--- Log opened Mon Jan 01 00:00:59 2018 00:39 -!- darsie [~username@84-114-73-160.cable.dynamic.surfer.at] has quit [Ping timeout: 248 seconds] 04:25 -!- Jenda_ is now known as Jenda` 05:35 < kanzure> huh? 05:38 <@fenn> are we post-singularity? 05:54 < kanzure> y- yes. no. yes. 05:54 < kanzure> .title https://news.ycombinator.com/item?id=16045859 05:54 < yoleaux> Ask HN: What’s your favorite talk from 2017? | Hacker News 08:22 < kanzure> "Low Cost Non-Invasive Biomedical Imaging - An Open Electrical Impedance Tomography Project" https://media.ccc.de/v/34c3-8948-low_cost_non-invasive_biomedical_imaging 08:22 -!- emeraldgreen [~user@188.227.115.178] has joined ##hplusroadmap 08:25 < kanzure> https://github.com/openeit 08:25 < kanzure> https://github.com/OpenEIT/EIT_PCB 08:25 < kanzure> https://github.com/OpenEIT/EIT_Firmware 08:25 < kanzure> https://github.com/OpenEIT/EIT_Dashboard 08:29 -!- darsie [~username@84-114-73-160.cable.dynamic.surfer.at] has joined ##hplusroadmap 08:44 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Remote host closed the connection] 08:50 -!- drewbot [~cinch@54.234.24.92] has quit [Remote host closed the connection] 09:16 -!- drewbot [~cinch@54.163.141.60] has joined ##hplusroadmap 09:33 -!- aeiousomething [~aeiousome@183.82.170.54] has joined ##hplusroadmap 09:34 -!- aeiousom1thing [aeiousomet@gateway/vpn/privateinternetaccess/aeiousomething] has joined ##hplusroadmap 09:38 -!- aeiousomething [~aeiousome@183.82.170.54] has quit [Ping timeout: 260 seconds] 09:43 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-E58B-B183-AB6-7542.dyn6.twc.com] has joined ##hplusroadmap 10:05 -!- fluke` [~user@193.165.236.254] has joined ##hplusroadmap 10:13 -!- strages [uid11297@gateway/web/irccloud.com/x-hyxrwckkdsyglzna] has joined ##hplusroadmap 10:16 -!- sandeepkr [~sandeepkr@ec2-52-29-251-54.eu-central-1.compute.amazonaws.com] has joined ##hplusroadmap 10:22 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap 10:56 < kanzure> "Beyond directed evolution—semi-rational protein engineering and design" http://www.sciencedirect.com/science/article/pii/S0958166910001540 10:57 < kanzure> seems to be a different lutz author but whatever 11:02 < kanzure> "Computer-aided directed evolution of enzymes" http://journals.iucr.org/m/issues/2017/01/00/be5274/be5274.pdf 11:06 < kanzure> page 3 first paragraph is really interesting 11:15 < kanzure> https://github.com/kamerlinlab/cadee 11:16 -!- yashgaroth [~yashgarot@2606:6000:cd4d:3300:4114:351e:58e0:981] has joined ##hplusroadmap 11:18 < kanzure> yashgaroth: welcome back 11:18 < yashgaroth> ty 11:19 < kanzure> don't need it right now but do you have any ideas about sourcing <$10/kg dNTPs? 11:19 -!- NSCLRP-1 [~MTNSCLRP@unaffiliated/nsclrp-1] has left ##hplusroadmap ["Leaving"] 11:20 < yashgaroth> steal them from sigma? wait nah you'd be paying the crew more than that per kilo 11:23 < kanzure> i was thinking, buy strawberries and do extraction and purification at scale 11:25 < yashgaroth> still gotta stick a couple extra phosphates on the liberated nucleotides, but that would be a good source for raw DNA yes 11:29 < kanzure> "In this issue of IUCrJ, Kamerlin and co-workers (Amrein et al., 2017 ▸) now describe a computational framework for the computer-aided directed evolution of enzymes (CADEE) that can rapidly screen the quantitative effects of thousands of amino-acid substitutions on catalytic function and at relatively low computational cost. Their method uses the empirical valence-bond (EVB) approach ... 