@axoaxonic@synapse.cafe
@axoaxonic@synapse.cafe avatar

axoaxonic

@axoaxonic@synapse.cafe

Studying mathematical/theoretical/computational neuroscience & data science in dᶻidᶻəlal̓ič (Seattle) -- more interested in studying nervous systems through abstraction than studying neurons to improve artificial systems

⚧ ND (ASD/mTBIs/cPTSD/ET/probably more letters) ⬛

Long time musician, now slowly inching my way thru academia as first in my close family to do so. Grew up unschooled, which gave me a heavy autodidactism habit

CW: Posts about disease, links to research involving animals

This profile is from a federated server and may be incomplete. Browse more on the original instance.

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

Applying information theory to cellular ion concentration gradients, these authors derive a principle where cells optimally code responses to environmental perturbations -- incl input from other cells -- by minimizing the cross entropy (Kullback-Leibler divergence) between intracellular and extracellular ion concentrations.

"We demonstrate the ion dynamics in neuronal action potentials described by Hodgkin and Huxley (including the equations themselves) represent a special case of these general information principles."

"Cellular information dynamics through transmembrane flow of ions", Gatenby and Frieden 2017 https://www.nature.com/articles/s41598-017-15182-2.pdf

axoaxonic,
@axoaxonic@synapse.cafe avatar

The greater the KL-divergence, the longer the codeword of Shannon information, the longer the response time. Natural selection would choose rapid responses, so the KL-divergence is minimized: the probability density of the fluctuating intracellular ion concentration is kept as close to the mostly-constant probability density of the extracellular concentration as possible.

The huge range of different perturbations leading to intracellular ion concentration changes would increase the evolutionary pressure for complex and diverse ion channels under this principle

BlackAzizAnansi, to random
@BlackAzizAnansi@mas.to avatar

Drop one of your family secrets.

axoaxonic,
@axoaxonic@synapse.cafe avatar

@BlackAzizAnansi Not really a secret just sad and nobody talks about it. My aunt kidnapped my grandma who was in late stage dementia, to manipulate her into leaving her inheritance to my aunt. Nobody knew where they were hiding until someone in the family hired a PI. When they were tracked down, the PI was met at the edge of the property by someone brandishing a gun, and the investigation ended there. My mom didn't know her mom had passed away until years after it happened

axoaxonic,
@axoaxonic@synapse.cafe avatar

@BlackAzizAnansi My grandma was a single mother working as a nurse in LA, but got some money from marrying the guy who invented the little plastic clamp tool that helps people open jars. Guess it was enough to corrupt my aunt and cause a lot of grief in my mom's family

jonny, to random
@jonny@neuromatch.social avatar

I feel like I like to teach and learn "backwards" sometimes. Like I benefit from a few examples, but then going right for the base principles of the thing immediately after, and then follow that by reading how some ppl who regularly engage with the thing talk about it. Even if a lot goes over my head, I feel like I get a flavor for the landscape better that way - know what I need to know, what is unknown to me vs. Unknown to everyone, etc.

I believe in meeting ppl where they are when teaching, but I feel like that often means sacrificing teaching some fundamentals in favor of faster examples, rather than recalibrating tactics or bridging from prior knowledge.

axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny The whole of something contains its core elements. Jumping into the advanced side early really makes the structural and basic stuff clear because you see how it connects to everything else, and why it's necessary. It always feels more meaningful and makes me understand something better, even though I'm paradoxically more confused in the process. Glad you're bringing this style to your teaching

I was inspired to study this way by reading Kató Lomb’s "Polyglot: How I Learn Languages" https://www.tesl-ej.org/books/lomb-2nd-Ed.pdf
She started learning languages after 30 and became a professional translator and interpreter in 16 of them

axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny It's a great book about language learning but also about learning in general I think. It's been a while since I read it though.

Also, the world of polyglots in general is really interesting to explore, like Alexander Arguelles who knows 50+ languages https://www.youtube.com/@ProfASAr

and LaoShu505000 who gamified language learning, "leveling up" by walking around with a GoPro talking to random people in their native languages https://www.youtube.com/@laoshu505000

jonny, to random
@jonny@neuromatch.social avatar

NSF lists "Ferns and Allies" as an area of expertise and that is extremely badass that there are people studying the political ecology of ferns out there

axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny fern accomplice

jonny, to random
@jonny@neuromatch.social avatar
axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny I tried reading it a few years ago but mostly just marveled at the wall of opaque equations. apparently lots of pro mathematicians can't understand it either. Love the aesthetic of Mochizuki's website also

axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny I remember watching a video lecture where during the Q & A Misha Gromov was talking about how he liked how cryptic and hard to understand advanced math was, because he likes the pursuit of the mysterious, and a different mathematician was saying the inaccessibility was a big problem. It might be so complex of a concept that it's difficult to compress, but if it is meant to be a meaningful and useful contribution people have to be able to understand it for sure.

