--- Log opened Fri Oct 13 00:00:44 2017
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04:49 < kanzure> .title
04:49 < yoleaux> Welcome to ORConf 2017 - ORConf 2017 - YouTube
05:03 < archels> what was the term again for "animal transhumanism", if you will; upgrading animals?
05:05 < kanzure> uplifting
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05:21 < archels> that's it. cheers!
05:32 < kanzure> .tw https://twitter.com/CNN/status/918590618854621184
05:32 < yoleaux> FDA panel unanimously votes to approve experimental genetic therapy for patients with a rare inherited eye disease http://cnn.it/2z2QMJo https://pbs.twimg.com/media/DL99TFmU8AAR0aU.jpg (@CNN)
05:34 < kanzure> https://www.technologyreview.com/s/609070/inside-the-moonshot-effort-to-finally-figure-out-the-brain/
05:35 < kanzure> https://cdn.technologyreview.com/i/images/threecylinderssideview2.jpg?sw=1080&cx=0&cy=73&cw=1600&ch=985
05:35 < kanzure> https://cdn.technologyreview.com/i/images/nd17-waldrop-18_0.png?sw=600&cx=0&cy=0&cw=1122&ch=748
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07:11 < kanzure> what are all the resonances
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08:08 < kanzure> "Acoustic neuromodulation from a basic science prospective" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4875658/
08:11 < kanzure> .title http://nba.uth.tmc.edu/neuroscience/m/s1/chapter11.html
08:11 < yoleaux> Acetylcholine Neurotransmission (Section 1, Chapter 11) Neuroscience Online: An Electronic Textbook for the Neurosciences | Department of Neurobiology and Anatomy - The University of Texas Medical School at Houston
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09:57 < nmz787> heath: I know at least one of the people (Josh Triplett) on that fossi site
10:06 < kanzure> some sorta weird (maybe scammy?) initial coin offering about "blockchain" and "clinical trials" and "anti-aging" http://aqua.foundation/
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10:46 < kanzure> .titlehttps://www.statnews.com/2017/10/12/michael-laufer-drug-prices/
10:46 < kanzure> .title https://www.statnews.com/2017/10/12/michael-laufer-drug-prices/
10:46 < yoleaux> An anarchist takes on Big Pharma — by promoting DIY prescription drugs
10:47 < kanzure> "The de facto leader behind the leaderless collective Four Thieves Vinegar, Laufer is now on to his next project: He’s developing a desktop lab and a recipe book meant to equip patients to cook up a range of medicines, including a homemade version of the expensive hepatitis C drug Sovaldi, on their kitchen counters."
10:47 < kanzure> haha what "When he’s among the biohacker crowd, he spells his name “Mixæl,” mashing up the Euro-variant for “ae” and a Coptic “x,” pronounced “ck.” He said he got the idea after studying Coptic lettering on the Rosetta Stone and learning about the Coptic archangel Michael."
10:48 < fenn> he has a pile of crap so far
10:48 < fenn> "DIY autoinjector" consists of: 1) buy autoinjector 2) put syringe in it 3) print snazzy label
10:48 < kanzure> ya his site says something about microfluidics but you click and it goes to nothing
10:49 < fenn> the automated chemistry project is just some links to papers and some chemical reaction equations
10:49 < kanzure> https://twitter.com/MichaelSLaufer
10:58 < kanzure> "A WADA spokesperson tells New Scientist that individuals who undergo gene editing for medical reasons may be allowed to compete in sports, depending on whether that treatment returns them to what's considered normal or provides them with an edge. The agency did not respond to New Scientist's query about whether it would be able to actually catch individuals who cheat via gene editing. ...
10:58 < kanzure> ...However, it notes that the biological passports the agency introduced a few years ago to track biomarkers of doping might be able to detect changes stemming from genetic alterations."
10:58 < fenn> "biological passports"?
10:59 < fenn> is this like "windows has detected a hardware change, commencing fuckery"
10:59 < kanzure> https://www.wada-ama.org/en/athlete-biological-passport
11:00 < fenn> man this is so evil
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11:28 < fenn> welcome flux
11:35 < flux_> thank you, fenn
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11:59 < kanzure> what is a flux
12:00 < kanzure> also what is fenn's borg collective plan
12:01 < heath> 03:44 < kanzure> alright chemistry is just downright screwed <- kanzure, are you referring phosphoramidite chemistry here?
