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| JayDugger | I suspect that's called "reasoning from fictional evidence." Given the author knows more about ML than I do, perhaps his argument has merit. (Yes, that's yielding to argument by authority.) | 02:28 |
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| JayDugger | And Liu Cixin's solution isn't his own, though it might have developed independently. Zebrowski and Pellegrino did it earlier in "The Killing Star." | 02:41 |
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| JayDugger | Hardly an original SF idea, and explored in detail at (where else?) Atomic Rockets. http://www.projectrho.com/public_html/rocket/aliens.php | 02:41 |
| JayDugger | See also https://www.researchgate.net/publication/283986931_The_Dark_Forest_Rule_One_Solution_to_the_Fermi_Paradox | 02:49 |
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| kanzure | hm. | 05:40 |
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| kanzure | "Morphological neuron classification using machine learning" http://journal.frontiersin.org/article/10.3389/fnana.2016.00102/abstract | 06:36 |
| kanzure | tractography evaluation tools http://www.tractometer.org/ | 06:37 |
| kanzure | "Progress towards mammalian whole-brain cellular connectomics" http://journal.frontiersin.org/article/10.3389/fnana.2016.00062/full | 06:39 |
| kanzure | "mammalian GFP-Reconstitution Across Synaptic Partners (mGRASP)" from http://journal.frontiersin.org/article/10.3389/fnana.2015.00078/full | 06:43 |
| kanzure | "mGRASP is a genetically-controlled, molecular engineering method to detect mammalian synapses using LM (Kim et al., 2011; Feng et al., 2012, 2014; Druckmann et al., 2014). It is based on two complementary split-GFP fragments (called spGFP1-10 and spGFP11), separately non-fluorescent, each tethered to synaptic membranes in each of two neuronal populations. When two neurons, each expressing one of the fragments, are closely opposed across ... | 06:43 |
| kanzure | ... a synaptic cleft, the split fragments unite and fluorescent GFP is reconstituted in that location (Figure 1B). This molecular engineering approach allows the resolution, at nanometer-scale, of synapses viewable by LM." | 06:43 |
| kanzure | "... benefit of mGRASP technology is that it can rapidly and accurately detect nanometer-scale (~20 nm) synapses despite the diffraction limitations of LM: using this technique, fluorescence indicates the locations of mammalian synapses quickly, confidently, and with high spatial resolution. When tested with known synaptic and non-synaptic connections in samples full of axonal contacts, mGRASP was shown to specifically detect actual ... | 06:44 |
| kanzure | ... synapses with very few false positives. When combined with specialized analysis software (Feng et al., 2012, 2014, 2015), mGRASP can relatively quickly reveal the precise locations and numbers of synapses along postsynaptic dendrites, sites responsible for determining many important characteristics of signal processing." | 06:44 |
| kanzure | "The stochastic multicolor labeling of Brainbow combined with mGRASP, for instance, could identify the presynaptic partners of a given neuron; it would require labeling each neuron and preparing dense-reconstructions of synaptic connectivity under LM (Cai et al., 2013). Together with new optical clearing methods (Chung and Deisseroth, 2013; Ke et al., 2013; Renier et al., 2014; Susaki et al., 2014) or the very recently developed ... | 06:45 |
| kanzure | ... expansion imaging method which uses the physical expansion (~4.5-fold) of tissue, resulting in physical magnification (Chen et al., 2015), mGRASPing with multicolored axonal labeling allows mapping connectivity from multiple inputs. Also, mGRASP combined with a new retrograde label virus system (Kato et al., 2011a,b) could help unlock the secrets of disynaptic circuits as well as monosynaptic pairs of cells. Further, a common ... | 06:45 |
| kanzure | ... drawback of all methods for anatomical synaptic mapping, the lack of information about synaptic activity and strength, can be overcome through combinations of techniques including existing activity indicators and optogenetic tools." | 06:45 |
| kanzure | viral techniques for gastrointestinal tract studies http://link.springer.com/article/10.1007/s00418-016-1496-6 | 06:50 |
