--- Log opened Fri Jul 13 00:00:07 2012 | ||
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kanzure | jrayhawk: don't leave me :( | 03:27 |
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JayDugger | Get back to sleep, kanzure. | 07:50 |
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nmz787 | howdy | 08:41 |
nmz787 | Mokbortolan_: I'm in your neck of the woods... and don't have plans while the girl is interviewing til 5pm | 08:42 |
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kanzure | nmz787: go bug joe or his brother steve | 09:57 |
nmz787 | lol | 10:00 |
nmz787 | I pinged him in here | 10:01 |
nmz787 | dunno their info otherwise | 10:01 |
klafka | hey | 10:01 |
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kanzure | nmz787: ok i'll send over some data | 10:03 |
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kanzure | nmz787: emailed | 10:06 |
nmz787 | cool | 10:10 |
nmz787 | gonna go to bank now to take care of something, will bug them after :D | 10:10 |
nmz787 | ttyl peeps | 10:11 |
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rdb | ow. this is the first time that a microcontroller violently came loose from my breadboard and made a pretty deep cut in my finger | 11:27 |
rdb | it's supposed to zap my brain, not cut me | 11:28 |
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kanzure | http://beautifulmind.io/ claims to do "real-time collaborative mind mapping" | 11:37 |
kanzure | http://beautifulmind.io/1269-kanzure | 11:39 |
rdb | that sounds interesting | 11:41 |
kanzure | i usually hate mindmaps, but i know Utopiah likes them or something | 11:41 |
rdb | my connection gets lost all the time, apparently | 11:41 |
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Sanky | reminds me of, uhh | 12:12 |
archels | kanzure: That one seems particularly terrible. | 12:13 |
Sanky | I don't even know how the thing I used was named | 12:16 |
Sanky | all I remember is it was in java | 12:16 |
Sanky | anyway | 12:16 |
Sanky | workflowy rules | 12:16 |
kanzure | what does workflowy do? | 12:18 |
Sanky | it's a brainstorming tool/todo list of sorts | 12:19 |
Sanky | it's extremely simple | 12:19 |
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kanzure | http://blogs.plos.org/neuroanthropology/2012/07/09/roid-age-steroids-in-sport-and-the-paradox-of-pharmacological-puritanism/ | 12:29 |
kanzure | "timeline of performance enhancing drugs in sports" http://sportsanddrugs.procon.org/view.resource.php?resourceID=002366 | 12:29 |
kanzure | "His blood sample was sent to U.C.L.A.'s Olympic Analytical Laboratory, which is accredited by the World Anti-Doping Agency, and scientists there detected H.G.H. in it." | 12:30 |
kanzure | hahah there's an olympic analytical lab :\ | 12:30 |
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Mariu | is Gregory Stock still working in U.C.L.A. ? | 12:34 |
kanzure | i think he's working at http://signumbio.com/ | 12:35 |
rdb | I just put together what's probably the safest DIY tDCS device around. | 12:35 |
kanzure | or at least.. he was | 12:35 |
Mariu | oh nice | 12:35 |
rdb | now to find some sponges and fashion some electrodes | 12:35 |
Adrian_ | kanzure: u didnt know? | 12:39 |
Adrian_ | there are a few of these labs | 12:40 |
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kanzure | i know about analytics labs, just not one that is explicitly "olympic" | 12:40 |
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AdrianG | i think its just a name | 12:41 |
AdrianG | there are a few labs under contract with WADA | 12:41 |
AdrianG | ive heard gene therapy is the hottest doping right now. | 12:41 |
kanzure | heard from who | 12:51 |
kanzure | i'm totally willing to make gene doping products if you can show me someone interested in paying me cash | 12:52 |
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AdrianG | kanzure: rumors | 13:03 |
AdrianG | kanzure: what can you make | 13:10 |
kanzure | that depends on what my motivations are | 13:11 |
kanzure | right now i don't actively synthesize anything | 13:11 |
AdrianG | what can you synthesize | 13:11 |
AdrianG | that would be useful in sports | 13:11 |
kanzure | there are many low-hanging fruit projects for sports doping | 13:11 |
