--- Log opened Sat Jan 07 00:00:58 2017
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02:22 < fenn> .wik memacs
02:22 < yoleaux> "MicroEMACS is a small, portable Emacs-like text editor originally written by Dave Conroy in 1985, and further developed by Daniel M. Lawrence (1958-2010) and was maintained by him. MicroEMACS has been ported to many operating systems, including MS-DOS, Microsoft Windows, VAX/VMS, Atari ST, AmigaOS and various Unix-like operating systems." -- https://en.wikipedia.org/wiki/MicroEMACS
02:22 < fenn> i'm guessing instead they meant https://github.com/novoid/Memacs
02:23 < fenn> "
02:23 < fenn> What did I do on February 14th 2007? Visualize your (digital) life in Org-mode"
03:04 < fenn> this seems pretty reasonable (from the author? of memacs) http://karl-voit.at/managing-digital-photographs/
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10:16 < kanzure> .wik WWC1
10:16 < yoleaux> "Protein KIBRA also known as kidney and brain expressed protein (KIBRA) or WW domain-containing protein 1 (WWC1) is a protein that in humans is encoded by the WWC1 gene." -- https://en.wikipedia.org/wiki/WWC1
10:16 < kanzure> " single nucleotide polymorphism (rs17070145) [6] in the gene has been associated with human memory performance in one 2006 study.[7] No significant support for association with memory was found in a study with 584 subjects.[8] However it was replicated in a smaller study of the elderly.[9] A subsequent study in two large UK samples indicated that KIBRA is specifically associated with forgetti...
10:16 < kanzure> ...ng of non-semantic material.[10] ... KIBRA has at least 10 interaction partners, including synaptopodin, PKC? and Dendrin, most of which modify synaptic plasticity. For instance, dendrin is a post-synaptic protein with expression regulated by sleep deprivation.[12] KIBRA has been shown to interact with Protein kinase M?.[13]"
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11:04 < pasky> kanzure: do you have a few example pairs that ought to be scored correct but didn't match the gold standard? i wonder if it's mstly single-word error (or us/uk spelling errors?) or something more complex
11:22 < kanzure> Truth:      saint aubert's manner towards him was affectionate though grave and emily was serious though she made frequent efforts to appear cheerful
11:22 < kanzure> Prediction: send overs mannertowards him was apfectionite though greave and emily was sorious though she maye frequent afforits to appear cheerful
11:22 < kanzure> Loss/CTC cost: [ 38.93444061]
11:22 < kanzure> Truth:      and they all three sat in a row on a stone bench and began to eat sandwiches and cake and pickles and cheese
11:23 < kanzure> Prediction: and they all gre sat ina ro on a ston bench and begain to ea somiwiches and cate and pickles ands ches fom wo
11:23 < kanzure> Loss/CTC cost: [ 48.43120956]
11:24 < kanzure> i dunno, it's hard to show in just single samples, it's more like... something i observed while i was watching the train log scroll by.
11:24 < kanzure> it's also interesting that "fom we" and "from we" end up tacked on the end of the predictions, it's a sign of overtraining and CTC isn't really able to nix that
11:25 < kanzure> pasky: ^
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12:05 < kanzure> "Impact of Genetic Variation in SORCS1 on Memory Retention" Impact of Genetic Variation in SORCS1 on Memory Retention
12:06 < kanzure> .wik dysbindin
12:06 < yoleaux> "Dysbindin, short for dystrobrevin-binding protein 1, is a protein constituent of the dystrophin-associated protein complex (DPC) of skeletal muscle cells. It is also a part of BLOC-1, or biogenesis of lysosome-related organelles complex 1." -- https://en.wikipedia.org/wiki/Dysbindin
12:08 < kanzure> "PRKCA polymorphism changes the neural basis of episodic remembering in healthy individuals." https://www.ncbi.nlm.nih.gov/pubmed/24842701
12:09 < kanzure> "Genome-wide analyses of working memory ability: A review" https://pdfs.semanticscholar.org/c8ea/de6196e27e7ec7030d3af54eba9e93c00f17.pdf (2014)
12:11 < kanzure> "A genome-wide survey of human short-term memory" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030750/ (2011)
12:16 < kanzure> "The sorting receptor SorCS1 regulates trafficking of neurexin and AMPA receptors" https://www.ncbi.nlm.nih.gov/pubmed/26291160 (2015)
12:16 < pasky> kanzure: well but these *are* real mistakes, aren't they?  that "fom we" is interesting..
