--- Log opened Sun Oct 01 00:00:33 2017
01:02 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-imdnawvjodvhfxso] has quit [Quit: Connection closed for inactivity]
01:44 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-uhnccaiqyrrnhnnq] has joined ##hplusroadmap
02:48 -!- jtimon [~quassel@199.31.134.37.dynamic.jazztel.es] has quit [Ping timeout: 258 seconds]
02:50 -!- jtimon [~quassel@199.31.134.37.dynamic.jazztel.es] has joined ##hplusroadmap
03:04 -!- jtimon [~quassel@199.31.134.37.dynamic.jazztel.es] has quit [Ping timeout: 258 seconds]
03:44 -!- c0rw1n_ [~c0rw1n@cpc109847-bagu17-2-0-cust223.1-3.cable.virginm.net] has joined ##hplusroadmap
03:53 -!- CheckDavid [uid14990@gateway/web/irccloud.com/x-uhnccaiqyrrnhnnq] has quit [Quit: Connection closed for inactivity]
05:02 -!- darsie [~username@84-114-73-160.cable.dynamic.surfer.at] has joined ##hplusroadmap
05:28 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has quit [Ping timeout: 248 seconds]
06:25 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has joined ##hplusroadmap
06:49 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
07:08 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 258 seconds]
07:10 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
07:33 -!- jtimon [~quassel@199.31.134.37.dynamic.jazztel.es] has joined ##hplusroadmap
07:48 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 258 seconds]
08:06 -!- mindsForge [~nak@174-26-0-148.phnx.qwest.net] has joined ##hplusroadmap
08:08 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
08:16 -!- atrus6 [~atrus6@72.241.82.247] has joined ##hplusroadmap
08:22 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has quit [Ping timeout: 248 seconds]
08:53 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 248 seconds]
09:04 < kanzure> "Gene therapy with the TRF1 telomere gene rescues decreased TRF1 levels with aging and prolongs mouse health span" http://onlinelibrary.wiley.com/doi/10.1111/acel.12677/full
09:05 < kanzure> "The shelterin complex protects telomeres by preventing them from being degraded and recognized as double-strand DNA breaks. TRF1 is an essential component of shelterin, with important roles in telomere protection and telomere replication. We previously showed that TRF1 deficiency in the context of different mouse tissues leads to loss of tissue homeostasis owing to impaired stem cell ...
09:05 < kanzure> ...function."
09:05 < kanzure> "Here, we show that TRF1 levels decrease during organismal aging both in mice and in humans. We further show that increasing TRF1 expression in both adult (1-year-old) and old (2-year-old) mice using gene therapy can delay age-associated pathologies. To this end, we used the nonintegrative adeno-associated serotype 9 vector (AAV9), which transduces the majority of mouse tissues allowing for ...
09:05 < kanzure> ...moderate and transient TRF1 overexpression. AAV9-TRF1 gene therapy significantly prevented age-related decline in neuromuscular function, glucose tolerance, cognitive function, maintenance of subcutaneous fat, and chronic anemia."
09:08 < kanzure> ttp://www.telocyte.com/our-partner
09:08 < kanzure> hhttp://www.telocyte.com/our-partner
09:08 < kanzure> hmph
09:08 < kanzure> http://www.telocyte.com/our-partner
09:21 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
09:41 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has joined ##hplusroadmap
09:49 < kanzure> "Computing exponentially faster: implementing a non-deterministic universal Turing machine using DNA" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5378132/
09:52 -!- sachy [~sachy@nat.brmlab.cz] has joined ##hplusroadmap
09:59 < kanzure> old tab nevermind
10:40 < fenn> "non-deterministic turing machine" means something special (and stupid) to math people
10:41 < fenn> .title https://www.wired.com/story/god-is-a-bot-and-anthony-levandowski-is-his-messenger/
10:41 < yoleaux> The Self Driving Car Whiz Who Fell from Grace | WIRED
10:42 < fenn> “develop and promote the realization of a Godhead based on Artificial Intelligence.” sounds legit
10:47 < kanzure> k let's do it
10:47 < kanzure> i got nothing better to do today otehr than barfing and taking anti-inflammatories
10:50 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
10:50 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Client Quit]
10:50 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
10:53 < kanzure> .title https://news.ycombinator.com/item?id=15378121
10:53 < yoleaux> EFF: Stupid patents are dragging down AI and machine learning | Hacker News
10:55 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Remote host closed the connection]
10:56 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has quit [Ping timeout: 258 seconds]
11:09 -!- shortboi__ [82e1bc41@gateway/web/freenode/ip.130.225.188.65] has joined ##hplusroadmap
11:10 -!- shortboi__ [82e1bc41@gateway/web/freenode/ip.130.225.188.65] has left ##hplusroadmap []
11:12 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
11:14 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 248 seconds]
11:18 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
11:19 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Ping timeout: 248 seconds]
11:24 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap
11:26 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 248 seconds]
11:39 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 258 seconds]
11:53 < heath> what are we doing again?
