Tuesday, July 25, 2006

10 Dimensions

Imagine 10 dimensions? Quite far-fetched... but after a few guided thoughts, it works out fine, actually.

Check it out here: http://www.tenthdimension.com/flash2.php

Thursday, February 16, 2006

The Landscape

I've been so wanting to post this for ages after finally finishing the book, but for some reason, I've never gotten down to doing it. Nonetheless, I've finally managed to pick out the time to do it, one month after my previous post.

Here, I wish to talk about the Cosmic Landscape - a Landscape of possibilities of what our universe could be like. Cosmologists have postulated such a Landscape, pioneered by leading cosmologist Leonard Susskind.

Imagine that our universe resides in an even greater world - one that has many pocket universes inside it, with many hills and valleys representing different states in the laws of physics and different values for every constant known. As time progresses, the pocket universes 'roll' around the landscape, with the constants and laws of physics changing each change in position of the universe.

Specific conditions have to exist just to allow for life like ours to exist. They must be really fine-tuned to ensure that specific events, such as protons and neutrons binding through the strong nuclear force, and electrons and protons having opposite charges, occur to describe the kind of chemistry that we need to have life as it is now. Any minute fine-tuning that goes haywire, and chemistry as we know it could well blow out of hand - protons and electrons could start having equal charges; the strong nuclear force could become too weak to hold protons and neutrons together, and atoms would just blow apart. Or then again, the gravitational constant could be come too large, and gravity would start causing the universe to crunch not long after the Big Bang. So it is important to know how the laws of physics are so fine-tuned to allow for life to occur.

But as we go deeper and deeper in broadening our knowledge about space, will we eventually reach the line that, perhaps, a designer has drawn for us to limit our knowledge? Do we have an intelligent designer that has eluded our minds for the entire history of humanity? Research in this field raises such questions as being real and pertinent to understanding the universe and its structure.

Sunday, November 13, 2005


MIT has created BioBricks, analogous to Lego Bricks and standard electronic circuit components, from which complex biochemical pathways can be created using more fundamental known biochemical pathways.

Now, don't get this wrong, but it is in no way something very new. MIT has been hosting the BioBricks competition for two years now, and BioBricks have been in development for two years as well. BioBricks are essentially a catalog of standard biochemical parts that can be assembled in a variety of ways to create functional chemical/biological/electronic/physical (almost everything) pathways for synthesizing products. Best of all, by isolating the pathways required and providing the raw materials for synthesis of the product needed, a researcher can achieve more efficient production of that product as opposed to providing micro-organisms (such as bacteria) with those raw materials, as micro-organisms tend to have side-reactions going on inside their cells that use up the raw materials but do not produce the desired product.

Additionally, by cataloging these standard pathways, one would be able to, to quote EE Times, "assemble working systems at the abstract level described in the catalog and pass the design to then another group of biochemists for synthesis in a biological manufacturing system." What it means is that one can work like an electronics engineer - design a circuit on a computer and pass it onto the production facilities to produce the desired circuit.

Now, what are the possibilities capable with BioBricks? From my standpoint, I believe we will be able to achieve advancements in two fields - disease treatment and energy conservation (cheers to you, Mridul!)

In disease treatment, I believe that we will be able to synthesize weakened versions of disease-causing organisms, perhaps by altering the genes that produce their proteins so that a particular protein is missing from their body that would render them harmless, while still preserving the overall structure of that organism. In this way, we could produce a - yes, you've got it - vaccine against many different types of disease-causing micro-organisms.

In energy conservation, imagine if we could synthesize, using the enzymes synthesized via the BioBricks pathways, to impregnate the light-energy-capturing portion of solar panels in a more concentrated and densely-packed manner. This would help reach greater efficiency in energy capture, and, since the impregnation is catalyzed by reusable enzymes, it would also help to reach greater cost-effectiveness. Extending beyond that, it would help make solar energy more affordable to commoners, because the use of enzymes in this synthetic process would help achieve economies of scale, and hence help proliferate the use of solar energy in the process too.