kanzure | http://diyhpl.us/wiki/germline-genetic-modifications/ | 13:11 |
kanzure | uh, i don't know why i named that germline-anything | 13:11 |
AdrianG | yes, but can you make anything that can be used tomorrow in a real person | 13:14 |
kanzure | tomorrow? gee that's a fast deadline | 13:15 |
kanzure | i don't even know what you want me to synthesize yet | 13:15 |
AdrianG | im asking what can you do | 13:16 |
AdrianG | well, tomorrow is flexible | 13:16 |
kanzure | i have some modest lab skills, if that's what you're asking. | 13:16 |
AdrianG | london olympics are in two weeks, you know | 13:16 |
kanzure | wouldn't you want to spend more than 2 weeks checking out a drug, if you're an athlete that has to be sure he's at best performance at the event? | 13:17 |
kanzure | i doubt that athletes start doping at a last minute :P | 13:17 |
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kanzure | aw :( | 13:18 |
kanzure | maybe he's angry that i'm not already synthesizing something | 13:18 |
Steel2 | Sanky: mindmeister | 13:19 |
Steel2 | ? | 13:19 |
Sanky | what's that? | 13:20 |
Sanky | oh, no | 13:20 |
Sanky | something else, meh | 13:20 |
Steel2 | I like mindmeister | 13:20 |
Sanky | I'll try to remember it | 13:20 |
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yashterdam | kanz you named it germline- because you forked it from my thing | 13:28 |
kanzure | hrmmm | 13:28 |
kanzure | this makes sense | 13:28 |
yashterdam | anyway gotta go, that's what I get for checking the logs before sleep | 13:31 |
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kanzure | i feel that yash is misappropriating his time in amsterdamn by sleeping | 13:31 |
kanzure | :P | 13:31 |
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AdrianG | kanzure: im just saying we are too late for these olympics | 13:40 |
archels | kanzure: what is this "gene doping" | 13:41 |
kanzure | archels: a popular example is siRNA doping | 13:42 |
kanzure | well, wait. no. there are many forms of small-molecule RNA doping, but i don't think siRNA is one of them. hrmm.. | 13:42 |
archels | okay, that's roughly what I expected | 13:42 |
kanzure | i also think people count adenoviral and lentiviral methods as gene doping | 13:43 |
archels | injecting silencing RNAs? | 13:43 |
AdrianG | possibly | 13:43 |
kanzure | my /gene-therapy folder is so pathetic | 13:44 |
kanzure | http://diyhpl.us/~bryan/papers2/gene-therapy | 13:44 |
kanzure | only 20 articles? geeze. | 13:44 |
AdrianG | :< | 13:44 |
archels | indicative of the state of affairs | 13:44 |
kanzure | that i am bad at finding good articles, yes | 13:44 |
kanzure | but there's lots of stuff published | 13:45 |
kanzure | (i was just observing that i seem to be slacking on that front) | 13:45 |
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archels | anything worthwhile, besides messing with silencing RNA a bit? | 13:45 |
kanzure | i'm not in the right brain state right now to produce that knowledge from my brain :P | 13:48 |
kanzure | i'm in javascript-and-anti-feminism-mode and very confused | 13:49 |
archels | haha, o-kay | 13:49 |
archels | like I said I doubt the problem is you; I think the problem is the state of affairs in the field | 13:49 |
archels | we're just not there yet | 13:49 |
kanzure | there have been tons of clinical trials for all sorts of interesting methods | 13:50 |
kanzure | and lab studies of others; like just naked dna injection is pretty neat | 13:50 |
archels | yes, but you can't really pull that off in vivo can you | 13:50 |
archels | it's the delivery mechanism that's the crux | 13:50 |
kanzure | naked dna injection was through rat tails | 13:51 |
kanzure | how's that not in vivo :P | 13:51 |
kanzure | retrograde renal vein injection http://diyhpl.us/~bryan/papers2/bio/Kidney-targeted%20naked%20DNA%20transfer%20by%20retrograde%20renal%20vein%20injection%20in%20rats.pdf | 13:51 |
kanzure | although admittedly that's a limited method because kidneys | 13:52 |
archels | clicking | 13:52 |
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yashterdam | gah fine | 13:54 |
kanzure | damn straight, boy | 13:54 |
yashterdam | anyway yeah gene therapy's mostly stilted since that fucking kid died | 13:55 |
