--- Log opened Wed Jan 09 00:00:15 2019
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00:27 < archels> "Johnny, did you get those blood vials I sent on New Years Eve?"
00:28 < archels> (via the GRG (Gerontology Research Group) mailing list)
00:31 < archels> where not only human but also feline healthspans are the subject of improvement (the latest trend seems to be people feeding their cats GDF11)
00:49 < archels> TIL "bleb" is a word https://en.wikipedia.org/wiki/Bleb_(cell_biology)
00:49 < nmz787> isn't it the antonym of invagination?
00:50 < nmz787> .wik invagination
00:50 < yoleaux> "In developmental biology, invagination is a mechanism that takes place during gastrulation. This mechanism or cell movement happens mostly in the vegetal pole. Invagination consists of the folding of an area of the exterior sheet of cells towards the inside of the blastula." — https://en.wikipedia.org/wiki/Invagination
00:50 < nmz787> .wik bleb (cell biology)
00:50 < yoleaux> "In cell biology, a bleb is a bulge or protrusion of the plasma membrane of a cell, human bioparticulate or abscess with an internal environment similar to that of a simple cell, characterized by a spherical, bulky morphology." — https://en.wikipedia.org/wiki/Bleb_(cell_biology)
00:51 < nmz787> people have definitely looked at me funny when I've randomly used invagination (totally in the correct context)
00:52 < nmz787> I mean, speaking about stuff and used the term in conversation
00:52 < nmz787> possibly in context of electroporation
00:59  * archels passes nmz787 the newspeak manual, 2019 edition
01:09 < archels> https://elifesciences.org/articles/41841
01:09 < archels> tl;dr: primary motor cortex is actually more like sensory cortex until a specific (postnatal) developmental time
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01:21 < nmz787> well having a baby, that's sort of obvious... and something I read about infants in general
01:22 < archels> how can that possibly be obvious, without sticking an electrode in said baby's head?
01:22 < nmz787> because they suck at motor skills, and constantly touch everything around them that they possibly can, and stick everything in their mouth too, just to feel it
01:23 < nmz787> it's like they're just vibrating around, probing shit they bash into
01:24 < nmz787> at least it seems obvious now that you mention the hard biochemical evidence
01:25 < archels> yeah, but these palpations/motor babbling might still be driven from M1
01:25 < archels> if they're not, it begs the question where they /are/ coming from
01:28 < nmz787> this reminds me I wanted to look for a helmet for him
01:29 < nmz787> though I wonder if that would rob too much feedback info
01:29 < nmz787> eh, if it looks like a storm trooper, I guess it might be worth it :P
01:30 < archels> haha
01:30 < nmz787> oh man, I wish they had one in amanita muscaria print
01:30 < nmz787> then he'd be my own little Toad
01:30 < archels> hah
01:32 < nmz787> I am unsure how to approach teaching him not to gnaw on electric cords :/ as it is we just keep pulling them away from him or preventing him from reaching them
01:32 < nmz787> I don't think I got shocked until I was probably 6ish
01:32 < fenn> but bitterant on them
01:32 < fenn> put*
01:32 < nmz787> unless it was from a 9v
01:32 < nmz787> hmm
01:33 < nmz787> bitterant better than something hot?
01:33 < nmz787> (capsaicin)
01:33 < fenn> dunno. do you want capsaicin all over everything you touch?
01:34 < nmz787> well, I don't really like cleaning stuff with the bittered ethyl rubbing alcohol I sometimes get around here (it sticks even after washing, so sometimes I eat it later and it's nasty)
01:34 < nmz787> but... hmm
01:34 < nmz787> I guess it is definitely less tolerable than hotness
01:35 < nmz787> I guess it might just be time to clean all the cords!
01:35 < nmz787> I'm gonna call that a win for the night, and head to bed
01:36 < fenn> nite
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06:37 < kanzure> .tw https://twitter.com/kanzure/status/1083009623165231104
06:37 < yoleaux> Off-target mutations don't matter if sequencing shows there are none. (@kanzure)
06:40 < kanzure> https://quillette.com/2019/01/05/should-we-use-genetic-technology-to-boost-human-intelligence/
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09:26 < fenn> http://vimeo.com/270865285 madness
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11:30 < kanzure> .tw https://twitter.com/coindesk/status/1083071557990264832
11:31 < yoleaux> 33/44 FIRST #BITCOIN IMPRESSIONS? They're never good... Just ask @kanzure one of the project's most prestigious coders (and a certified wizard). In fact, Bryan thought it was a piece of... Well, you can hear it from him... LISTEN: http://ow.ly/iHbM30nftk1 #BitcoinAt10 https://pbs.twimg.com/media/DwfX1hVWwAIvI1s.jpg (@coindesk, in reply to tw:1083071314544463873)
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12:48 < kanzure> "Cognitive distortions of people who get stuff done" https://archive.ryankrage77.me/misc/The%20Five%20Cognitive%20Distortions%20of%20People%20Who%20Get%20Stuff%20Done.pdf
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19:09 < jb55> does anyone have one of those minION dna sequencer thingies?