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| kanzure | "Whole-brain mapping of the direct inputs and axonal projections of POMC and AgRP neurons" http://journal.frontiersin.org/article/10.3389/fnana.2015.00040/full | 06:51 |
| kanzure | "MAPseq-uencing long-range neuronal projections" http://www.cell.com/neuron/abstract/S0896-6273(16)30522-0 | 06:56 |
| kanzure | "Mapping synaptic input fields of neurons with super-resolution imaging" https://www.researchgate.net/profile/Colenso_Speer/publication/282593369_Mapping_Synaptic_Input_Fields_of_Neurons_with_Super-Resolution_Imaging/links/56156e8008ae983c1b41fe7c.pdf | 07:00 |
| kanzure | "Super resolution imaging of genetically labeled synapses in Drosophila brain tissue" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4880563/ | 07:01 |
| kanzure | "direct stochastic optical reconstruction microscopy (dSTORM)" | 07:01 |
| kanzure | "genetically encoded calcium indicators (GECIs)" | 07:03 |
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| kanzure | "Multibow: Digital spectral barcodes for cell tracing" http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0127822 | 07:05 |
| kanzure | "We introduce a multicolor labeling strategy (Multibow) for cell tracing experiments in developmental and regenerative processes. Building on Brainbow-based approaches that produce colors by differential expression levels of different fluorescent proteins, Multibow adds a layer of label diversity by introducing a binary code in which reporters are initially OFF and then probabilistically ON or OFF following Cre recombination. We have ... | 07:05 |
| kanzure | ... developed a library of constructs that contains seven different colors and three different subcellular localizations. Combining constructs from this library in the presence of Cre generates cells labeled with multiple independently expressed colors based on if each construct is ON or OFF following recombination. These labels form a unique "barcode" that allows the tracking of the cell and its clonal progenies in addition to ... | 07:05 |
| kanzure | ... expression level differences of each color. We tested Multibow in zebrafish which validates its design concept and suggests its utility for cell tracing applications in development and regeneration." | 07:05 |
| kanzure | a review of "tyrosine-type site-specific recombinases (T-SSRs)" http://pubs.acs.org/doi/abs/10.1021/acs.chemrev.6b00077 | 07:06 |
| kanzure | "A photoactivatable Cre–loxP recombination system for optogenetic genome engineering" http://www.nature.com/nchembio/journal/vaop/ncurrent/full/nchembio.2205.html | 07:07 |
| kanzure | "Here we develop a highly efficient photoactivatable Cre recombinase (PA-Cre) to optogenetically control genome engineering in vivo. PA-Cre is based on the reassembly of split Cre fragments by light-inducible dimerization of the Magnet system. PA-Cre enables sharp induction (up to 320-fold) of DNA recombination and is efficiently activated even by low-intensity illumination (~0.04 W m−2) or short periods of pulsed illumination (~30 s). ... | 07:07 |
| kanzure | ... We demonstrate that PA-Cre allows for efficient DNA recombination in an internal organ of living mice through noninvasive external illumination using a LED light source. The present PA-Cre provides a powerful tool to greatly facilitate optogenetic genome engineering in vivo." | 07:07 |
| kanzure | yeah i think generically/randomly mutating and varying recombinases to have a variety of properties would be a useful thing to be doing... optical control of recombinases is a useful addition to the toolbox. | 07:07 |
| kanzure | "NIH Blueprint for Neuroscience Research has created several hundreds of Cre driver mouse lines which are currently used by the world-wide neuroscience community." | 07:11 |
| ebowden | Oh THIS is cool. | 07:16 |
| kanzure | "Synthetic recombinase-based state machines in living cells" http://science.sciencemag.org/content/353/6297/aad8559.full?ijkey=wzroPPh1eIu9k&keytype=ref&siteid=sci http://www.scottaaronson.com/blog/?p=2862 | 07:16 |
| kanzure | yeah it would seem like "photoactivatable Cre recombinase" could be paired with some sort of viral gene therapy approach where you could use different viruses and light at different time to cause the construction of different DNA molecules.... in a very slow way, that is. | 07:17 |
| kanzure | or, even without viruses, generic dna delivery stuff such as electroporation perhaps | 07:18 |
| ebowden | Hmm, sometimes sci-hub doesn't work with sciencemag. | 07:18 |
