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gomijacogeo

297 karma · joined October 1, 2016

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gomijacogeo··on What If Life Did Not Originate on Earth?
My own tin-hat theory on that is DNA probably co-evolved with RNA pretty quickly. The main difference between RNA and DNA is that a single RNA strand can fold up and bond with itself to make interesting() 3d shapes while DNA can't self-fold. I think single-stranded DNA initially served as a durable, robust structure for RNA to assemble against before it went off and folded up and did whatever it did chemically. This might help explain why RNA polymerase only runs 3'->5'; in fact one of the early functions of one of the RNA polymerase components was maybe to keep the single DNA strand "tidy" and free of random base-pairings. Also, it might help explain why the 3'->5' DNA strand has to jump through so many extra hoops to get replicated - double-stranded DNA came later. It might also explain the reason reverse transcriptase exists at all. Again, I am probably provably a crank on this.

() This is the whole appeal of the "RNA world" hypothesis, you have one molecule that can serve both as "code" and catalyst for other chemical reactions.

gomijacogeo··on What If Life Did Not Originate on Earth?
And yet we have no more mastodons, dinosaurs, trilobites, ... Stuff still goes extinct, it's just a lot slower with cows than with molecules.

I think you're just failing to grasp the sheer numbers involved here: there are probably around 10^9 cow-like critters and they interact with other, competing critters every, let's say, 10^4 seconds, with the odds of any one of these interactions being fatal being, again, let's say 1 in 10^4. By comparison, there were probably something like 10^37 (if I counted my orders of magnitude right) biomolecules interacting every 10^-6 seconds where every time some new chemical "A-ha!" moment occurred, that reaction now became 1000x more favorable than any other competing reaction. That's like, what, 41 orders of magnitude; even if I'm off by 10+ orders of magnitude, there was just a whole lot more selective pressure going on during the pre-biotic era. Less favorable chemical pathways were outcompeted on scales so vast you'd need trillions of cow-years to approximate how de-de-de-deselected-for they were.

gomijacogeo··on What If Life Did Not Originate on Earth?
No, it really doesn't; it took a few generations of stars exploding and slamming into each other to make all those heavy elements we kinda consider important. You might be able to move it back another 3-4 billion years, which is admittedly a good long time.

But really there's nothing yet that even remotely necessitates an extra-terrestrial origin for life. The problem is that, each time there was a "winner" in the very earliest more-chemistry-than-life arms-races, it essentially obliterated all record of what the competition looked like. It's not until pretty late in the game that no one new strategy obliterated all its peers - at that point we got the biological domains (prokaryotes and eukaryotes (which subsumed other prokaryotes as mitochondria and chloroplasts)) and viruses. From then on, the arms-races have been at higher levels of abstraction and the fight over the basics of biochemistry is 'settled'.

gomijacogeo··on What If Life Did Not Originate on Earth?
There's a tiny bit of variation across the tree-of-life, see https://en.wikipedia.org/wiki/Genetic_code#Alternative_genet...

But the variation is in the one place you could possibly have it - by changing the interpretation of one or two of the three available STOP codons.

gomijacogeo··on What If Life Did Not Originate on Earth?
Also, https://en.wikipedia.org/wiki/Genetic_code#Alternative_genet...

Although most (all?) of the variability is in the one place you can make it without almost-certainly killing your host organism - in repurposing the STOP codons. There are usually three (and likely UGG was a fourth before it got hijacked by Tryptophan in the before time) and all you need is one.

gomijacogeo··on What If Life Did Not Originate on Earth?
Most precursor molecules (e.g. CH4, NH2, etc) aren't chiral, so differently-chiral'd proto-life would still compete for the basic building blocks. Each time one set of complexes managed to get more efficient at something, it probably drove more than half of its competitors to extinction. Repeat a few times and you wind up with essentially a single global consensus and the arms-race moves on to higher levels of abstraction.
gomijacogeo··on What If Life Did Not Originate on Earth?
I think the most likely reason is simply that they were first. And whatever managed to close some metabolic or reproductive cycle first got, and I mean this quite literally, an exponential boost over everything else. So think of early proto-life on Earth not as some single thread doggedly proceeding up an evolutionary ladder, but rather a series of epochs where there's great diversity until BOOM some set of molecules manage to close some metabolic or reproductive loop and then outcompetes everything else in essentially a blink of an eye.
gomijacogeo··on What If Life Did Not Originate on Earth?
The simplest reason is that the ribosome evolved very early on (and is probably the best preserved remnant of whatever the earlier "RNA world" looked like) and it was always easier to leverage that machinery than to evolve another whole system from scratch. Once you have a world populated by any form of proto-life that can self-reproduce, even with crappy fidelity, it's basically game-over for any of the other semi-closed metabolic pathways that might have been competitors up until that point - they're now just food. There's no opportunity for another system to arise because all the raw materials are being scooped up by the new superpredator on the scene - the ribosome & whatever associated machinery it drags along. The competition now heats up between different ribosome-equipped complexes - improve metabolism, increase independence, increase reproduction rate, improve reproductive fidelity, etc.
gomijacogeo··on MIPS R3000
There was one nifty thing that fell out from having delay slots - you could write a threading library without having to burn a register on the ABI. When you changed context to a different thread, you'd load in all the registers for the new thread except for one which held the jump address to the new thread's IP. Then, in that jump's delay slot, you load in the thread's value for that register and, presto, zero overhead threading!
gomijacogeo··on Organisms that breathe arsenic discovered in the Pacific Ocean
The Felisa Wolfe-Simon / NASA debacle from 2010 was trying to claim that GFAJ was using Arsenic in place of Phosphorus in biomolecules (especially the DNA backbone). This was quickly debunked.