19:11 < jb55> just wondering if I would get any use out of it as a learning tool, knowing nothing about this stuff...
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20:52 < nmz787> jb55: sebastian cocioba has one
20:53 < nmz787> jb55: you probably have a lot more work to do before getting much value out of a minION... for example learning how to grow up cultures, extract DNA, purify it, etc...
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21:05 < jb55> nmz787: gotcha, makes sense. I'm sure there's a noob guide to all this stuff somewhere...
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21:33 < nmz787> jb55: https://diyhpl.us/wiki/diybio/faq/
21:33 < jb55> nmz787: awesome!
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22:05 < Proteus> I'm looking for a word to describe the emotion evoked by an email from your sequencing company to inform you that "we were aiming for 20M reads per sample but, after the demultiplexing, we had very divergent reads numbers:
22:05 < Proteus> Sample              # PE reads
22:05 < Proteus> 751783-P1         45,646
22:05 < Proteus> 751783-P2         3,194,476
22:05 < Proteus> 751783-P3         4,067,200
22:05 < Proteus> 751783-F1         10,960,367
22:05 < Proteus> 751783-F2         1,935,278
22:05 < Proteus> 751783-F3         22,821,242"
22:06 < nmz787> "moneyback"
22:06 < Proteus> it's somewhere between existential horror, confusion, and rage
22:06 < nmz787> "retry"
22:06 < Proteus> lol
22:07 < Proteus> that was the last $3k of my grant
22:07 < nmz787> I guess those aren't emotions, sorry I suck at math
22:07 < nmz787> I mean english
22:07 < nmz787> see, there I go again
22:07 < jb55> yikes
22:07 < nmz787> I bet gradstudentbot would know, if they were here
22:08 < Proteus> 'moneyback' seems like an ideal option
22:08 < nmz787> I guess they'll chock it up to your sample though
22:08 < Proteus> this is through ACGT, if anyone cares
22:08 < nmz787> did you perform the prep?
22:08 < Proteus> yeah, to save money they had us do the RNA extraction, prepare it, and send it in that way
22:09 < nmz787> sent them culture or crude lysate? silica purified? phenol:chloroform cleaned?
22:09 < Proteus> I would have preferred that they did their own extraction but my PI wanted to save a couple bucks
22:09 < nmz787> and now look where you're at
22:09 < Proteus> yeah
22:10 < nmz787> at least ask "can we do anything about this?"
22:10 < nmz787> can you prep more?
22:10 < Proteus> my PI also ignored my instructions and didn't use RiboZero or some other kit to remove ribosomal RNA before sequencing
22:11 < Proteus> so I'm fucking praying that the data isn't 99% rRNA or something
22:12 < Proteus> I can always prep more, the question is how do I get ACGT to do the RNA-seq without charging me more
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22:17 < nmz787> haha, wordsmith the blame
22:18 < Proteus> anyone here familiar with working with NGS and  RNA-seq data? this is my first time and I'd appreciate some advice
22:18 < nmz787> or appeal because "that was my last $3k and my PI is really breathing down my neck"
22:18 < Proteus> hey, the pity play, I hadn't considered that but it might work
22:18 < Proteus> 'I've got a lab full of hungry students to feed! please sir, please!'
22:18 < Proteus> 'we'll die without that data!'
22:18 < nmz787> realistically it might be hard to tell where the blame lies
22:19 < nmz787> if they've had a lot of biz with your Uni.... they won't want to rock the boat over a single fail
22:19 < nmz787> (might not)
22:19 < nmz787> you could also play off their "we were aiming for" quote
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22:20 < nmz787> "well what happened? the samples we sent passed all the initial qualifications on our end"
22:25 < Proteus> there should be an entry in the Dictionary of Obscure Sorrows about this: http://www.dictionaryofobscuresorrows.com/
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--- Log closed Thu Jan 10 00:00:16 2019