11:29 < kanzure> ...(Warshel & Weiss, 1980 ▸; Hwang et al., 1988 ▸) to predict activation barriers for chemical reactions across many enzyme variants generated by in silico mutagenesis. By avoiding high-level quantum-mechanical approaches (which are computationally very expensive), or semi-empirical QM/MM approaches (which are of limited accuracy), Kamerlin and coworkers argue that the EVB approach (which is ... 11:29 < kanzure> ...a valence-bond classical approach) is ideal for assessing rapidly and with quantitative accuracy the effects of multiple amino-acid substitutions. The EVB approach therefore enables rapid in silico analysis of thousands of computationally generated enzyme variants with reasonable computational cost." 11:35 -!- ebowden [~ebowden@110.141.83.102] has quit [Ping timeout: 276 seconds] 11:51 -!- aeiousomething [~aeiousome@183.82.170.54] has joined ##hplusroadmap 11:52 -!- aeiousom1thing [aeiousomet@gateway/vpn/privateinternetaccess/aeiousomething] has quit [Ping timeout: 248 seconds] 11:57 -!- ebowden [~ebowden@110.141.27.51] has joined ##hplusroadmap 12:42 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-E58B-B183-AB6-7542.dyn6.twc.com] has quit [Remote host closed the connection] 12:57 -!- S1R [~S1R@host86-151-221-253.range86-151.btcentralplus.com] has joined ##hplusroadmap 13:01 -!- aeiousomething [~aeiousome@183.82.170.54] has quit [Ping timeout: 248 seconds] 13:24 -!- TC [~talinck@cpe-174-97-113-184.cinci.res.rr.com] has joined ##hplusroadmap 13:24 -!- TC is now known as Guest82748 13:27 -!- hehelleshin [~talinck@cpe-174-97-113-184.cinci.res.rr.com] has quit [Ping timeout: 248 seconds] 13:34 -!- tortial [~al062959@72.238.32.247] has joined ##hplusroadmap 13:35 < tortial> howdy 13:47 -!- S1R [~S1R@host86-151-221-253.range86-151.btcentralplus.com] has quit [Quit: Leaving] 13:54 -!- archels_ is now known as archels 13:55 -!- archels [charl@toad.stack.nl] has quit [Changing host] 13:55 -!- archels [charl@unaffiliated/archels] has joined ##hplusroadmap 14:01 < kanzure> tortial: be greeted 14:02 < tortial> @kanzure, thanks! saw your twitter profile, things are really moving along 14:02 < kanzure> yeah sorry for the low quality 14:02 < tortial> I left the bio world some time ago... :/ but im back?... :P 14:02 < tortial> quality is great! 14:03 < tortial> high!^^ 14:03 < tortial> im planning to get one of the ODIN kits 14:03 < tortial> have you worked with them? 14:04 < kanzure> nope not yet 14:04 < tortial> been reading through the 'protocols' google drive folder Zach has put up 14:04 < tortial> has required some dedication to get through them 14:09 < tortial> I was looking forward to the glowing beer recipe lol 14:47 -!- augur_ [~augur@c-73-125-99-173.hsd1.fl.comcast.net] has joined ##hplusroadmap 14:48 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-B831-CD71-AC30-FE0.dyn6.twc.com] has joined ##hplusroadmap 14:49 -!- augur [~augur@c-73-125-99-173.hsd1.fl.comcast.net] has quit [Ping timeout: 255 seconds] 15:08 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Ping timeout: 248 seconds] 15:18 -!