12:01 < heath> +to
12:02 < heath> pretty sure, considering you start linking to articles related to enzymatic synthesis
12:03 < kanzure> ya
12:03 < kanzure> heath: nobody has built nanofluidic dna synthesizer only microfluidic dna synthesizers, like that "picofluidic reactor" thingy
12:04 < heath> yeah, which is why i gues you think it's a terrible idea to start a business around it
12:05 < nmz787> well, nanofluidic sequencing-by-synthesis has been done... which is basically not very different if you consider it started with an oligo/DNA-strand and an enzyme
12:06 < nmz787> also nanopore sequencing.... and DNA nanofluidic electrophoresis
12:06 < nmz787> so that's basically a complete system
12:06 < nmz787> from a proof-of-concept in-pieces perspective
12:06 < kanzure> iirc the "picofluidic" thing was not really picofluidic
12:06 < kanzure> i've definitely seen microfluidic setups
12:06 < nmz787> I mean like PacBio
12:06 < kanzure> that's not synthesis, not really
12:06 < kanzure> come on
12:06 < nmz787> they commercialized nanofluidic sequencing by synthesis
12:07 < nmz787> well like I said, enzyme+DNA
12:07 < nmz787> we just wanna change the enzyme, and deliver single nucleotides (probably via nanopore monitoring)
12:08 < nmz787> the term to search with is zeptoliter
12:09 < nmz787> 10 nm ^3 == 1 zeptoliter == 1^-21 liters
12:09 < nmz787> err
12:09 < nmz787> 10^-21
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12:10 < kanzure> does anyone have a good oppenheimer documentary
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13:33 < maaku> kanzure: focusing on the man or his contributions?
13:35 < kanzure> nnndunno
13:35 < kanzure> someone asked
13:38 < nmz787> we should register NFL as a new trademark that stands for National Freak League
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14:53 < kanzure> now i am become of at least 1e9 worlds https://www.youtube.com/watch?v=V9Af3n85l1o
14:59 < fenn> .title
14:59 < yoleaux> Noisecontrollers - Destroyer of Worlds (Unofficial Video) - YouTube
14:59 < heath> Nucleic Acid Memory 10.1038/nmat4594
15:02 < kanzure> .doi 10.1038/nmat4594
15:02 < kanzure> .DOI 10.1038/nmat4594
15:02 < kanzure> hmph
15:02 < kanzure> http://diyhpl.us/~bryan/papers2/DNA/Nucleic%20acid%20memory%20-%20Church%20-%202016.pdf
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15:02 < heath> tags: boise state, g. church, micron.com
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15:21 < kanzure> https://www.tor.com/2017/09/18/excerpts-annalee-newitz-autonomous/
15:23 < kanzure> "For people who are interested, it's referenced in the article, but NurdRage did a synthesis of pyrimethamine "from scratch".  Only took 2 years and ~$22k, but of course, replicating his synthesis would be a little bit easier... for another PhD Chemist."  https://www.youtube.com/watch?v=ddCuWX4vtOA&list=PLU79801KtVAU1XsTwHaKkqQoBgz_VYmPS
15:25 < kanzure> .title http://alunglife.com/goal-cure-cancer-method/
15:25 < yoleaux> Goal: Cure Cancer. Method: Do It Yourself | A Lung Life
15:25 < kanzure> https://www.flashforwardpod.com/2017/10/03/piraceuticals/
15:26 < kanzure> .title https://news.ycombinator.com/item?id=15467379#15469513
15:26 < yoleaux> An anarchist takes on Big Pharma by teaching patients to make their own meds | Hacker News
15:30 < maaku> kanzure: i wonder if the decriminalize-drugs-for-recreational-use movement could be sold on a constitutional amendment preserving the individual's right to put what they want in their own body
15:30 < maaku> get the pot heads to pass a submarine constitutional protection for transhumanists
15:32 < kanzure> the pot heads have never been an effective force for legalization, though
15:35 < maaku> I was being derisive, but of course there is an effective non-pot-head decriminalization movement
15:35 < maaku> http://norml.org/
15:35 < maaku> .title
15:35 < yoleaux> NORML.org - Working to Reform Marijuana Laws - NORML.org - Working to Reform Marijuana Laws
15:37 < nmz787> .wik isfet
15:37 < yoleaux> "An ISFET is an ion-sensitive field-effect transistor, that is a field-effect transistor used for measuring ion concentrations in solution; when the ion concentration (such as H+, see pH scale) changes, the current through the transistor will change accordingly." — https://en.wikipedia.org/wiki/ISFET
15:41 < nmz787> maaku: I thought NORML was potheads? I mean, most any anti-drug position would assume /any/ pot use == pothead == burnout... etc
15:42 < maaku> nmz787: i suspect you and kanzure mean different things by pot head
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15:47 < maaku> there's the people that want to legalize cannabis to use it, and those who want to legalize drug use generally to end the war on drugs because of societal concerns (drug violence, prison over-population, non-violent felonies, etc.)
