Finally! Apoptosis explained, using nifty animation.

I’m sure you’ve spent many a night lying awake in bed wondering about your immune system; how it works and what would happen when one of the ‘soldiers’ in your immune system’s army encounters a diseased cell, right? Like, how exactly do your innards cope with these rogue, infected cells?

Well, Drew Berry has created some nifty animations of the inner workings of the cell at the microscopic level, one of which shows what happens when one of your body’s killer T cells seeks out and finds another cell infected by a virus or bacteria (infected cells are recognized by tiny traces of the intruder, antigen, found on their surface, which the killer T cell detects with receptors on its own surface). The process is called Apoptosis, which as one commenter on the video on YouTube puts it:

Basically it is a cascade of proteins activating other proteins. Eventually, the end product protein breaks down the cytoskeleton of the [diseased] cell, which determines the cell’s rigidity and structure, causing the cell to essentially disintegrate.

The killer T cell produces one type of protein, which produces another inside the infected cell, and so on and so on, until a certain protein (caspase 3) is produced that has the effect of causing the diseased cell to ‘pop’ and disintegrate, making it easy for phage cells to clean up the mess by ingesting the smaller bits and bobs that hang around like they’ve nothing better to do.

It’s a fascinating process that’s now easier to visualize with the help of animations such as the ones Drew Berry has spent many, many months researching and putting together.

Here’s the apoptosis clip (just over 4  minutes long), which shows how the process works.

More cool and geeky animations can be found at Molecular Movies, a portal to cell and molecular animation.

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Coffee and people

I love my local coffee shop, where I sit and read as two guys on my right argue passionately in Russian, a little old lady sips her tea on her own and glances sharply over the top of her newspaper at the two guys arguing, and an ochre-robed Buddhist monk serenley sips an espresso as he ponders Nirvana.

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Wile E. Coyotes!

I used to love watching the Looney Tunes cartoon show Wile E. Coyote and Road Runner when I was a kid. In each episode, the two protagonists were placed in an predator/prey scenario in which the coyote would use all kinds of absurdly complex contraptions and elaborate plans to pursue his quarry, instead of relying on natural animal senses and cunning.

It was a great show and a lot of fun to watch!

Where I grew up, in England, the largest animal that would fill the coyote role would be the red fox. They’re not really known to be dangerous in the U.K., unless you happen to be a chicken or rabbit. You wouldn’t get a press release from the local council, for instance, warning people to beware of foxes at this time of year (at least, not that I’m aware of).

So I was bemused yesterday to see such a press release from the City of Toronto, about winter sightings of coyotes in the city. Apparently, this is a normal event.

Residents in the city of Toronto who live on or near ravines and forests (typical coyote habitat) should expect to have more coyote sightings during winter months.

Coyotes may approach pets that are not supervised, especially cats and small dogs. It is always a good idea to keep an eye on your pet while they are outside. It is very unlikely that a coyote will be attracted to a child; however, close supervision of children is also important.

I never imagined, all that time ago as a child watching the antics of Wile E. Coyote, that I would eventually live in a country where coyotes are regular wildlife. Not to mention other predators such as wolves, although the chances of seeing those larger carnivores within the city limits are fairly slim (I hope!).

That said, this particular city notice about coyotes didn’t surprise me as much as the sign below, which I saw while hiking in the hills around Whistler, B.C. a few years ago!

You Are in Bear Country!
You Are in Bear Country!
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Ave Maria

My walk home after work tonight was completely different to yesterday’s.

As I made my way, I had to pass by Roy Thomson Hall. As I approached the hall, I heard the sound of Ave Maria drifting through the air, and I could see an old Chinese guy across the street from me, playing this beautiful hymn on a clarinet, playing it to one side, as the rush hour traffic passed him by.

His rendition was almost flawless. The tune was so good that I crossed the street and gave him all the change I had in my pocket.

He bowed in thanks as he continued to play. The closer I was to him, the sweeter the music was to me.

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Neil

“Hi, my name’s Neil!” says the guy, loudly, as he turns the corner right in front of me and moves into my way.

I’m walking home from work, it’s just after 5PM and starting to get dark. The temperature is 4°, unseasonably warm for January—a nice night to walk home.

I have to stop, because Neil is now blocking my path as I walk west along Adelaide at Church Street. He’s an older guy, maybe 60 or so, with wild, grey hair peeping out from beneath a black toque. His clothes are in disarray, a bit too big for his medium frame, but they look fairly clean. His nose is running. A lot. And he has some sort of speech impediment which makes him slur some words slightly.

“Can I ask you something?” he says.

“Yes, of course,” I reply. He has some kind of cotton bag over one shoulder, holding it there with one hand which is holding a wad of cash, right at eye level! He must have about $80 or $90 in his fist; a combination of fives, tens and twenties. He holds his other hand out toward me, as if to shake. I stare down at it for a second and, keeping mine firmly in my coat pockets, ask “What can I do for you?”

“Well, I want to shake your hand!”

I don’t want to shake his, so I ask “Is there something else you want?”, my hands still in my pockets. I kind of know where this is going.

“I’m not here to hurt you,” he says as he pulls his bag open slightly, allowing me to see inside.

I find this a bit freaky and I won’t look in the bag. He’s standing right up to me, very close, too close for comfort, but I refuse to be cowed as I stay where I am and then say, a little too loudly, ”Of course you’re not!”.

“I don’t have anything in my bag to hurt you with.”

I’m still not looking into his bag. “I understand. Now what can I help you with?”

Neil closes his bag and looks at the money in his other hand. “I have some money here, but I’m just a bit too short to buy myself a pair of gloves. I need some more money to buy gloves. Can you give me some money?”

“I’m sorry, I have no change on me. I have no cash at all on me, in fact,” which was true.

But I hadn’t even finished my apology when Neil’s eyes flicked away from mine and started  surveying the other passers-by. I didn’t exist any more as he pulled a pair of thick, warm-looking gloves out of his coat pocket and wiped his nose on them. Then he just turned away without saying another word and walked off down the street, slowly.

I watched him go for a second or two, then breathed a sigh, rolled my eyes, and turned away to continue walking home along Adelaide.

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