I want to try re-reading it though just to enjoy wandering around in the confusing dense landscape

[edit: I mean re-reading the original https://www.kurims.kyoto-u.ac.jp/~motizuki/Inter-universal%20Teichmuller%20Theory%20I.pdf ]

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

On a related note, I'm looking at schools in Germany because of the [mostly] free tuition and abundance of neuro programs. Does anyone with US citizenship have any experience studying abroad there? Wondering what it's actually like. Housing costs seem to be a hurdle for people but I've been managing in Seattle, and I'm good at learning languages. Quick searches are just bringing up pithy sites with stock photos of people holding pretzels

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

I'm statistically unlikely to be successful in academia as a neurodivergent trans person who grew up below middle class and has lived in poverty since, but I'll do everything I can to keep trying, keep sharing and cooperating.

I'm not in it to win, I'm doing this because I want to contribute to something that can help people and because I actually just love it

axoaxonic, to accessibility
@axoaxonic@synapse.cafe avatar

With sensory overresponsivity it's really hard to read PDFs, even with redshift (linux version of f.lux). Inverting the colors doesn't help because the white letters seem amplified by the back background and cause an afterimage effect that also makes it hard to read. Screenreaders are the best option but the free ones can't read equations or figures.

The other day I found that switching programs from atril to qpdfview allowed me to change the page color, and I can finally read whole docs on my screen with the letters remaining black and the page a gentle reddish orange color

An example page from "Noise-Induced Phenomena in Slow-Fast Systems: A Sample-Paths Approach" There are two figures of dynamical phase portraits of the same system, a spiking neuron model. The one on the left shows smooth lines either going close enough to be pulled into an attracting point z, or avoiding it. The figure on the right is the same portrait but with noisy random-walk dynamics, and the same paths that would avoid the point can wander into it. The caption reads: "Fig.6.8. Dynamics of the normal form (6.3.12) describing the dynamics, near a saddle-node bifurcation point, of a system displaying Type II excitability. (a) Without noise, trajectories starting above and to the left of the particular solution x hat of y tilde, epsilon, which delimits spiking and non-spiking behaviour, are attracted by the equilibrium point z star. Those starting below and to the right escape a neighbourhood of the bifurcation point. In the original system (6.3.11), they ultimately converge to z star, having made a large excursion which corresponds to a spike. (b) Noise can cause sample paths to leave the vicinity of z star, cross x hat of y tilde, epsiolon and thus produce a spike
A really complicated category theoretical diagram from the book "Algebraic Theories: A Categorical Introduction to General Algebra" with eleven objects and fifteen morphisms.

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

I was interested in public health as a field before the pandemic, but witnessing the response, especially the USA's, devolve into "you do you" and conspiracy misinformation made me reconsider.

On the other hand, I gained a lot of faith in mutual aid and ingenuity. A lot of people have stepped up to take care of people and distribute resources, and so much amazing research and development happened in the past few years: DIY 3D printable masks, air filters etc, low cost rapid PCR tests with paper microfluidics, people reverse engineering the vaccines and open-sourcing the sequences https://berthub.eu/articles/posts/reverse-engineering-source-code-of-the-biontech-pfizer-vaccine/

ttpphd, to Futurology
@ttpphd@mastodon.social avatar
axoaxonic,
@axoaxonic@synapse.cafe avatar

@ttpphd The link to the SfN poster in the article directs to a login screen, do you know if there's another url or doi for it? I want to know the details on early life stress + TBI because I've experienced both

axoaxonic, to trans
@axoaxonic@synapse.cafe avatar

I wonder if this glasses frame company intentionally made these translucent acetate frames look like the flag https://elklook.com/products/aloe-geometric-blue-pink-ace

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

This article in the new online neuroscience magazine The Transmitter on the interactions between nerve cells and cells is both amazing and scary https://www.thetransmitter.org/neurobiology/making-cancer-nervous/

elduvelle, (edited ) to random
@elduvelle@neuromatch.social avatar

Have you caught Covid in situations where you were wearing a N95 mask?

