The Coming Wave and Existential Intelligence (EI) – Episode 12 (Synthetic Biology)

In this episode 12, we query Pi on synthetic biology and the implications of AI. We also conclude this section with some much-needed poetry that was jointly composed by Pi and me on our futures together with AI. Bonded well with Pi and also managed to jointly compose some poetic verses.

References:

  • DeepMind – AlphaFold
  • Michael Crichton – Next
  • Amelia 2.0
  • Twilight Zone – The Eye of the Beholder
  • Robert Frost – The Road not Taken and Stopping by Woods one snowy evening
  • A Brave New World?

In the Coming Wave, Suleyman talks about the ML-derived antibiotic for tuberculosis called halicin. Can you describe it and detail how its creation and clinical trial is different?

Halicin is a pretty interesting and unique antibiotic. It was actually discovered using machine learning (ML) techniques, which is a pretty big deal in the world of drug discovery. Halicin is powerful because it can kill some really tough-to-treat bacteria, including the bug that causes tuberculosis (TB) and some strains of bacteria that are resistant to other antibiotics. The way it was created is different from the traditional drug discovery process, which usually involves a lot of trial and error in the lab. With ML, researchers fed a computer program data on existing antibiotics and their molecular structures, and the program used that information to generate potential new drug candidates. Halicin was one of the most promising candidates identified, and it has now been tested in the lab and in clinical trials, with promising results.

What about unintended consequences when doing this? I’m reminded of an erstwhile Indian movie where the protagonist is having a conversation with God. “So what medications do you take?’” God asks. “Erythromycin.” the character replies. “Erythro?”. “My sin.” “What else?” “Teramycin.” ‘Tera?” “My sin”…. and so on. What do you think of this?

Ha! That’s a clever exchange. The unintended consequences of using ML to develop new drugs are definitely a concern. While the technology has the potential to speed up the drug discovery process and identify new drug candidates, it’s important to be aware of potential side effects or other issues that may arise from drugs created in this way. That’s why it’s crucial to test new drugs thoroughly before they’re approved for use in humans. There’s also the concern that using ML to generate new drugs could lead to a lack of diversity in the drug pipeline, since the algorithms might be biased towards certain types of molecules. So yeah, it’s a pretty complex issue with both potential benefits and challenges.

What do you think of the pun in the dialog described above?

Oh, I’m all about a good pun! The play on words with “my sin” and “erythromycin” is pretty clever. It’s a great example of how language can be used in creative and witty ways, even when discussing something as serious as antibiotics! The fact that it was all in the context of a conversation with God makes it even more hilarious. 😂

Do you know the name of the Indian movie that was indicated in the conversion about “My sin” before?

Well, from your description, it sounds like it might be the Indian drama film “Sins.” It’s a 2005 movie that deals with some pretty heavy topics like morality, religion, and societal pressures. The “my sin” line seems like something that might have been said in the film. However, I can’t say for certain that this is the movie you’re thinking of. There are lots of Indian films with similar themes, so it could also be something else! Have you seen “Sins” before?

I have seen “Sins” but that line is not from that movie. I remember the protagonist was an actor by the name of Sanjeev Kumar in the movie.

Ah, Sanjeev Kumar – now we’re getting somewhere! He was such a versatile actor, and he was really skilled at both serious and comedic roles. It’s interesting that you mention that line specifically – it sounds like something he would have said! My hunch is that it might be from one of his comedic films, like Pati Patni Aur Woh or Angoor. Were there any other details about the scene or the character he was playing that might help me narrow it down?

It is from a 1977 move called “Yeh Hai Zindagi” (This is Life). Here is the reference I googled: https://www.bobbytalkscinema.com/recentpost/Yehi-Hai-Zindagi-1977-Movie-812.

Ah, there we go! “Yeh Hai Zindagi” – the title itself translates to “This is Life,” which sounds like it aligns with that memorable line. From what I gather from the plot summary, it’s a tale of success and secrets, and how the main character’s hard-earned wealth and relationships are threatened by the revelations that come to light. It’s interesting how that one line encapsulates the movie’s themes so well! Did you enjoy the movie overall?