yashterdam | hmm wait no it's stulted | 13:55 |
archels | kanzure: I'm not following this, so the "naked DNA" plasmid is injected into the bloodstream, and then how does it find its way into the cell nuclei exactly? | 13:57 |
kanzure | i don't think you need to get into the nuclei to get copied around entirely | 13:57 |
yashterdam | occasionally cells have holes in them, or there's the transient overpressure from the injection | 13:57 |
yashterdam | you do need to get into the nucleus, but in an actively dividing cell that's not a large barrier | 13:58 |
kanzure | i think even ecoli is naturally competent and takes up DNA (at very very low rates) | 13:58 |
archels | ah the paper they refer to has 'electroporation' in the title | 13:58 |
kanzure | http://diyhpl.us/~bryan/papers2/bio/Genetic%20transformation%20in%20freshwater%20-%20Escherichia%20coli%20is%20able%20to%20develop%20natural%20competence.pdf | 13:58 |
kanzure | http://diyhpl.us/~bryan/papers2/bio/Natural%20plasmid%20transformation%20in%20ecoli.pdf | 13:58 |
archels | but e-coli sounds like in vitro | 13:59 |
kanzure | oh, it's definitely not human-related, sorry | 14:00 |
archels | although I guess the results they describe are impressive, so they must be managing it somehow | 14:00 |
kanzure | but since we were talking about per-cell dna uptake, i thought to mention it | 14:00 |
archels | if they actually use electroporation in vivo, that's pretty nasty though | 14:00 |
yashterdam | hey at least it's in a limb and not the brain | 14:00 |
kanzure | did you read the article about optical electroporation? http://diyhpl.us/~bryan/papers2/neuro/Subretinal%20injection%20and%20electroporation%20into%20adult%20mouse%20eyes.pdf | 14:01 |
kanzure | i guess that's not optical electroporation | 14:01 |
kanzure | electroocularporation | 14:01 |
kanzure | erm.. no that can still mean "shine lasers on to things to make them porate" | 14:01 |
yashterdam | ehhh eyes are a prime candidate for viral vectors, much as I dislike viral vectors | 14:01 |
archels | 13MB and still going | 14:02 |
archels | 26 | 14:02 |
kanzure | i apologize for how terrible science is. | 14:03 |
archels | woo pretty pictures | 14:03 |
archels | okay, so in conclusion, it seems that this intravenous DNA plasmid injection still relies on some variant of electroporation. | 14:05 |
yashterdam | you can get measurable transfection just injecting in mice, less so in larger mammals | 14:06 |
archels | you probably need to inject unholy amounts of DNA for that, even | 14:08 |
yashterdam | so what, dna is cheap | 14:08 |
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kanzure | it's the one thing that we're really good at making | 14:08 |
kanzure | s/making/copying | 14:08 |
yashterdam | yeah writing is expensive, copying much less so | 14:09 |
archels | can't be good for the animal | 14:10 |
kanzure | oh yay me | 14:10 |
kanzure | http://diyhpl.us/wiki/natural-competence | 14:10 |
archels | okay, I'm off, nice chat | 14:11 |
yashterdam | ok cool because I am too | 14:12 |
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gnusha | diyhpluswiki.git: 914096b move germline-genetic-modifications to genetic-modifications | 14:12 |
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kanzure | is there a javascript deobfuscation tool that can rename variables for me? | 14:34 |
kanzure | like if i want to rename "a" or something? | 14:34 |
kanzure | it's hard to do search-and-replace on single-letter variable names | 14:34 |
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rdb | kanzure, um, use \b with sed around the letter to include word boundaries? | 14:43 |
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rdb | like sed -i'' 's/\ba\b/somename/g' somefile.js ? | 14:44 |
kanzure | what does \b include though | 14:44 |
rdb | nothing, just indicates word boundary | 14:44 |
kanzure | what counts as a word boundary? parentheses? periods? whitespace? | 14:44 |
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rdb | [A-Za-z0-9_] are included in the word | 14:45 |
rdb | which means that it'll work for most variable names out there | 14:45 |
kanzure | well okay then. | 14:45 |
kanzure | thanks. | 14:45 |
rdb | or more fun! for i in "abcdefghij..z"; do sed -i "s/\b$i\b/$(random /usr/share/dict/words)/g" somefile.js; done | 14:45 |