(Difficult to know for sure, please just answer to the best of your knowledge)

Feel free to boost away!

axoaxonic,
@axoaxonic@synapse.cafe avatar

@elduvelle Been wearing [K]N95 masks indoors always, only ordering food to go or eating at outdoor tables, and I haven't been sick at all in almost 4 years

axoaxonic,
@axoaxonic@synapse.cafe avatar

@elduvelle Hoping the same for you. I wish more public places would use air filters, especially restaurants

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

"Context-dependent computation by recurrent dynamics in prefrontal cortex", 2013

https://doi.org/10.1038/nature12742

axoaxonic,
@axoaxonic@synapse.cafe avatar

Wondering what could be learned by considering the PFC through the lens of nonautonomous dynamical systems theory, which are dynamical systems that explicitly depend on time

https://link.springer.com/book/10.1007/978-3-319-03080-7

https://bookstore.ams.org/surv-176

https://link.springer.com/book/10.1007/978-3-030-34292-0

MolemanPeter, to random
@MolemanPeter@neuromatch.social avatar

... no amount of investigation of another person’ s neural processes by means of fMRI will allow us to inspect his reasoning or what he is thinking.

Bennett, M. R.; Hacker, P. M. S.. Philosophical Foundations of Neuroscience (p. 107). Wiley. Kindle Edition.

axoaxonic,
@axoaxonic@synapse.cafe avatar

@NicoleCRust @beneuroscience @MolemanPeter @debivort @knutson_brain @PessoaBrain @DrYohanJohn The possibility of contextuality in physics being unrelated to what Juarrero means by context is why I followed up by linking the quote from Abramsky's work on the logic of (quantum) contextuality with the Brain Inspired interview of Alicia Juarrero.

She says context dependence is necessary for the emergence of causal and coherent structures in the brain and elsewhere, and links her ideas to physics but doesn't seem to be coming from quantum physics, where according to the Kochen-Specker theorem, context dependence is necessary for quantum mechanics https://en.m.wikipedia.org/wiki/Kochen%E2%80%93Specker_theorem

The Sulis paper argues that contextuality from QM should extend to classical physics via non-Kolmogorov probability:

"Perhaps, at times, the classical realm can also be discrete, non-Kolmogorov, and contextual. Contextuality at the classical level was recognized even by Kolmogorov [9] when he formulated the axioms of probability theory. He stated explicitly that all probability measures needed to be linked to specific contexts, and the ability to combine such measures across distinct contexts was not a given; rather, there are precise mathematical conditions that must be met in order for that to be possible [10]. Unfortunately, this seems to have been forgotten during a century of usage."

I learned about contextuality through a surface level exploration of quantum computing, which made me think about context dependence in general regarding brain/mind/cognition, but I don't know how useful ideas of contextuality in QM could be in informing classical dynamical systems models of contextuality in the brain. Sulis' attempt is interesting and pretty much the only one I could find

axoaxonic,
@axoaxonic@synapse.cafe avatar

@MolemanPeter @NicoleCRust @beneuroscience @debivort @knutson_brain @PessoaBrain @DrYohanJohn Yes it seems to be the same point, that context dependence is well founded and formalized on the quantum scale but is likely a feature of classical systems too

axoaxonic,
@axoaxonic@synapse.cafe avatar

@NicoleCRust @MolemanPeter @beneuroscience @debivort @knutson_brain @PessoaBrain @DrYohanJohn Thank you again for your feedback and encouragement. I have so much to write about, a "neuro ideas" txt file with over a thousand lines that could turn into many essays and projects, all I need now is to find balance and energy to get things together better.

I really don't see how it couldn't be a part of the classical realm, i just threw in "likely" on the off chance that it doesn't for some bizarre reason. I prefer to leave some room to be wrong but context exists in everyday experience, it's definitely real

axoaxonic, to random
@axoaxonic@synapse.cafe avatar

Me: money's really tight, it's hard to afford basic necessities in this really high cost of living city

Also me: maybe I'll buy myself an open source fNIRS system https://openfnirs.org/hardware/

axoaxonic,
@axoaxonic@synapse.cafe avatar

@teixi I learned about OpenBCI a while ago, they were one of the first. After looking into their products I found out that a DIY EEG system can be made with some electrodes and a relatively simple amplifier https://www.biosignals.org.uk/#build_your_own_bio-amplifier for way less money. The hard part would be getting the electrode placement and conduction right, then the rest is software related signal processing

axoaxonic,
@axoaxonic@synapse.cafe avatar

@jonny Hell yes I'm so ready for neurotech-flapper fusion fashion

  • All
  • Subscribed
  • Moderated
  • Favorites
  • JUstTest
  • cisconetworking
  • DreamBathrooms
  • InstantRegret
  • ethstaker
  • magazineikmin
  • Youngstown
  • thenastyranch
  • mdbf
  • slotface
  • rosin
  • modclub
  • kavyap
  • GTA5RPClips
  • provamag3
  • osvaldo12
  • khanakhh
  • cubers
  • Durango
  • everett
  • ngwrru68w68
  • tester
  • normalnudes
  • tacticalgear
  • anitta
  • megavids
  • Leos
  • lostlight
  • All magazines