#me and my lovely protein
talking about small joy, amber finally added sphingomyelin to their forcefield, so now we
a) don’t have to parametrise it ourselves
b) can simulate a rough approximation of cell membranes easily
yay!
the cool thing/problem with increasing high speed computing capacities is that when I did this presentation in 2017:
I said “and then the computer does this cycle 50 milion times“, which normally corresponds to 100ns of a simulation (because the timestep of one cycle is 0.002ps/2fs).
But these days, 100ns is basically considered the initial equilibration, which is then often discarded, and only the end of the simulation is evaluated.
… which means I need to come up with a different, bigger, number than 50 million for when i’m doing presentation for experimentalist audience.
*grump, grump grump*
andom fb ad: build your own collagen!
my brain, which has been trying to figure out how to build different systems in a computer simulations non-stop this year so far:
?????
The mental process required for me to write this part of the script:
the mental process my brain is capable of right now:
i’m pretty sure it’s the Let’s Go Home And Hope It Will Be Better Tomorrow part of the workday
i love the boundary where academic english is basically common latin, both etymologically, and for how much i understand it:
you know what, this is actually a great Graphical Abstract of an article on gene silencing via RNA interference:
yeah, yeah, like 40% of my job is to make pretty pictures that in the final version look less like modern abstract art and more like the thing they’re actually supposed to be showing:
the thing where some scientific journals just … don’t get printed in colour and just tell their readers to look up the figures online:
i know we’re blaming the french for pig/pork/porcine and cow/beef/bovine, but who should i be dramatically mad at about mouse/murine?
hey, if you google “mrna vaccines scientific paper“ and get as the result #6, on the first page of google search, this paper:
don’t read it. Don’t even click it.
I mean, citing two preprints and a conference abstract from 2009 aside, citing two Letters with one graph each as “it’s clear that“ aside, this:
there’s no such thing as “ highly modified polyethylene glycol (PEG) lipid backbone “ in the nanoparticle, and the statement that the mRNA is “complexed with“ the PEG is highly questionable - and a result of context changing in the game of telephone that is this people citing Hou et al, who in turn cite a different paper on this.
Also the sentence “ A synthetic cationic lipid is added as well, since it has been shown experimentally to work as an adjuvant” kinda implies there’s a bit of the cationic lipid there, as an additive, for a certain purpose, while in fact it makes up about 50% of the LNP lipid content. Also, only one specific cationic lipid has been showed to work as adjuvans, from the cca 10 Hou et al talk about.
Moreover, given the article focuses mostly on SARS-Cov vaccines, it should be talking about ionizable lipids, not cationic ones, since the ioniziblity is the main feature why it’s even used in the vaccines.
Given the authors so utterly failed to even read properly the one article they’re citing on nanoparticle composition - Hou et al is from 2021 and clearly states that the covid vaccines contain ionizable lipids, in the section Ionizable Lipids, that follows the Cation Lipids section, I’m quite sure they paid similar attention to the rest of the references they’re citing, and therefore their conclusions are a complete bullshit.
Like, gods, i was going to give them the chance to persuade me that they do have some evidence to support their claim that mRNA vaccines might have understudied long-term negative effects, but instead, they showed that the authors don’t even understand the composition of a mRNA vaccine nanoparticle.
Great job publishing this, Journal of Food and Toxicology, great job.
so, in case you’re building a PSM sphingomyelin molecule in tleap, the correct guess is sequence {PA SPM SA}, which, when saved, will give you the molecule, in contrast to sequence {SA SPM PA}, which will give you bond, angle and dihedral errors.
Good luck guessing!
sentences that make you appreciate python:
Writing hard
But having written good
But at what cost
Writing
fuck