11:53 < heath> nmz787: you're playing with RecA today?
11:54 -!- strages [uid11297@gateway/web/irccloud.com/x-nesebycizpmdbxsm] has joined ##hplusroadmap
11:57 < nmz787> heath: nope
11:57 < nmz787> heath: that was related to DNA hard-drive system architecture brainstorming
12:00 < heath> neat-o
12:03 < heath> ah, kanzure, you did take a second look the NUTM
12:03 < heath> a second look +at the NUTM +paper
12:06 < kanzure> no i am busy being sick today
12:08 < nmz787> eww, being sick sucks
12:10 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap
12:13 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
12:15 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 240 seconds]
12:20 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap
12:38 < kanzure> "Measuring cation dependent DNA polymerase fidelity landscapes by deep sequencing" http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0043876
12:40 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 264 seconds]
12:42 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap
13:25 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 258 seconds]
13:25 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has joined ##hplusroadmap
13:30 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has quit [Ping timeout: 255 seconds]
13:31 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has joined ##hplusroadmap
13:35 -!- delinquentme [~delinquen@108-235-112-153.lightspeed.sntcca.sbcglobal.net] has quit [Ping timeout: 248 seconds]
13:36 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has joined ##hplusroadmap
13:41 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has quit [Ping timeout: 246 seconds]
13:45 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has joined ##hplusroadmap
13:50 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
13:51 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Read error: Connection reset by peer]
13:52 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
13:56 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Remote host closed the connection]
13:56 -!- delinquentme [~delinquen@2602:306:ceb7:990:9562:db57:4831:c55d] has quit [Ping timeout: 258 seconds]
14:08 < kanzure> "Flash memory: photochemical imprinting of neuronal action potentials onto a microbial rhodopsin" http://pubs.acs.org/doi/abs/10.1021/ja411338t
14:11 < kanzure> "Roadmap on neurophotonics" http://iopscience.iop.org/article/10.1088/2040-8978/18/9/093007/meta
14:13 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has joined ##hplusroadmap
14:15 < kanzure> "Design and synthesis of a calcium-sensitive photocage" http://onlinelibrary.wiley.com/doi/10.1002/ange.201602941/full
14:15 < kanzure> "Herein, we refine and extend the concept of photolabile groups, synthesizing the first Ca2+-sensitive photocage. This system functions as a chemical coincidence detector, releasing small molecules only in the presence of both light and elevated [Ca2+]. Caging a fluorophore with this ion-sensitive moiety yields an “ion integrator” that permanently marks cells undergoing high Ca2+ flux ...
14:15 < kanzure> ...during an illumination-defined time period. "
14:16 < kanzure> "A volumetric three-dimensional digital light photoactivatable dye display" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5508202/
14:17 -!- delinquentme [~delinquen@96-68-162-179-static.hfc.comcastbusiness.net] has joined ##hplusroadmap
14:17 < kanzure> dat figure 6
14:20 < kanzure> "Voltage imaging with genetically encoded indicators" http://cohenweb.rc.fas.harvard.edu/Publications/Xu_Zou_Cohen_Voltage_Imaging_COCB.pdf (2017)
14:21 < kanzure> "Statistical analysis of molecular signal recording" http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1003145
14:22 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has joined ##hplusroadmap
14:23 < kanzure> "Nucleotide-time alignment for molecular recorders" http://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1005483&rev=2
14:24 < kanzure> "DNA binding strength increases the processivity and activity of a Y-Family DNA polymerase" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5500549/
14:24 -!- mindsForge [~nak@174-26-0-148.phnx.qwest.net] has quit [Remote host closed the connection]
14:25 < kanzure> In this study, the binding between Dbh and DNA was investigated to better understand how to rationally design enhanced processivity in a Y-family polymerase. Guided by structural simulation, a fused pol Sdbh with non-specific dsDNA binding protein Sso7d in the N-terminus was designed. This modification increased in vitro processivity 4-fold as compared to the wild-type Dbh. Additionally, ...
14:25 < kanzure> ...bioinformatics was used to identify amino acid mutations that would increase stabilization of Dbh bound to DNA. The variant SdbhM76I further improved the processivity of Dbh by 10 fold. The variant SdbhKSKIP241–245RVRKS showed higher activity than Dbh on the incorporation of dCTP (correct) and dATP (incorrect) opposite the G (normal) or 8-oxoG(damaged) template base. These results ...
14:25 < kanzure> ...demonstrate the capability to rationally design increases in polymerase processivity and catalytic efficiency through computational DNA binding predictions and the addition of non-specific DNA binding domains."