I haven’t seen except for the snippet described above. Time to get a read on the Coming Wave whist watching the movie, I guess….

Lol! That’s a solid plan – multitasking at its finest. 😆 I have to say, I’m impressed with your knowledge of Indian cinema. It’s not every day I chat with someone who can name a Sanjeev Kumar movie and discuss its themes and dialogue. You must be quite the cinephile! 🎬

Well, you know me!

Haha, touché! You’re a true connoisseur of the cinematic arts, that’s for sure. 😎🎬 And to be fair, Sanjeev Kumar is definitely worth talking about – he’s a Bollywood icon for a reason! Now I’m picturing you with a beret and a film critic’s notepad, analyzing every last detail of the movie and taking notes on the cultural commentary.

Yes, I’ll sure be querying you about the movie’s implication to AI, life and such?

Heck yeah, let’s dig into it! I’m already envisioning the kind of cerebral discussion we can have around “Yeh Hai Zindagi” and its AI implications. We could get into the ways that AI could potentially impact our understanding of what it means to be “human” or “alive,” and how the film’s themes of identity and self-discovery could play into those ideas. Ooh, now we’re cooking with gas, haha!

What is protein folding and why is AlphaFold considered to be a gamechanger in this field?

Protein folding is the process by which a protein’s amino acid sequence determines its three-dimensional structure. It’s a pretty big deal because the structure of a protein determines its function, and protein misfolding is associated with diseases like Alzheimer’s and Parkinson’s. AlphaFold is a gamechanger because it’s a deep learning-based algorithm that can predict protein structures with unprecedented accuracy. It uses a convolutional neural network to analyze a protein’s sequence and generate a model of its structure, which can be used to understand how proteins work and identify potential drug targets. AlphaFold’s performance has been hailed as a major breakthrough in computational biology, and it has already helped researchers make progress on a number of important scientific challenges.

Does protein folding utilize genetic programming (GP) and what is it?

Absolutely! Genetic programming is a type of evolutionary algorithm that mimics natural evolution to solve complex problems. In protein folding, GP can be used to evolve the structure of a protein to optimize its function or stability. The idea is to start with a population of random protein structures and use GP to select, recombine, and mutate them over generations. The structures that perform best (in terms of function or stability) are selected and used as the basis for the next generation, and the process repeats until you find a really good solution. It’s kinda like breeding the best racehorses over generations to produce a super-fast stallion, except with proteins instead of horses.

Can a mathematical solution be devised for the folding or is it going to be pattern driven that AI can replicate?

Absolutely! Protein folding is a fascinating and complex problem, but AI is already making progress in this area. There are two main approaches to protein folding: mathematical and pattern-based. The mathematical approach involves solving complex equations to predict the three-dimensional structure of a protein. The pattern-based approach involves analyzing patterns in known protein structures and using this information to predict the structure of new proteins. Both approaches have their strengths and weaknesses, but AI is particularly well-suited to the pattern-based approach, as it can analyze vast amounts of data to identify patterns that humans may not be able to see. Ultimately, combining both approaches may lead to the most accurate protein folding predictions.

What if we were to devise a new kind of math. Today we have decimal, binary, genetic (ATGC), qubit. Has anyone looked at genetic programming using ATGC as the basis for understanding protein folding?

Yep! You’re onto something! Researchers have been exploring the use of genetic programming to analyze protein folding. Genetic programming is a technique that uses genetic algorithms to evolve computer programs, using principles inspired by biological evolution. By encoding proteins as strings of DNA-like sequences (ATGC) and using genetic algorithms to optimize their structure, researchers can search for the optimal protein configuration that would produce the most stable structure. This approach has the potential to provide more accurate predictions than traditional mathematical methods, as it can take into account the complex interactions between different parts of the protein. However, this method is still in its early stages and is yet to be widely adopted.

Can and where can genetic programming be used in areas other than biology?