- balrog [~balrog@unaffiliated/balrog] has quit [Quit: Bye] 15:28 < kanzure> https://architecht.io/the-immense-promise-and-practical-limitations-of-machine-learning-in-biochemistry-f37f0c927827 15:34 < kanzure> "oh look at me i can use scikit-learn, plz give me $100 million" 16:03 -!- aeiousomething [~aeiousome@183.82.170.54] has joined ##hplusroadmap 16:15 -!- aeiousomething [~aeiousome@183.82.170.54] has quit [Ping timeout: 264 seconds] 16:31 -!- DataPacRat [~dan@adsl-107.itcanada.com] has joined ##hplusroadmap 17:02 < tortial> im not sure as well how the ml is going to do many batch processes without robotic control 17:04 < kanzure> lab automation is a thing 17:04 < tortial> wouldn't the mechanics need to do a lot of moving things around or would it simply control parameters 17:04 < tortial> ? 17:07 < kanzure> liquid-handling lab robots are a thing 17:08 < kanzure> even open-source versions 17:08 < kanzure> such as opentrons 17:21 < tortial> looks cool these opentrons, but is it not a restricted set of movements? 17:22 < kanzure> tortial: http://transcriptic.com/ 17:26 < kanzure> .wik ultrasound directed follicular aspiration 17:26 < yoleaux> kanzure: Sorry, that command (.wik) crashed. 17:26 < kanzure> .wik ultrasound directed follicular aspiration 17:26 < yoleaux> kanzure: Sorry, that command (.wik) crashed. 17:26 < kanzure> hph 17:26 < kanzure> hmph 17:39 < kanzure> http://www.columbiafertility.com/the-typical-ivf-timeline-6-steps-you-need-to-know/ 17:45 -!- dustinm- [~dustinm@68.ip-149-56-14.net] has quit [Quit: Leaving] 17:47 -!- dustinm [~dustinm@68.ip-149-56-14.net] has joined ##hplusroadmap 17:55 -!- balrog [~balrog@unaffiliated/balrog] has joined ##hplusroadmap 19:02 < kanzure> https://medium.com/mcgill-artificial-intelligence-review/deepmind-just-published-a-mind-blowing-paper-pathnet-f72b1ed38d46 19:27 < nmz787> sup 19:30 < kanzure> debating relative merits of mouse nads vs dog nads 19:33 < nmz787> what about vs human? 19:33 < nmz787> I have some of those around here somewhere 19:37 < kanzure> for gene therapy stuff 19:39 < nmz787> sure 19:39 < nmz787> I'd be more comfortable using my own cells too 20:02 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-B831-CD71-AC30-FE0.dyn6.twc.com] has quit [Quit: Leaving.] 20:07 -!- tortial [~al062959@72.238.32.247] has quit [Quit: Lost terminal] 20:15 -!- darsie [~username@84-114-73-160.cable.dynamic.surfer.at] has quit [Ping timeout: 248 seconds] 20:39 < nmz787> something about oxford nanopore, I think: https://pbs.twimg.com/media/DQttbW2VwAAyB2r.jpg:large 21:43 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-887F-4F50-7C5E-4E03.dyn6.twc.com] has joined ##hplusroadmap 21:43 -!- yashgaroth [~yashgarot@2606:6000:cd4d:3300:4114:351e:58e0:981] has quit [Quit: Leaving] 21:56 -!- SkunkFox [~Foxie@cpe-2606-A000-A441-9100-887F-4F50-7C5E-4E03.dyn6.twc.com] has quit [Remote host closed the connection] 22:03 -!- aeiousomething [~aeiousome@183.82.170.54] has joined ##hplusroadmap 22:04 -!- aeiousomething [~aeiousome@183.82.170.54] has quit [Client Quit] 22:05 -!- aeiousomething [aeiousomet@gateway/vpn/privateinternetaccess/aeiousomething] has joined ##hplusroadmap 23:15 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-xiwefdhwfqoywrhe] has joined ##hplusroadmap 23:32 -!- Malvolio [~Malvolio@unaffiliated/malvolio] has quit [Quit: sleep] 23:58 -!- hehelleshin [~talinck@174.97.113.184] has joined ##hplusroadmap --- Log closed Tue Jan 02 00:00:00 2018