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rdb | replaces every single-letter variable name with a random english word | 14:45 |
kanzure | yeah, i wanted to avoid writing regular expressions with [A-Za-z0-9_], but \b looks reasonable | 14:45 |
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kanzure | oh, i guess the one exception to this that i am okay with is i, j, and k iterators in for loops | 14:48 |
kanzure | hrmm | 14:48 |
rdb | anyway, good luck, my brain is pretty much dead right now so I'll just head to bed | 14:50 |
kanzure | good night | 14:51 |
kanzure | thanks for the regex wizardry | 14:51 |
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kanzure | "nventory for Composable Elements (ICE) is being developed by the Joint Bio Energy Institute (JBEI) as an open source Registry software for biological parts. It is a web application software that can be used by laboratories to track and search their constructs." | 15:18 |
kanzure | http://public-registry.jbei.org/ | 15:18 |
kanzure | http://code.google.com/p/gd-ice/ | 15:18 |
kanzure | oh boy.. soap api :( | 15:19 |
AdrianG | kanzure: do you ever experience information overload | 15:20 |
kanzure | no | 15:21 |
kanzure | at the moment i'm writing some code in another window and i get bored waiting for the buffers to finish typing | 15:21 |
kanzure | and it's javascript, so i feel terrible about it too | 15:21 |
kanzure | also i think juul or nmz787 possibly contributed to that project; hard to tell | 15:22 |
AdrianG | how do you organize information | 15:27 |
kanzure | hyperlinks, git repositories, software i write | 15:31 |
kanzure | AdrianG: example: http://quantifiedself.com/2011/08/bryan-bishop-on-meetlog/ | 15:31 |
kanzure | http://diyhpl.us/cgit | 15:33 |
AdrianG | sometimes I suspect you are just a very convincing bot. | 15:36 |
kanzure | http://heybryan.org/mac.html | 15:36 |
AdrianG | not because of that | 15:36 |
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kanzure | rdb: apparently it is \< and \> in vim | 15:37 |
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AdrianG | kanzure: r u a student | 15:59 |
kanzure | no | 16:00 |
AdrianG | wat u do for a living | 16:10 |
AdrianG | besides irc chatting | 16:10 |
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brownies | he types very quickly | 16:25 |
kanzure | AdrianG: http://diyhpl.us/~bryan/resume.pdf | 16:31 |
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kanzure | jrayhawk: why did you get kicked offline | 20:10 |
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Juul | allo | 20:16 |
kanzure | Juul: hi | 20:16 |
Juul | :) | 20:16 |
* Juul is at HOPE | 20:16 | |
Juul | I was talking to some of the makerbot employees earlier | 20:16 |
Juul | they say they've talked about NURBS, but nothing has been planned | 20:17 |
Juul | I didn't realize they had two-material printing | 20:17 |
Juul | and when I found out I expected them to use the second material for dissolvable support | 20:18 |
Juul | but they don't have a dissolvable support material yet | 20:18 |
Juul | I wonder how difficult that will prove | 20:18 |
Juul | to have something that can be fed in as a somewhat bendable wire | 20:18 |
Juul | which is dissolvable without nasty chemicals | 20:18 |
Juul | and has a melting point at leas above that of PLA | 20:18 |
kanzure | reprap has all sorts of printing materials, including stuff for pcb printing and tissue printing | 20:19 |
kanzure | makerbot extruders are only somewhat behind (but it's the same compatability anyway, so it's not much of a difference) | 20:20 |
Juul | do any of the cheap/home-use printers have dissolvable support yet? | 20:20 |
kanzure | i can't recall at the moment.. #reprap will know | 20:21 |
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kanzure | biocurious class survey http://www.surveymonkey.com/s/W2CZJCB | 20:47 |
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joshcryer | http://www.kurzweilai.net/hp-memristors-will-reinvent-computer-memory-by-2014 | 23:33 |
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--- Log closed Sat Jul 14 00:00:08 2012 |
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