Sequelize parallel example by Ciro Santilli 35 Updated +Created
Triple bond by Ciro Santilli 35 Updated +Created
Oxford Nanopore SQK-LSK109 Ligation Sequencing Kit by Ciro Santilli 35 Updated +Created
Repairs the ends of DNA, and also attaches an adapter protein to the DNA that makes them go through the pores of e.g. an Oxford Nanopore MinION.
Filtration with vacuum pump by Ciro Santilli 35 Updated +Created
The first thing we did was to filter the water samples with a membrane filter that is so fine that not even bacteria can pass through, but water can.
Therefore, after filtration, we would have all particles such as bacteria and larger dirt pieces in the filter.
From the 1 liter in each bottle, we only used 400 ml because previous experiments showed that filtering the remaining 600 ml is very time consuming because the membrane filter gets clogged up.
Therefore, the filtration step allows us to reduce those 400 ml volumes to more manageable Eppendorf tube volumes: Figure 1. "An Eppendorf tube". Reagents are expensive, and lab bench centrifuges are small!
Figure 1. . Source. They are small, convenient and disposable.
Figure 2.
Labelled Eppendorf tubes on a rack
. Source.
Since the filter is so fine, filtering by gravity alone would take forever, and so we used a vacuum pump to speed thing up!
Figure 3.
Peeling the vacuum pump filter protection peel before usage
. Source.
Figure 4.
Placing the vacuum pump filter
. Source.
Video 1.
Pouring the water sample into the vacuum tube and turning on the vacuum pump
. Source.
Microwave transmission for trading by Ciro Santilli 35 Updated +Created
Finance is a cancer of society. But I have to admit it, it's kind of cool.
arstechnica.com/information-technology/2016/11/private-microwave-networks-financial-hft/ The secret world of microwave networks (2016) Fantastic article.
Video 1.
Lasers Transmit Market Data and Trade Execution by Anova Technologies (2014)
Source. Their system is insane. It compensates in real time for wind movements of towers. They also have advanced building tracking for things that might cover line of sight.
Americas by Ciro Santilli 35 Updated +Created
Polymorphism (materials science) by Ciro Santilli 35 Updated +Created
TODO definition. Appears to be isomers
Example:
Extinction event by Ciro Santilli 35 Updated +Created
feathers-chat-react by Ciro Santilli 35 Updated +Created
Last updated 2018 as of 2021, but still just worked.
Also uses webpack which is fantastic.
Gotta run github.com/feathersjs/feathers-chat first: github.com/feathersjs-ecosystem/feathers-chat-react/issues/5, then it worked:
git clone https://github.com/feathersjs/feathers-chat
cd feathers-chat
git checkout fd729a47c57f9e6170cc1fa23cee0c84a004feb5
npm install
npm start
and on the other terminal:
git clone https://github.com/feathersjs-ecosystem/feathers-chat-react
cd feathers-chat-react
git checkout 36d56cbe80bbd5596f6a108b1de9db343b33dac3
npm install
npm start
then visit localhost:3000/ and you can create an account and login, tested on Ubuntu 20.10. Data is stored on persistently.
TODO how to merge those two repos into a single repo.
If you disable JavaScript on Chromium, it stops working completely. There is a section on how to solve that at: docs.feathersjs.com/cookbook/express/view-engine.html but it does not cover React specifically. Codaisseur/feathersjs-react-redux-ssr might be good to look into.
Climatology by Ciro Santilli 35 Updated +Created
Hund's rules by Ciro Santilli 35 Updated +Created
Allow us to determine with good approximation in a multi-electron atom which electron configuration have more energy. It is a bit like the Aufbau principle, but at a finer resolution.
Note that this is not trivial since there is no explicit solution to the Schrödinger equation for multi-electron atoms like there is for hydrogen.
For example, consider carbon which has electron configuration 1s2 2s2 2p2.
If we were to populate the 3 p-orbitals with two electrons with spins either up or down, which has more energy? E.g. of the following two:
m_L -1  0  1
    u_ u_ __
    u_ __ u_
    __ ud __
Chloe Wojin by Ciro Santilli 35 Updated +Created
Quantinuum H1 by Ciro Santilli 35 Updated +Created
History of polarization by Ciro Santilli 35 Updated +Created
Particularly cool is to see how Fresnel fully understood that light is somehow polarized, even though he did not know that it was made out of electromagnetism, clear indication of which only came with the Faraday effect in 1845.
spie.org/publications/fg05_p03_maluss_law:
At the beginning of the nineteenth century the only known way to generate polarized light was with a calcite crystal. In 1808, using a calcite crystal, Malus discovered that natural incident light became polarized when it was reflected by a glass surface, and that the light reflected close to an angle of incidence of 57° could be extinguished when viewed through the crystal. He then proposed that natural light consisted of the s- and p-polarizations, which were perpendicular to each other.
Sample collection by Ciro Santilli 35 Updated +Created
As you would expect, not much secret here, we just dumped a 1 liter glass bottle with a rope attached around the neck in a few different locations of the river, and pulled it out with the rope.
And, in the name of science, we even wore gloves to not contaminate the samples!
Figure 1.
Swans swimming in the river when during sample collection
. Source. Swam poo bacteria?
Figure 2.
Tying rope to bootle for river water sample collection
. Source.
Figure 3.
Dumping the bottle into the river to collect the water sample
. Source.
Figure 4.
Measuring the river water sample temperature with a mercury thermometer
. Source.
Figure 5.
Measuring the river water sample pH with a pH strip
. Source. The strip is compared with the color of a mobile app that gives the pH for a given strip color.
Figure 6.
Noting sample collection location on the water bottle
. Source.
Video 1.
Dumping the bottle into the river to collect the water sample
. Source. That was fun.
Conclusions by Ciro Santilli 35 Updated +Created
  • against all odds, the experiment worked and we got DNA out of the water, despite a bunch of non-bio newbs actively messing with random parts of the experiment
  • PuntSeq and Biomakespace people, and all those tho do scientific outreach, are awesome!
  • biology is hard
  • creating insanely media rich articles like this is also hard, but the following helped enormously:
    • Wikimedia Commons to store large media files out of Git
    • Asciidoctor extensions to easily include those media files. The lessons learnt in this article were then an important motivation for Ciro's OurBigBook Markup, to which this article was later migrated.
    • Nomacs to give Google Photos photos meaningful names and to edit people's faces out of pictures ;-)
  • some scientific Wikipedia pages may or may not have been edited with better pictures during the course of writing this article

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