12:17 < pasky> this seems like something longer training and/or more training data should just fix
12:18 < kanzure> "mannertowards" is fine but it gets downscored
12:20 < pasky> that's just 2 of the 30 mistakes it made though
12:21 < pasky> and ultimately you don't want that mistake either i think
12:21 < pasky> i support your idea 00:30 < kanzure> i need to make a "language model"
12:22 < kanzure> "Identification of common variants associated with human hippocampal and intracranial volumes" https://www.ncbi.nlm.nih.gov/pubmed/22504417/ (2012)
12:23 < kanzure> er, i mean https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3635491/
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12:26 < kanzure> "Common genetic variation and performance on standardized cognitive tests." https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2987367/
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12:29 < kanzure> .wik FADS2
12:29 < yoleaux> "Fatty acid desaturase 2 (FADS2) also known as delta(6) fatty acid desaturase (D6D) is an enzyme that in humans is encoded by the FADS2 gene." -- https://en.wikipedia.org/wiki/FADS2
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12:37 < kanzure> .wik NRXN3
12:37 < yoleaux> "Neurexin-3-alpha is a protein that in humans is encoded by the NRXN3 gene." -- https://en.wikipedia.org/wiki/NRXN3
12:40 < kanzure> .wik IMMP2L
12:40 < yoleaux> "Inner mitochondrial membrane peptidase subunit 2 (IMMP2L) is an enzyme that in humans is encoded by the IMMP2L gene on chromosome 7." -- https://en.wikipedia.org/wiki/IMMP2L
12:43 < kanzure> .wik neurocalcin
12:43 < yoleaux> "Neurocalcin is a neuronal calcium-binding protein that belongs to the neuronal calcium sensor (NCS) family of proteins. It expressed in mammalian brains. It possesses a Ca2+/myristoyl switch" -- https://en.wikipedia.org/wiki/Neurocalcin
12:44 < kanzure> .wik CHRM2
12:44 < yoleaux> "The muscarinic acetylcholine receptor M2, also known as the cholinergic receptor, muscarinic 2, is a muscarinic acetylcholine receptor that in humans is encoded by the CHRM2 gene. Multiple alternatively spliced transcript variants have been described for this gene." -- https://en.wikipedia.org/wiki/CHRM2
12:45 < kanzure> .wik GRIN2B
12:45 < yoleaux> "Glutamate [NMDA] receptor subunit epsilon-2, also known as N-methyl D-aspartate receptor subtype 2B (NMDAR2B or NR2B), is a protein that in humans is encoded by the GRIN2B gene." -- https://en.wikipedia.org/wiki/GRIN2B
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12:49 < kanzure> "Genome-wide studies of verbal declarative memory in nondemented older people" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4513651/ (2015)
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13:22 < cluckj> anyone have access to: http://jamanetwork.com/journals/jama/article-abstract/289716
13:22 < cluckj> .title
13:22 < yoleaux> BLOOD SUGAR VERSUS URINE SUGAR | JAMA | The JAMA Network
13:23 < kanzure> urine sugar, are you really that desperate?
13:24 < cluckj> I need to feed my sweet tooth somehow
13:26 < cluckj> I'm putting together a project proposal and my otherwise surprisingly great university library doesn't give me access to that article
13:26 < kanzure> use scihub.
13:27 < cluckj> oh right
13:27 < cluckj> thanks
13:28  * cluckj facepalms
13:28 < kanzure> you're not a very good pirate, are you
13:28 < cluckj> I was so spoiled by the good library that I forgot that journal piracy existed
13:29 < cluckj> my shame will be forever written in the logs
13:30 < kanzure> that's okay, nobody reads those
13:36 < cluckj> if anyone does, this is probably the thing I am least concerned about...