I guess Samsung would love to invest in this. After all, their most recent ads are telling us, "After all, it isn't that hard to imagine."


Edit: Mridul pointed out that "After all, it isn't that hard to imagine." comes from Samsung ads, not Panasonic ads. I've edited it above. Cheers to you!

Tuesday, November 01, 2005

Virus Transports DNA

So it's real, viruses can be designed to inject cells with DNA. Lentiviruses can transport DNA into cells with more consistency and efficiency than traditional methods can, which will improve the rate of creation of transgenic animals. Now, that is something I didn't know. Seems like I'm outdated for now.

However, the viruses infect every single cell they meet. What I envision is a virus that will home in on cancer cells, perhaps with a single identifiable cell surface protein that will serve as a marker for the virus. The virus will deliver the desired gene only into the cells with that protein marker, following which, it will insert the gene into those cells. If we can use siRNA inside the virus, then we can theoretically cause cancer cells to die.

Click on the title of this post for more information.

Tuesday, October 25, 2005

A Virus That Can Discriminate

That is the central theme of Fredrick Forsyth's book, and Hallmark Channel's latest movie, "Icon".

The destruction of the Russian nation by means of a simple strand of molecules. A virus. A virus that can discriminate. A virus that can discriminate between races, religion and region. A virus that can kill selectively, wantonly, and massively. A deadly virus. A virus from hell.

But is it practically feasible? I believe not. But I can imagine an even more deadly scenario. A deadly scenario that would actually be beneficial to us, humans.

The virus in question would have to be programmable, in order for it to descriminate between different groups of people. A virus, being a physiological pathogen, would be able to discriminate between physiological differences in people. But would it be able to discriminate between the arbitrary, non-physiological differences between different groups of people?Very evidently, this wouldn't be possible. A simple example would be to use a hypothetical virus that should be able to infect all Arabs (no offense here, please!). This sounds plausible enough - many individuals with Arabic blood would probably have a similar weakness to its virus. But let's say the virus was re-programmed to target all Muslims (again, no offense here!). Would this be practically feasible? Evidently not. Religion, being an arbitrarily defined trait of a human, which also happens not to have a physiological-based discriminator, would be a poor candidate as a victim for the virus' lethal capabilities. In other words, there wouldn't be a single cell-surface protein or receptor that would be present in all Muslims that would be their Achilles heel. That would render the virus useless wrt, (please, no offense here!), infecting all Muslims. Which, then again, would be a thankful thing. I wouldn't want to see my Muslim friends go off to see Allah before I see the external part of our universe, if you get what I mean.

But think again. The virus' discriminating capabilities would need to have a physiological basis. Yes, it would have to be rooted in what we know about cells, their differences, and their roles in the human body. Now, wouldn't that be fascinating? Imagine what we could do with engineered viruses - we could cure cancer.

How could this be possible?

Simple. Let's build on recent developments.

MIT's professors have identified the use of siRNA molecules in splicing up the oncogenes that cancer cells express during their lifetime of growth. ('Lifetime' isn't exactly the best word to use, because 'cancer' essentially implies 'immortal' - they do not undergo apoptosis, or programmed cell death, like the rest of our body's cells.) siRNA molecules can do that to any gene - the only restriction is that the siRNA molecules must originate from the gene that has to be spliced up. Splicing, or cutting, up the gene will render it useless. In the case of oncogenes, they're absolutely essential to the growth and development of cancer. So splicing up the oncogenes should, theoretically, help halt the growth of cancer.

But then again, so what?

Well, let's take a look at the structure of a virus. (My favorite is the one that many people see - the bacteriophage.) A virus generally has a strand of nucleic acid, containing their genetic data for its own replication in a host's cell, and a protein coat, to protect the nucleic acid from degeneration. The part of the virus that is in interest is the nucleic acid.

There are two types of nucleic acids, deoxyribonucleic acids (DNA) and ribonucleic acids (RNA). Both are capable of storing genetic information, and both can direct protein synthesis. Viruses can hold RNA as their genetic material. When viruses infect a cell, they inject their own genetic material into the host cell, which will then interfere with the host cell's ability to do protein synthesis. It is this property that we need to harness to use a virus in combating cancer.