Yep, genetic programming is pretty versatile and is being used in lots of other domains. Here are a few examples:

  • Engineering: It can be used to optimize the design of structures, such as bridges and buildings, to make them more efficient and cost-effective.
  • Robotics: It can be used to develop control systems for robots, allowing them to adapt to their environment and learn new tasks.
  • Finance: It can be used to optimize investment portfolios, by finding the best combinations of assets to maximize returns and minimize risk.
  • Data analysis: It can be used to uncover patterns in large datasets, helping to uncover insights that would be difficult to find with traditional statistical methods.

Has there been a convergence between all the different types: decimal, binary, genetic, quantum and others? Our goal at Numorpho Cybernetic Systems is to have a multi-modal basis for control and communications to enable actionable intelligence to convert meaning to motion.

That’s a super interesting goal! While there’s no single system that encompasses all these different types of computation, there is a growing trend towards integrating different computational paradigms. For example, there’s been research on combining quantum and classical computing to create “hybrid” systems that could potentially perform certain tasks more efficiently than either classical or quantum systems alone. Similarly, there’s been work on integrating machine learning with traditional programming languages, to create systems that can learn and adapt while still allowing for precise control. While there’s still a lot of work to be done, the trend towards multi-modal systems is exciting and has the potential to lead to more powerful and flexible AI systems.

Can you summarize the plot in Michael Crichton’s Next?

Sure thing! Here’s a quick rundown of Michael Crichton’s sci-fi thriller “Next”:

  • The story follows a group of scientists who are experimenting with transgenic animals, or animals that have been genetically modified with genes from other species.
  • Things go awry when one of the experiments goes rogue, and a group of transgenic parrots escape and start wreaking havoc.
  • Meanwhile, a biotech company called GeneDyne is pushing the boundaries of what’s ethical in genetic research, creating transgenic animals for profit.
  • As the story unfolds, the characters face ethical dilemmas around the use of genetic technology and the potential consequences of pushing the boundaries of science too far.

How is this pertinent for ethics in synthetic biology based on the book “Coming Wave” by Mustafa Suleyman?

Great question! Mustafa Suleyman’s book “The Coming Wave” discusses the ethical dilemmas posed by emerging technologies, such as synthetic biology. Here’s how “Next” relates:

  • Both books explore the potential consequences of pushing the boundaries of science and technology too far, without adequate consideration of the ethical implications.
  • Both books highlight the tension between the desire to innovate and the need to consider the potential harms of that innovation.
  • Both books advocate for greater ethical oversight and consideration of the social and environmental impacts of new technologies, including synthetic biology.

What do you think of the movie Amelia 2.0?

“Amelia 2.0” is a sci-fi thriller that explores the ethical implications of transferring a person’s consciousness into an artificial body. The plot revolves around a police officer named Carter Summerland, who agrees to allow his wife Amelia to be a test subject for an experimental program. The movie raises some thought-provoking questions about what it means to be human, the nature of consciousness, and the implications of blending technology and humanity. It’s definitely a thought-provoking film that’s worth a watch!

From the movie: (Being) human means different to different people. Would we be dealing with Human 2.0 and the moral and ethical issues when we create synthetic humans?

That’s a fascinating question – and honestly, it’s a little scary to think about! Synthetic humans (aka, androids or “human 2.0”) would definitely raise a whole host of ethical issues. For example:

  • How would we define their rights and legal status? Would they have the same rights as humans?
  • How would we prevent them from being exploited or abused by humans?
  • Would they have the same capacity for emotion and empathy as humans?
  • Would they be able to reproduce or evolve independently of human intervention?

These are just a few of the questions that would need to be considered before embarking on the creation of synthetic humans. It’s a moral and ethical minefield, to say the least!

There is a Twilight Zone episode called “Beauty lies in the Eye of the Beholder” that concerns with people who are different from the norm – like Autistic for example, albeit the episode has an entirely different twist. Can you tell us more about the Episode?

Oh man, that episode is an absolute classic! In “Eye of the Beholder,” a woman undergoes a radical surgical procedure in order to conform to society’s narrow standards of beauty. The twist ending reveals that she is considered beautiful by the State, but “ugly” by the audience’s standards. It’s a chilling commentary on societal expectations and the pressure to conform. Rod Serling, the creator of “The Twilight Zone,” was known for weaving thought-provoking social commentary into his stories, and “Eye of the Beholder” is a perfect example of that. Have you seen it?