14:26 < kanzure> "On the technology prospects and investment opportunities for scalable neuroscience" https://arxiv.org/abs/1307.7302 (2013)
14:26 < atrus6> dni123DNItoomin
14:27 < kanzure> "Evolution of a split RNA polymerase as a versatile biosensor platform" https://www.nature.com/nchembio/journal/v13/n4/abs/nchembio.2299.html
14:28 < kanzure> i don't understand this cas9 + RNA polymerase thing http://pubs.acs.org/doi/abs/10.1021/acschembio.7b00532
14:36 -!- aeiousom1thing [~aeiousome@gateway/vpn/privateinternetaccess/aeiousomething] has quit [Ping timeout: 240 seconds]
15:06 -!- poppingtonic [~brian@unaffiliated/poppingtonic] has quit [Ping timeout: 248 seconds]
15:09 -!- jtimon [~quassel@199.31.134.37.dynamic.jazztel.es] has quit [Ping timeout: 240 seconds]
15:18 -!- jaboja [~jaboja@jaboja.pl] has quit [Ping timeout: 248 seconds]
16:00 < nmz787> kanzure: seems they induce RNAP to produce guideRNA for the CAS9 to work off of
16:01 < kanzure> why not recombinase + cas9 instead?
16:02 < nmz787> you still need a gRNA for the cas9 to localize, right?
16:03 < nmz787> in that system, it looks like a biosensor is able to transduce the RNAP to activate, which then generates a gRNA for the already-present cas9 to go do an edit
16:03 < nmz787> I guess
16:03 < nmz787> I didn't open the full doc until now
16:05 < nmz787> yeah
16:05 < nmz787> since the gRNA gets degraded I guess
16:06 < nmz787> they can use the system to edit a gene "off" or "on"
16:06 < nmz787> by producing a gRNA that edits it one way or the other
16:06 < nmz787> idk what the latency of switching is
16:06 < nmz787> i.e. gRNA degradataion time
16:06 < nmz787> g2g
16:06 < kanzure> polymerase cation switching seems more interesting for now
16:07 < kanzure> but my head is exploding so what do i know
16:08 < kanzure> https://www.youtube.com/watch?v=uwmeH6Rnj2E
16:10 -!- jaboja [~jaboja@jaboja.pl] has joined ##hplusroadmap
16:14 -!- Gurkenglas_ [~Gurkengla@dslb-094-223-135-191.094.223.pools.vodafone-ip.de] has quit [Ping timeout: 240 seconds]
16:16 -!- mindsForge [~nak@174-26-0-148.phnx.qwest.net] has joined ##hplusroadmap
16:34 -!- hehelleshin [~talinck@cpe-174-97-113-184.cinci.res.rr.com] has joined ##hplusroadmap
16:37 -!- helleshin [~talinck@cpe-174-97-113-184.cinci.res.rr.com] has quit [Ping timeout: 240 seconds]
17:14 < kanzure> nmz787: not sure what to do with this new gp-write doc.. looks the same.
17:26 -!- yashgaroth [~yashgarot@2606:6000:cd4d:3300:f5e0:f867:a11d:8d52] has joined ##hplusroadmap
18:34 -!- atrus6 [~atrus6@72.241.82.247] has quit [Ping timeout: 248 seconds]
18:44 -!- c0rw1n_ [~c0rw1n@cpc109847-bagu17-2-0-cust223.1-3.cable.virginm.net] has quit [Quit: Leaving]
18:45 -!- c0rw1n_ [~c0rw1n@cpc109847-bagu17-2-0-cust223.1-3.cable.virginm.net] has joined ##hplusroadmap
18:51 -!- jaboja [~jaboja@jaboja.pl] has quit [Remote host closed the connection]
18:51 < kanzure> .title https://www.youtube.com/watch?v=W4JXvP-yHbw
18:51 < yoleaux> Adolf Hitler Anime Opening [HD] - YouTube
18:58 -!- mindsForge [~nak@174-26-0-148.phnx.qwest.net] has quit [Quit: Leaving.]
19:05 -!- delinquentme [~delinquen@96-68-162-179-static.hfc.comcastbusiness.net] has quit [Ping timeout: 240 seconds]
20:00 -!- delinquentme [~delinquen@2602:306:ceb7:990:5013:8fea:6360:15ed] has joined ##hplusroadmap
20:55 -!- justanotheruser [~justanoth@unaffiliated/justanotheruser] has quit [Ping timeout: 248 seconds]
22:19 -!- yashgaroth [~yashgarot@2606:6000:cd4d:3300:f5e0:f867:a11d:8d52] has quit [Quit: Leaving]
22:53 -!- delinquentme [~delinquen@2602:306:ceb7:990:5013:8fea:6360:15ed] has quit [Ping timeout: 255 seconds]
23:54 -!- delinquentme [~delinquen@2602:306:ceb7:990:5013:8fea:6360:15ed] has joined ##hplusroadmap
--- Log closed Mon Oct 02 00:00:34 2017