't agencies23:42
@kanzurei could imagine maybe some bigger non-profit buying them up maybe, if they feel it's important to look more efficient or accessible w/e23:43
@kanzurebut watsi sort of has that covered already23:44
yashgarothhaha wtf someone on microryza wants to use a chemotherapy drug to reduce transmission of the brca mutation23:44
yashgaroth"I am currently the co-founder and CEO of Science Exchange, the online marketplace for science experiments. " oh23:44
@kanzurelink to this one?23:45
yashgarothhttps://www.microryza.com/projects/can-we-prevent-the-transmission-of-brca-mutations23:45
@kanzureis elizabeth the ceo of science exchange? or was that one of hte other ones23:45
@kanzureah... yes.23:45
@kanzurehilarious.23:45
yashgaroth'other methods like pre-implantation diagnosis have significant drawbacks' oh yeah unlike taking chemo23:46
@kanzurechillax dude, me and my homie were taking some chemo last week and it was grand23:48
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yashgarothyeah man it's great for a nice relaxing weekend of hair loss and vomiting23:48
@kanzuredon't forget the butt bleeds23:48
yashgarothI try to forget23:48
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@kanzurehttp://blog.reprap.org/2011/03/automatic-documentation-and-project.html23:59
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