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15:56 < heath> "Coming of age: ten years of next-generation sequencing technologies" 10.1038/nrg.2016.49
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16:03 < kanzure> heath: use links not DOIs
16:05 < kanzure> http://zipcpu.com/blog/2017/10/13/fpga-v-asic.html
16:14 < fenn> if you do use a doi, use the full doi spec, i.e. doi:10.1038/nrg.2016.49 or http://doi.org/10.1038/nrg.2016.49 otherwise we can't write scripts to search for doi links
16:15 < fenn> .title
16:15 < yoleaux> Coming of age: ten years of next-generation sequencing technologies : Nature Reviews Genetics : Nature Research
16:15 < fenn> urls are better of course
16:16 < fenn> .wik pyrimethamine
16:16 < yoleaux> "Pyrimethamine, sold under the trade name Daraprim, is a medication used with leucovorin to treat toxoplasmosis and cystoisosporiasis." — https://en.wikipedia.org/wiki/Pyrimethamine
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16:27 < kanzure> heath: http://diyhpl.us/~bryan/papers2/DNA/ http://diyhpl.us/~bryan/papers2/bio/
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16:57 < nmz787> maaku: surely there are people that fall into both categories though
17:05 < nmz787> anyone in here live in the southern end of the Bay area?
17:06 < kanzure> maaku does
17:07 < nmz787> I am looking for a place to sleep around there, Monday night
17:07 < nmz787> Josiah offered, but I'd have to rent a car and drive 40 miles to his place and back
17:07 < fenn> maybe cluckj? i think he's in gilmore
17:08 < nmz787> fenn: Gilmore IT solutions?
17:08 < nmz787> or is that a neighborhood of San Jose?
17:10 < fenn> gilmore is a town southeast of san jose
17:11 < fenn> anyway that was a while ago and may have changed
17:15 < nmz787> I just keep thinking of some TV show name (that I've never seen) called 'gilmore girls' or something
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17:16 < fenn> it's known for heavy duty garlic production
17:19 < nmz787> oh
17:19 < nmz787> I know of a gilroy that is written on some garlic packs
17:28 < nmz787> http://www.semi.org/en/challenges-and-solutions-integration-surface-micromachined-mems-foundry-fabricated-cmos-backplanes
17:28 < nmz787> I registered for that webinar
17:48 < aeiousomething> hi maaku
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17:59 < kanzure> nmz787: what about all the biocurious people
18:00 < kanzure> they should be in that area
18:15 < kanzure> http://www.frontlinegenomics.com/opinion/15445/analyzing-dna-rna-protein-from-one-sample-ashg/
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19:11 < kanzure> .title https://news.ycombinator.com/item?id=15469735
19:11 < yoleaux> DIY recipes to make your own expensive pharma drugs | Hacker News
19:11 < kanzure> "A Simple and Convenient Synthesis of Pseudoephedrine From N-Methylamphetamine" http://heterodoxy.cc/meowdocs/pseudo/pseudosynth.pdf
19:13 < kanzure> .title https://www.youtube.com/watch?v=NjQ7yLmeqUw
19:13 < yoleaux> The Eleventh HOPE (2016): How to Torrent a Pharmaceutical Drug - YouTube
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19:36 < kanzure> .title https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5482593/
19:36 < yoleaux> From rapalogs to anti-aging formula
19:36 < kanzure> "Inhibitors of mTOR, including clinically available rapalogs such as rapamycin (Sirolimus) and Everolimus, are gerosuppressants, which suppress cellular senescence. Rapamycin slows aging and extends life span in a variety of species from worm to mammals. Rapalogs can prevent age-related diseases, including cancer, atherosclerosis, obesity, neurodegeneration and retinopathy and potentially ...
19:36 < kanzure> ...rejuvenate stem cells, immunity and metabolism. Here, I further suggest how rapamycin can be combined with metformin, inhibitors of angiotensin II signaling (Losartan, Lisinopril), statins (simvastatin, atorvastatin), propranolol, aspirin and a PDE5 inhibitor. Rational combinations of these drugs with physical exercise and an anti-aging diet (Koschei formula) can maximize their anti-aging ...
19:37 < kanzure> ...effects and decrease side effects."
