All Biological life on earth is possible because of a discrete digital mechanism of preservation and replication.

The mechanism of signaling between the superorganism we know of as bacteria and its ongoing war against viruses is through a digital mechanism.
The source of innovation in biology is in this milieu of microbiome and viromes that are ubiquitous in every complex multicellular organism on earth. Humans are walking ecologies and cannot survive stripped of these ecologies.
We can picture this as a cloud of digital interaction that surrounds all of us.
The cells of multicellular creatures however do not communicate in the same way as bacteria. The DNA of mammals are sequestered from daily activity so as to prevent wear and tear.
The lifespan of mammals are related to their metabolism. The faster a mammal's heart beats the less time it has to live. A multicellular creature degrades like an analog system with each iteration error is accumulated.
Death is inevitable for multicellular creatures because our bodies have similar dynamics as non-linear systems found in chaos theory. The attractors that lead to our existence can lead to chaos and thus death.
Fortunately, evolution has gifted us with some of the digital mechanisms that bacteria have. The immune system is digital in nature. The same system that protects us from bacteria and viruses is also the same system that corrects for errors in our bodies.
At higher scales, evolution creates species that are more analog. But there is a constant tension between the drive to become analog and the need for preservation and replication.
All biological creatures balance these opposing forces by leveraging what is known as code duality. Every system has both an analog part that meets with the world and a digital part that preserves itself against the world.
In biology, the stuff that interprets the digital code of RNA are analog devices. More specifically, mechanical and electrical nano-machines.
The molecular machinery that converts energy into motion and energy into sensing are a consequence of biological innovation happening at bacteria and viral level.
But what meets the reality of physics and chemistry are analog machines. Living things require analog machinery to interpret and act within the world. The language of reality at higher scales is an analog language.
But to scale in size any organism requires digital mechanisms. Therefore this code duality must exist at many scales in a complex organism.
A common idea about the brain is that it is a dynamical system. A dynamical system is unlike a digital system like a computer. Brains have evolved to make sense of and move within their environments. They can only do so if they meet with the analog environment.
This idea however is an incomplete picture in the framing of code duality. The brain should have a digital component as predicted by this hypothesis of code duality. That digital component shares the same origin as our immune system.
Our immune system has the fascinating capability of recalling all the pathogens that have attempted to infect the body. What is the mechanism of this incredible memory system?
I've mentioned earlier that the human cognitive system consists of 3 'brains'. The nervous system, the endocrine system and the immune system. It's a very different triune brain that people conventionally think of.
The difference with biology and things that we design is that the latter has a designer that organizes things. So in a computer, the common currency is electrons. In biology, there is no common currency but a bureaucracy of transactions between different incompatible coins.
RNA has a surprisingly common currency (i.e. nucleotides). It is universal across earth originating living things. The power of digital systems come from a multitude of possible combinations. This only comes from standardization that leads to compatibility.
So evolution despite not having a designer with a mind, it has arrived at a strategy that acts like it has a mind!
@threadreaderapp unroll

More from Carlos E. Perez

Nice to discover Judea Pearl ask a fundamental question. What's an 'inductive bias'?


I crucial step on the road towards AGI is a richer vocabulary for reasoning about inductive biases.

explores the apparent impedance mismatch between inductive biases and causal reasoning. But isn't the logical thinking required for good causal reasoning also not an inductive bias?

An inductive bias is what C.S. Peirce would call a habit. It is a habit of reasoning. Logical thinking is like a Platonic solid of the many kinds of heuristics that are discovered.

The kind of black and white logic that is found in digital computers is critical to the emergence of today's information economy. This of course is not the same logic that drives the general intelligence that lives in the same economy.
Programming in abstractions is very different from a system that is capable of its own 'abstracting'. But what does abstracting mean? We only know of its inputs and outputs, but we fail to describe its inner workings.

I like this short video about living in space. This is because it makes you realize the gaps in your knowledge when you turn off something (i.e. gravity) that you have always assumed to be present.


Perhaps we can understand 'abstracting' better if we turn of many assumptions that we unconsciously carry around. Perhaps we need to get rid of the excess baggage that is confusing our thinking about abstraction.

Turning off gravity and living in space is a perfect analogy. We somehow have to turn off a cognitive process to understand the meaning of abstraction.

The first step to divorce ourselves from our habitual cognitive processes is to realize the pervasiveness of 'noun-thinking' .

More from Science

1. I find it remarkable that some medics and scientists aren’t raising their voices to make children as safe as possible. The comment about children being less infectious than adults is unsupported by evidence.


2. @c_drosten has talked about this extensively and @dgurdasani1 and @DrZoeHyde have repeatedly pointed out flaws in the studies which have purported to show this. Now for the other assertion: children are very rarely ill with COVID19.

3. Children seem to suffer less with acute illness, but we have no idea of the long-term impact of infection. We do know #LongCovid affects some children. @LongCovidKids now speaks for 1,500 children struggling with a wide range of long-term symptoms.

4. 1,500 children whose parents found a small campaign group. How many more are out there? We don’t know. ONS data suggests there might be many, but the issue hasn’t been studied sufficiently well or long enough for a definitive answer.

5. Some people have talked about #COVID19 being this generation’s Polio. According to US CDC, Polio resulted in inapparent infection in more than 99% of people. Severe disease occurred in a tiny fraction of those infected. Source:
All modern research questions frame your mindset and self-frame research paradigm. Broad thinking: how little of everything can a citizen survive on; how cheap can your upkeep be? /1


When an American patient lands in an Austrian hospital for a back problem, a doctor tells him to perform a set of exercises.

- How many?
- Do you have anything else to do? /2

This interchange illustrates two mindsets colliding at bedside. How little can I get away with vs there is no limit to effort when it comes to your wellness. /3

When you were robbed of movement, somebody started selling you exercise. To understand that digging a ditch, to build a house, or to carry a child around, or waking to your grandparents for an hour is not the same as jogging on a treadmill... will reveal what research hides.
/4

When I talk about doing a purposeful activity outdoors, I look at complexity of movement, purpose, meaning, sun, and air, even an opportunity to meet a neighbor... that is now reduced to a calcium pill, vitamin D, an antidepressant, an osteoporosis shot, and an oxygen tank. /5

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