| ebowden | (It worked this time.) | 07:18 |
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| kanzure | there should be more papers structured like this (seems like a dump of an email thread) http://journal.frontiersin.org/article/10.3389/fnana.2016.00060/full | 07:36 |
| kanzure | "opsin photoreceptors in the deep brain" http://journal.frontiersin.org/article/10.3389/fnana.2016.00048/full | 07:37 |
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| kanzure | what "Furthermore, direct illumination through a fiber optic cable into the hypothalamus stimulates testicular growth in blinded ducks (Benoit and Ott, 1944)." | 07:38 |
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| kanzure | "Whole brain imaging with serial two-photon tomography" http://journal.frontiersin.org/article/10.3389/fnana.2016.00031/full | 07:47 |
| kanzure | "... Importantly, the discovery of BBB penetrant AAV serotypes presents a unique opportunity for CNS applications, where efficient and specific AAV distribution circumvents the need for highly invasive intracranial injections. However, while the repertoire of AAV serotypes demonstrating BBB penetrance has significantly expanded (Bourdenx et al., 2014), most clinical applications have been limited to the AAV2 (Mingozzi and High, 2011)." | 07:48 |
| kanzure | a review of virus-based materials and virus-functionalized nanoparticles and stuff http://pubs.rsc.org/en/content/articlelanding/2016/cs/c5cs00287g#!divAbstract | 07:52 |
| kanzure | this document proposes solid scaffolds and hydrogels to control the release of viral gene therapy vectors upon implantation http://www.discoverymedicine.com/Magali-Cucchiarini/2016/06/human-gene-therapy-novel-approaches-to-improve-the-current-gene-delivery-systems/ and sponges | 07:55 |
| kanzure | "Flexible AAV-equiped genetic modules for inducible control of gene expression in mammalian brain" http://www.nature.com/mtna/journal/v5/n4/full/mtna201623a.html | 07:58 |
| kanzure | above is using a two-virus system and "tetracycline (tet)-controlled genetic switches for inducible and reversible control of gene expression" and doxycycline | 07:58 |
| kanzure | "Inducible and combinatorial gene manipulation in mouse brain" https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4404871/ looks like they would have had less problems in this study if they had the photoswitchable recombinase enzyme (something about problems with doxycycline and milk) | 08:01 |
| kanzure | "... The inducible genetic switches in our viruses provide an added advantage over a single virus approach for constitutive Cre recombinase expression; with our approach, Cre/loxP mediated gene recombination can be activated by Dox treatment after a particular biological process, such as memory formation, without causing stress to animals by a surgical intervention for virus injection, thus avoiding potential stress-related effects. ... | 08:02 |
| kanzure | ... Given that targeting selective brain region(s) for gene expression/manipulation is a major hurdle with the traditional transgenic, our virus-based approach can be of a great value for neuroscience research and gene therapy." | 08:02 |
| kanzure | brain vessels and vasculature map and atlas writeup http://journal.frontiersin.org/article/10.3389/fnana.2016.00012/full | 08:05 |
| kanzure | hooray defeated a backlog | 08:06 |
| archels_ | how does the anticlimax feel? | 08:09 |
| kanzure | that's not something i am likely to know | 08:10 |
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| kanzure | fricatives as seen in speech spectra http://clas.mq.edu.au/speech/acoustics/speech_spectra/fricatives.html | 09:57 |
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| kanzure | hrm. | 13:35 |
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| nmz787 | does pinching the head of a developing fetus cause any disruption to the growth/development of the other organs, such as heart, kidney, liver, etc??? I am thinking in terms of clone organ harvesting and how to make it slightly less murderous. | 14:00 |
| kanzure | perma fetus? | 14:08 |
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| adlai | ignoramus question: does mGRASP make bitcoin obsolete? ie, could it someday be used to nonconsentually extract arbitrary information from long-term memory? | 14:32 |
| kanzure | adlai: you can already somewhat extract information using fMRI of e.g. imagined visual scenes into video data | 14:34 |