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16:48 < kanzure> "Rs11074779 is located at 302 kilobase from HS3ST4, which is strongly expressed in the hippocampus and is thought to play a role in herpes simplex virus (HSV)-1 pathogenesis (29); it is intriguing that HSV-1 infection of the brain (herpes simplex encephalitis) preferentially affects the hippocampus and can result in profound memory loss"
16:49 < kanzure> "Further, AD-related plaques and tangles were shown to be enriched in HSV-1 binding proteins (30), and although controversial, a possible role of HSV-1 has been suggested in AD occurrence (31-33)."
16:51 < kanzure> neat little gene network explorer thingy http://129.125.135.180:8080/GeneNetwork/?gene=NRXN3
16:51 < kanzure> er, http://genenetwork.nl
16:52 < kanzure> .wik SEMA5A
16:52 < yoleaux> "Semaphorin-5A is a protein that in humans is encoded by the SEMA5A gene." -- https://en.wikipedia.org/wiki/SEMA5A
16:52 < kanzure> "Members of the semaphorin protein family, such as SEMA5A, are involved in axonal guidance during neural development (Adams et al., 1996).[supplied by OMIM][6] Semaphorine 5A also plays a role in autism, reducing the ability of neurons to form connections with other neurons in certain brain regions (Mosca-Boidron et al 2016)."
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16:58 < kanzure> .wik CTNNBL1
16:58 < yoleaux> "Beta-catenin-like protein 1 is a protein that in humans is encoded by the CTNNBL1 gene." -- https://en.wikipedia.org/wiki/CTNNBL1
17:00 < kanzure> .wik TOMM40
17:00 < yoleaux> "Translocase of outer mitochondrial membrane 40 homolog (yeast), also known as TOMM40, is a protein which in humans is encoded by the TOMM40 gene." -- https://en.wikipedia.org/wiki/TOMM40
17:01 < kanzure> .wik FASTKD2
17:01 < yoleaux> "FAST kinase domain-containing protein 2 (FASTKD2) is a protein that in humans is encoded by the FASTKD2 gene on chromosome 2. This protein is part of the FASTKD family, which is known for regulating the energy balance of mitochondria under stress. FASTKD2 has been implicated in mitochondrial encephalomyopathy, breast cancer, and prostate cancer." -- https://en.wikipedia.org/wiki/FASTKD2
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17:14 < gnusha_> https://secure.diyhpl.us/cgit/diyhpluswiki/commit/?id=d55ddcf2 Bryan Bishop: a bunch of genes and SNPs for brain and memory >> http://diyhpl.us/diyhpluswiki/genetic-modifications/
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17:33 < FourFire> Greetings all, Is there a recommended list of Life extensionist literature?
17:34 < FourFire> I ask this distinct from transhumanist literature
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17:38 < kanzure> FourFire: http://diyhpl.us/~bryan/papers2/longevity/
17:43 < FourFire> kanzure, why does that list have fewer and fewer papers for each successive year, have you been more and more busy since 2010 and since you manually add them there are fewer?
17:43 < kanzure> you've caught me
17:46 < kanzure> feel free to feed me new longevity research
17:50 < FourFire> will do, I'm helping to gather some technical and some nontechnical but interested longevity researchers on the Slack clone Discord, here: https://discord.gg/ftSbffu
17:51 < FourFire> It's early days yet, but we have one of the MMTP people and a cryonicist
17:51 < kanzure> tell them to read 2 papers/day else they get kickbanned
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18:45 < kanzure> https://www.reddit.com/r/9M9H9E9/wiki/narrative
18:47 < kanzure> http://www.scp-wiki.net/scp-173
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19:24 < kanzure> .wik selegiline
19:24 < yoleaux> "Selegiline, also known as L-deprenyl, is a substituted phenethylamine. At normal clinical doses, it is a selective irreversible MAO-B inhibitor. In larger doses it loses its specificity and also inhibits MAO-A." -- https://en.wikipedia.org/wiki/Selegiline
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21:43 < jcorgan> what a Trojan horse molecule. It looks so much like a monoamine that MAO thinks it's about to have a tasty meal, but instead it gets a alkyl through the heart and taken out
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--- Log closed Sun Jan 08 00:00:59 2017