With the advent of "designer drugs", the processes that I'll be discussing likely won't be a distant dream of the future. If we can insert siRNA into a virus and join it up with the other forms of genetic material that are already present inside the virus, then we could potentially create a virus that, with the help of cell-surface signalling proteins, could home in on cancer cells (which would have that unique cell surface identifier I discussed in my 2nd post) without infecting our own body's cells. It would then inject its own genetic material and the siRNA, which would then help to splice up the oncogenes that are so vital to the survival of the cancer cells. In other words, viruses are our vector - much as viruses require a vector to transmit from one person to another, we now use viruses as our "shuttle bus" to transport the siRNA from the lab into the human body.

Ah. Finally got this idea off my head and onto my blog. Cheers to Blogger for this.

Sunday, October 23, 2005

Arrow of Time

After reading "A Brief History of Time" by Stephen Hawking, I finally think I have an idea of what "time" is as a concept, and best of all, how to visualize it.

I used to think time could only go in one direction. It moved "forward", so to speak, but not "backwards". The relative directions was determined by what Hawking calls "psychological time", something that we perceive in our minds.

However, in reality, the laws of physics at the microscopic time level are "symmetric", that is to say, if time goes backwards or forwards, the equations that describe physical processes are the same.

What then determines the direction of time? Well, the clue comes from the Second Law of Thermodynamics (SLOT), which states that all work tends towards the production of greater entropy over time. Entropy, so to speak, is the concept of disorder. Hence, the SLOT tells us that as time progresses (i.e. goes forwards), the amount of disorder in a system increases. It's much like how we neglect our study tables as time progresses, resulting in greater mess on it.

Well, equipped with this knowledge of entropy and time, we can then define time as pointing in one particular direction - forwards. It is because the SLOT doesn't permit entropy to increase spontaneously; it only permits entropy to decrease. And since time progresses in the direction that entropy decreases, it can only point forward.

It is much like an explosion. As time progresses forward, we see a bomb progress from being a small ball full of chemical energy to a smattering mass of pieces and lots of thermal energy. Disorder increases as time progresses. That's how time progresses in the macroscopic world.

That is the arrow of time.

Saturday, October 22, 2005

Blackholes - the *real* way to visualize them

Has anybody actually tried to go beyond the artists impression of a blackhole? See below for the classical depiction of one.

It pictures space-time as a two-dimensional fabric, which gets warped in a perpendicular direction. The act of making it warp perpendicularly (in most cases, vertically) is to help visualize an object falling into the deep pit that eventually collapses into a singularity. After all, it is a convenient depiction. The diagram likens it to a vortex, in which swirling objects get thrown into it, much like when we have whirlpools that suck everything to the depths of the ocean.

However, this is a misleading diagram. It's to help visualize the warping of space-time. However, space-time isn't two-dimensional; space-time is linked together, bringing the three spatial dimensions together with the fourth. In other words, space-time is a four-dimensional concept. And that is something tough to visualize.

A better way to visualize a black hole in the midst of a three-dimensional space is to think of it as a dot. After all, that's what the penultimate distinctive feature of a black-hole is - infinitely large amounts of matter compressed into an infinitely small space: the dot.

The artist's impression below would probably be a better description.

Here, the artist shows the dot in an exaggeratedly large manner, so as to ease visualization. In this, the black hole sucks in all the hydrogen and helium and all other matter from a star neighboring it.The black hole, however, is spherical, and sucks in matter from all directions - up, down, left, right, forward, backward (it all depends on your spatial orientation).

I was thinking, if we took the space-time visualization a little further, then perhaps the warping of the space-time fabric could be extended and repeated in a pattern such that there would be an infinite number of vortices pointing in an infinite number of directions. That would help to explain the warping of space-time in all three dimensions of space such that matter fell in from all directions.

Now, the next big problem is figuring out how to visualize time. That's probably in Stephen Hawking's "A Brief History of Time", Chapter 9 "The Arrow of Time". And that's for next time. ;)