19:43 < kanzure> "Polypill is a fixed-dose combination of antiplatelet (aspirin), anti-hypertensive drugs (lisinopril and beta-blocker), and a statin [237–239]. Polypill also may include additional anti-hypertensive drugs [240] as well as folic acid [237]. Polypill showed life-extending activity in high-risk elderly individuals [241, 242]. It was calculated that polypill may reduce strokes and ischemic ...
19:44 < kanzure> ...heart disease by over 80% in individuals at risk for cardiovascular diseases [242]. Polypill may prevent cardiovascular disease and strokes [243, 244]. Polypill includes 4 ‘anti-aging’ drugs (statin, aspirin, beta-blocker, angiotensin II inhibitor such as lisinopril). Yet, this combination was created to prevent cardiovascular diseases, not to slow aging. Therefore, Polypill does not ...
19:44 < kanzure> ...include two main anti-aging components: a rapalog and metformin. Nevertheless, Polypill is used in ‘healthy’ aging humans in order to extend life span by preventing diseases. It needs to be combined with rapamycin and metformin, to maximize lifespan extension."
19:44 < kanzure> hehehe 'high-risk elderly individuals'
19:44 < kanzure> aka 'you gonna die'
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19:56 < kanzure> https://www.ambrosiaplasma.com/
19:56 < kanzure> their meta text for their landing page: "YOUNG BLOOD TREATMENT. Stylish Young Guy. LOCATIONS. San Francisco Tampa. Doctor taking blood pressure of older patient"
19:59 < kanzure> .tw https://twitter.com/NatsaiAudrey/status/918932373437386752
19:59 < yoleaux> Dr George Church @jrkelly & @benmezrich talking DNA printing technology & wooly mammoths @HUBweek #futureforum https://pbs.twimg.com/media/DMC0H3GXUAA8NpO.jpg (@NatsaiAudrey)
19:59 < kanzure> i wonder if he spends any time n his lab
20:01 < kanzure> .tw https://twitter.com/eLife/status/912756252387741697
20:01 < yoleaux> Lattice light sheet microscopy shows cells crawling on a flat surface https://doi.org/10.7554/eLife.26990 https://video.twimg.com/ext_tw_video/912756206548209666/pu/vid/500x360/oE5buHIw9OCvtIHQ.mp4 (@eLife)
20:01 < kanzure> .tw https://twitter.com/pdmillett/status/918774257311678464
20:01 < yoleaux> And I thought we were going to get through a biosecurity meeting without a call for an asilomar conference 😥 (@pdmillett)
20:02 < kanzure> .tw https://twitter.com/Extinct_AnimaIs/status/899646313448460289
20:02 < yoleaux> Arthropleura was a 3-metre-long millipede that lived during the Early Carboniferous. It is the largest invertebrate that ever lived on land! https://pbs.twimg.com/media/DHwvXHHXkAASdfG.jpg (@Extinct_AnimaIs)
20:02 < kanzure> let's make one of those.
20:03 < kanzure> .tw https://twitter.com/rob_carlson/status/918489195538087936
20:03 < yoleaux> *New U.S. GAO Report “#Biodefense: Federal Efforts to Develop Biological Threat Awareness” #biosecurity http://www.gao.gov/products/GAO-18-155 (@rob_carlson)
20:03 < kanzure> .title http://www.gao.gov/products/GAO-18-155
20:03 < yoleaux> U.S. GAO - Biodefense: Federal Efforts to Develop Biological Threat Awareness
20:03 < kanzure> http://www.gao.gov/assets/690/687675.pdf
20:05 < kanzure> .tw https://twitter.com/kanzure/status/919036300820234240
20:05 < yoleaux> @rob_carlson This seems to miss totally basic stuff. There should be super cheap DNA sequencers in every house. These guys are amateurs... (@kanzure, in reply to tw:918489195538087936)
20:07 < kanzure> .title https://twitter.com/kanzure/status/919036808993714177
20:07 < yoleaux> Bryan Bishop auf Twitter: "@pdmillett maybe we need an anti-asilomar conference to kick the signal up again"
20:10 < kanzure> "A cell-free synthetic biochemistry platform for raspberry ketone production" https://www.biorxiv.org/content/early/2017/10/12/202341
20:10 < kanzure> ok but isn't it more expensive to do protein purification than to grow cells in bioreactors?
20:12 < yashgaroth> "potentially scalable and cost-efficient" heh
20:13 < kanzure> what's unscalable about bioreactors anyway?
