In my voyages in maths with my daughter series - we've been discussing geometry (seed question - can you prove the (n-2)*180 for the interior angles of an n-sided polygon) and this threw up some interesting things.
First off, a discussion of 180 leading to radians + Pi. Thought experiment - if there was a planet of intelligent otters and they used a different number/angle system, they would no doubt not divide the circle into 360, but the concept of a circle, half circle, would be the same
(you might guess my daughter is a fan of otters. We decided they would likely work in base 7 I think due to their tails being the extra "unsymmetric" digit. Don't ask for more details).
We then got into a heated debate of the best proof for (n-2)*180, which I think is best done as n*(half circles) due to each extension having interior + exterior is one line - (1 full circle) for turning around when you go around the polygon.
My daughter prefered - choose a point, sub-divide polygon into n-2 triangles (can't do the last two because they are lines on top of each other to the two neighbourghing points), each triangle interior angles are 180.
My argument - for her proof you need to prove interior angles of a triangle is 180; she was convinced it was the "same thing" as my line is 180... this got us to Euclid's axioms.
We had fun with triangles on a sphere (yes, definitely, one can have a triangle with 3 right angles on a sphere etc); I held off from going to space-time being hyperbolic as I am not sure I could go there.
...but... this lead me to think whether there are other "intuitive" non-eucledian geometries that relax / change the other axioms (beyond the parallel lines one) - is it meaningful to do this - and is there any of these higher geometries useful.
I also get the spherical geometry is (duh!) on a sphere; I think a torus geometry is like a plane where left meets right and up meets down (right?) - is this ... euclidan? And if this is the case, what is the geometry of a two-holed torus?
Thoughts, muses, or other things really appreciated. I no doubt will have to weave in the intelligent otters (living a torus or something like that!) when discussing with my daughter.
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A brief explainer thread on B.1.1.529, the latest SARS-CoV-2 variant which is throwing up concern after an excellent live streamed press conference from South Africa. TL;DR this variant both has many mutations but most importantly looks like it outcompeting delta in South Africa
Context: I am a expert in human genetics and computational biology; I know experts in viral genomics, infectious epidemiology, clinical trials and immunology. I have some conflicts of interest: I am longstanding consultant to Oxford Nanopore and was on the Ox/Az clincal trail
Background. The SARS-CoV-2 virus is made from RNA (its instruction set) wrapped in proteins. The RNA+proteins of the virus hijack our cells to make more of its RNA and proteins into a virus. This hijacking (infection) causes a response from our immune system.
Thoughts on COVID in Europe from a crisp morning in London; we understand this virus, its likely endpoint, but it is hard road to follow. Central/Northern Europe start a 4th nasty wave; South West Europe has vaccinated well, (currently) less of a wave; the UK remains a conundrum
Context: I am an expert in human genetics and computational biology. I know experts in infection biology, viral genomics, clinical trials. I have COIs - I am longstanding consultant to Oxford Nanopore (makes sequencing machines) and was on the Ox/Az trial.
Reminder: Assumming there is no major new SARS-CoV-2 variant, we have the measure of this virus and its horrible disease - it transmits rapidly between humans, causing a nasty, often lethal disease (COVID) in some (older, more overweight) people who are immunlogically naive.
Ethnicity, Ancestry Groups and Biology in humans; some thoughts triggered by @molly_przew threads and the recent Oxford paper on the likely mechanism of action for the COVID risk locus on chr3. TL;DR This is area is complex; racism +discrimination are real; biology is universal.
It's useful to remind yourself what some of these terms mean (or might mean). Ethnicity (also "Race" in US context) is usually defined via self identification - a person is given a number of options to tick, sometimes with hierarchy, and they tick one (or more) option.
Great to see this pre-print on rare-meets-common TYR/ human pigmentation genetics by Vincent Michaud (Bordeaux) and senior author Panagiotis (Panos) Sergouniotis (Manchester) - I am a co-author medrxiv.org/content/10.110…
One key thing is that it is a promoter variant which is associated with albinism and related eye phenotypes, not in fact as non-synonymous variant in LD (one needs to capture rare recombinations, and an example of needing deep phenotype positive ascertainmemt - case collections).
(The Promoter variant is the first SNP TYR c.-301C>T [rs4547091] - and it's LD NS proxy is c.575C>A (p.Ser192Tyr) [rs1042602] - by default, any program/analysis would have probably assigned function to the protein coding change)
A COVID viewpoint from increasingly cold London. TL;DR the world vaccination situation is improving, but there is a long way to go; Europe is entering a winter exit to endemicity surge; the UK is a leading country in this exit surge with internal angst, strife and screw ups
Context: I am an expert in human genetics and computational biology. I know experts in infectious disease epidemiology, viral genomics, immunology and clinical trials. I have COIs - I am consultant and shareholder of Oxford Nanopore and I was on the Ox/AZ trial.
Reminder: SARS-CoV-2 is now the fifth endemic coronavirus that infects humans, and by far the nastiest. For a subset (older, overweight, male) of people is causes a horrible disease, COVID, in which some people die, and many people have horrible time in hospital or longCOVID
COVID thoughts on an autumnal London day. TL;DR the developed vaccinated world has some tricky navigation, but is probably entering some endemic-ish state; the developed unvaccinated world is a bit mad and needs help; the rest of the world needs vaccines.
Context: I am an expert in genetics/genomics and computational biology. I know experts in infectious epidemiology, viral genomics, clinical trials and immunology. I have COIs; I am long established consultant to Oxford Nanopore and I was on the Ox/Az clinical trial.
Reminder: SARS-CoV-2 is an airborne virus. The latest variant, now globally dominant, transmits rapidly and all variants causes a horrible disease in subset of people - older, more overweight, male. Left unchecked many people would die and healthcare systems overwhelmed.