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| adlai | doesn't that require conscious consent? | 14:34 |
| adlai | ie " don't think of a rhinocerous" | 14:34 |
| kanzure | sure blame the victim.. what? | 14:34 |
| adlai | extracting synapse location is qualitatively superior to "think of how a synapse looks while you don't move your head one inch" | 14:35 |
| kanzure | fMRI has also been used to get information about word choice, reliable prediction of unspoken information, etc.. | 14:36 |
| adlai | aiui, fMRI reveals synaptic firing, not the location of every single synapse, regardless of activity | 14:36 |
| kanzure | fMRI does not reveal synaptic firing, unfortunately | 14:36 |
| adlai | this ignorance is a much better birthday present. thank you kanzure :) | 14:37 |
| kanzure | (it's blood flow and oxygenated vs non-oxygenated blood) | 14:37 |
| kanzure | and hemoglobin paramagnetism details | 14:38 |
| kanzure | there is a correlation, though. | 14:38 |
| adlai | someday, teachers will be prized not for providing new information (any shmuck with a modem can do that), but rather for their ability to expose false assumptions | 14:39 |
| kanzure | re: extraction of arbitrary information, surely you recognize that for some of us the goal is the extraction of all information from a brain for digital reconstruction purposes | 14:39 |
| adlai | of course. i just hope that this becomes possible after people have stopped securing bitcoin with memorized key phrases. | 14:40 |
| kanzure | as i pointed out, fMRI and other methods can recover information from living persons | 14:42 |
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| kanzure | for dead people, yes i guess that's a new kind of problem once that starts working | 14:42 |
| kanzure | it might be the case that encoding is different per person, so you would need at least to simulate them and ask them to report on specific information (since you probably can't directly look and get the information out), so... well i guess that might not make you feel better either :). certainly not AlonzoTG. | 14:46 |
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| adlai | research topic: is LTM static (or does it require 'simulation' to extract information) | 15:22 |
| adlai | who's AlonzoTG? | 15:22 |
| kanzure | alonzotg is a troubled person (who has been banned from this channel) because he believes that i am part of a secret plot to murder everyone and upload their brains to torture everyone for all eternity | 15:29 |
| kanzure | you probably know him from the bitcoin community though. (i ran into him years earlier pre-bitcoin because of extropians/extropy-chat). | 15:30 |
| kanzure | (his ban wasn't because of his belief; it's because he's annoying as hell and unproductive.) | 15:31 |
| adlai | oh da mn, sorry to reah that. (i only believe that you are the human ambassador of an AI project to upload copies of worthy brains, to enslave for all eternity; quite a different delusion... :) | 15:32 |
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| kanzure | as long as these delusions stay separate and don't comingle....... | 15:33 |
| adlai | speaking of productivity, i should get back to shitting useful bricks. | 15:33 |
| kanzure | adlai: http://diyhpl.us/~bryan/papers2/neuro/Sequencing%20the%20connectome%20-%202012.pdf | 15:36 |
| kanzure | http://diyhpl.us/~bryan/papers2/neuro/Rosetta%20brains:%20A%20strategy%20for%20molecularly-annotated%20connectomics%20-%20Marblestone%20-%20Church%20-%20Boyden%20-%202014.pdf | 15:36 |
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| justanotheruser | idea: create a miner that operates by issuing sha256 subproblems to mechanical turks | 18:07 |
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| kanzure | and then lose money to amazon's fees while you operate asics wired up to mechanical turk? | 18:08 |
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| justanotheruser | cloud mining | 18:16 |
| justanotheruser | 2.0 | 18:16 |
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| kanzure | .title https://www.youtube.com/watch?v=33p-uR5swy0 | 19:17 |
| yoleaux | Robust Large-Scale Machine Learning in the Cloud - YouTube | 19:17 |
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| adlai | kanzure: thanks for the paperbotting, queued | 20:22 |
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| --- Log closed Sun Oct 23 00:00:29 2016 | ||
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