20:13 < kanzure> isn't it supposed to be easier to get fat cells than to fix in vitro protein systems
20:15 < yashgaroth> well, you only have to separate the product molecule from the enzymes, versus everything in the cell
20:18 < yashgaroth> but yeah with enzymes you have to feed in the energy supply like purified ATP, rather than relying on cells to generate that from sugars
20:19 < kanzure> cells are more self-regulating... with a bioreactor you might end up with poor distribution of reaction components throughout your 1 billion gallon tank
20:19 < yashgaroth> like "Possible limitations for engineering raspberry ketone in cells include a limited malonyl-CoA pool (~35 µM in glucose catabolism) in E. coli and a comparatively slow turnover rate (0.1 s-1 ) for the BAS enzyme"
20:20 < yashgaroth> the enzyme turnover rate doesn't get solved by having it outside a cell, it's just a slow enzyme
20:20 < yashgaroth> and cells will respond to low malonyl-CoA pools by generating more of it
20:21 < yashgaroth> usually, as they mention, the problem ends up being toxicity to the cell
20:22 < kanzure> https://rapamycintherapy.com/
20:48 < kanzure> tdt stuff w/ nuclera nucleics https://www.google.com/patents/WO2016128731A4
20:48 < kanzure> dnascript ceo did directed evolution of tdt projects
20:48 < kanzure> so i guess we know dnascript is tdt dna synthesis stuff now
20:48 < kanzure> they recently closed a venture round
20:48 < kanzure> https://www.google.com/search?tbo=p&tbm=pts&hl=en&q=inassignee:%22Nuclera+Nucleics+Ltd%22
20:48 < kanzure> http://umr3528.pasteur.fr/wp-content/uploads/UMR_Rapport_Final.pdf
20:49 < kanzure> https://scholar.google.com/scholar?hl=en&as_sdt=0%2C43&q=inassignee%3A%22Molecular+Assemblies%2C+Inc.%22&btnG=
21:15 < heath> .title http://www.springer.com/us/book/9781588292865
21:15 < yoleaux> Directed Enzyme Evolution - Screening and Selection Methods | Frances H. Arnold | Springer
21:15 < heath> .title https://www.ncbi.nlm.nih.gov/pubmed/22277990
21:15 < yoleaux> A completely in vitro ultrahigh-throughput droplet-based microfluidic screening system for protein engineering and directed evolution. - PubMed - NCBI
21:19 < heath> "Automated Design of Programmable Enzyme-Driven DNA Circuits" http://www.yannick-rondelez.com/wp-content/uploads/2013/12/ACS-Synth.-Biol.-2014-van-Roekel.pdf
21:21 < heath> "Mapping of Enzyme Kinetics on a Microfluidic Device" http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0153437
21:32 < heath> "A highly parallel strategy for storage of digital information in living cells" https://www.biorxiv.org/content/early/2016/12/26/096792
21:38 < heath> "Photonic DNA Processors with Fluorescence Resonance Energy Transfer-Based Signaling" https://www.osapublishing.org/abstract.cfm?uri=CLEOPR-2013-WJ4_5
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21:56 < heath> Primer Exchange Reaction https://vimeo.com/231591472
21:57 < heath> further on PER: Molecular programming tools  https://www.google.com/patents/WO2017143006A1?cl=en "The present disclosure provides, in some aspects, nucleic acid-based molecular tools that enable the recording of molecular structure and soluble signals as well as the programmed assembly of molecular structures."
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22:46 < heath> "Controller for microfluidic large-scale integration" https://www.biorxiv.org/content/biorxiv/early/2017/09/14/188615.full.pdf
22:47 < heath> source: https://github.com/jonathanawhite1381/KATARA-Microfluidics-Controller
22:47 < heath> circuit board designs: https://easyeda.com/jwhite2/Driver_Shield_for_Arduino_Mega-479918a931264dbdaa817511dac3210f
22:49 < heath> "we present a Kit for Arduino- based Transistor Array Actuation (KATARA), an open-source and low-cost Arduino-based controller that can drive 70 solenoid valves to pneumatically actuate integrated microfluidic valves. "
23:00 < nmz787> heath: glass valves via electrostatic deflection is cooler IMO
23:03 < nmz787> also lookup electrokinesis
23:04 < heath> "Electrokinesis is the particle or fluid transport produced by an electric field acting on a fluid having a net mobile charge."
23:04 < heath> from https://en.wikipedia.org/wiki/Electrohydrodynamics#Electrokinesis
23:06 < heath> ah, https://en.wikipedia.org/wiki/Electrokinetic_phenomena#Family
23:06 < heath> was wondering how electroosmosis fit in
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--- Log closed Sat Oct 14 00:00:45 2017