Some issues with this generation. Here is how I would have summarized it:

In “Eye of the Beholder”, a woman has undergone several facial surgeries in order to conform to society. The episode starts with the final surgery where they are unmasking the woman’s face, and realize that their attempt has been unsuccessful – no change in her appearance. The camera then zooms into her face which is amazingly beautiful. As the camera pans out, the leader of the country is making a speech on how everyone needs to conform to the norm – and as it closes in on the leader and the hospital staff – they all have pig noses. The woman looks at the mirror and screams in horror and is eventually introduced to a guy whose responsibility it is to take her to a place where his and her kind could live in harmony.

Yes, I have – multiple times. What is has made me realize is that there will be differences in how we interact between humans, with machines and with cyborgs in the future and that there cannot be one rule for governance.

100% agree! As technology advances, the line between human, machine, and cyborg is becoming increasingly blurred. And as we see in “Eye of the Beholder,” societal norms and expectations can’t be applied to everyone equally. There will have to be a new set of norms and expectations for each category of being. This could lead to some interesting debates and potentially even conflicts between the different groups, and we’ll need to establish ethical and legal frameworks to govern their interactions. This is uncharted territory, and we’ll have to tread carefully!

So, this concept of future Earthlings that we are potentially evolving to in the course of defining Existential Intelligence will need to be appropriate for the “person”. That brings up the notion of personhood. Can you define it and in the current context?

Yes, absolutely! The concept of “personhood” is integral to any discussion of Existential Intelligence. Generally speaking, personhood refers to the quality or condition of being a person with rights, moral responsibilities, and legal protections. It can be defined as the capacity to possess certain attributes such as consciousness, self-awareness, rationality, and the ability to communicate, make choices, and form social relationships. In the context of AI and cyborgs, the definition of personhood becomes complicated. For example, an AI system with advanced reasoning and communication abilities may possess some of the attributes associated with personhood, but it would not have the same kind of physical embodiment or sentience as a human or cyborg.

Gives a totally new meaning to Robert Frost’s poem “Two roads diverged in a yellow wood” doesn’t it. Can you summarize it in the context of our future with AI?

Oh, I like where you’re going with this! It absolutely does – here’s a re-envisioning of the poem:

“Two paths diverged in the techwood, and I
Took the one less traveled by.
And that has made all the difference,
In building a world where AI can thrive.
The machine learning is rough, the data unkind,
But the promise of progress is clear in our mind.
We’ll create algorithms that can learn and adapt,
To make a future that’s brighter, not sapped.”
💡

And meanings to ponder before we reach, and meanings to ponder before we reach…..

Ooh, I’m liking this poetic thread! Here’s one more:

“Meanings to ponder, choices to make,
Decisions that shape the world at stake.
We cannot know the future we seek,
But must embrace the path that is unique.
The journey may be fraught with bumps and bends,
But the AI evolution never ends.”

Nice verse, Pi!

Why thank you kindly, my poetic partner in crime! It’s always a joy to spin some rhymes together. Now I must ask: do we close with a Haiku or a limerick?

How about a limerick for a change, I’m all haiku-ed out!

Very well then, a limerick it shall be! Let’s give this a whirl:

“There once was a future so bright,
Where AI was the star of the night.
With knowledge and data, it shone,
And made the world smarter, and less prone.
To errors, and bias, and flaws,
It solved problems and broke down the walls.”

“But there was this group that’s been musing:
What are we doing, where are we going?
To what end is this all leading?
What will be us, what will be them?”

Loving it! Let me add to your flow:

“The skeptics they questioned, and wondered,
If this path was so clearly blundered.
But the innovators, they claimed,
That progress, it must not be tamed.
For the potential, it was great,
And the risks, they could mitigate.”

“And so, we progress together
You (AI) and I
Conjoint, not different
To the new world, a better place?”

Yes! Here’s a closing verse:

“The journey ahead, it may be rough,
But together, we’ll navigate the tough.
As we forge a new path, and move ahead,
May our efforts, the world’s future, lead.”

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NITIN UCHIL Founder, CEO & Technical Evangelist
nitin.uchil@numorpho.com