The paper (indirectly) cited here is claiming that some micro-organisms use simple Arsenic-containing ions for electron transport as part of their metabolic cycles. This is a much less outrageous claim and, I think, already documented in high-Arsenic environments. The only big deal here is, I believe, that this is a low-Arsenic environment.

Original paper: http://sci-hub.tw/https://doi.org/10.1073/pnas.1818349116

gomijacogeo··on Why airlines make flights longer on purpose
This is an idiotic article.

First, to suggest that padding comes at the expense of operational improvement is wrong; well-applied padding is operational improvement.

Second, some of those time losses are due to the move from turbojets (which are fast, screamingly loud, and inefficient) to high-bypass turbofans (which are slower, quieter, and much more fuel efficient).

More time is lost as planes usually have to fly complex noise-abatement profiles and navigate more crowded and complex airspaces before they get to cruise.

gomijacogeo··on Study: Two Monitors or One Ultrawide
Dell UltraSharp U3011. It's about 7 years old, but the backlight and image quality are still good, but technology has moved on.
gomijacogeo··on Study: Two Monitors or One Ultrawide
I used to run 2x 24" monitors in portrait mode (2400x1920) which was pretty nice.

I upgraded to 27" monitors, but portrait mode (2880x2560) involved too much head tilting so I ultimately went landscape (5120x1440), which was both too short vertically and too wide horizontally.

So I'm currently using a single 30" (2560 x 1600) in landscape mode. It's ok. There's simplicity in having a single monitor.

The next (and possibly final) upgrade will likely be to a ~32" 4K or 5K monitor. If I had a 2nd monitor, I'd probably just want it to mirror the first one at 3x zoom centered on the cursor - my eyes are losing resolution about as fast as monitors are gaining it.

gomijacogeo··on Why Some Doctors Hesitate to Screen Smokers for Lung Cancer (2015)
As this was where you made you question, I'll stick with you here in the ruthlessly utilitarian minefield (i.e. people and $$$'s are fungible).

First, a clarification, it's 30 pack-years. There are lots of ways to get to that number. 30 years @ 1 pack/day and 15 years @ 2 packs a day are both 30 pack-years. That number sticks with you even if you quit 20 years ago.

So, especially for the younger end of that range (55yo), people between 55-65 are often in their peak earning years (finally gotten seniority or management) and this is when they are most often finally paying off their debts (mortgage, etc). It's also when they are likely doing peak elder care and also sending their kids to college. So this is the time where they are probably doing their peak economic and social good. If you can catch something that keeps them productive for an additional 10ish years, you've probably come out ahead for it.

gomijacogeo··on Ethiopian Airlines Boeing 737 pilots 'could not stop nosedive'
Another thing we know now about MCAS is that it's locked out for 5 seconds after each trim switch operation. So, if you never have stab trim engaged for longer than 5 seconds a shot, you should be able to trim up the plane.
gomijacogeo··on Ethiopian Airlines Boeing 737 pilots 'could not stop nosedive'
It's a shame that MCAS behavior wasn't fully explained after the first crash. If it had, they might have remembered that flaps disable MCAS. If I had to go "off checklist", I'd go: stab trim off -> flaps 1st detent -> stab trim on -> trim to neutral -> stab trim off for duration of flight -> flaps up -> manual flight for the duration. Still, that's all while you're pulling on the column like mad, all the indicators are lit, all the annunciations are going on, the stick shaker is going, you're going like a bat out of hell, and the ground is coming up at you. In the final seconds of flight, there was so much nose-down that they were pulling -2g.
gomijacogeo··on Ethiopian Airlines Boeing 737 pilots 'could not stop nosedive'
The report is now available at https://www.documentcloud.org/documents/5793877-Preliminary-...

Flaps-up was commanded about a minute after take-off, which seems about right. The AGL altitude of the plane is hard to determine from the graphs as they only list pressure altitude. It's a high airport with, I believe, rising terrain. I'm not sure if the 1000' AGL cited is supposed to be at first MCAS engagement, or the last one, or at some other point in between.

gomijacogeo··on Ethiopian Airlines Boeing 737 pilots 'could not stop nosedive'
Slight correction, they turned off the stab trim and tried to manually re-trim the plane, but the aerodynamic loading on the stabilizer was so great that they couldn't turn the trim wheel by hand. So, sadly, they re-engaged the stab trim and began to use the switches to trim up, but the MCAS came back 5 seconds later, trimmed down again, and flew them into the ground.
gomijacogeo··on Lack of redundancies on Boeing 737 MAX baffles some involved in developing it
Although a stuck AoA sensor is also going to have a very characteristic signature - no change in reported AoA. A working AoA sensor will always have some noise in the signal as the air buffets the plane. Similarly, if you maneuver the plane and the indicated AoA doesn't change at all, you can deduce the sensor is stuck and reject it (or turn on the heater, or maybe have a mechanical way to force the AoA sensor through its range of motion, etc).
gomijacogeo··on Pilot Who Hitched a Ride Saved Lion Air 737 on the Day Before Deadly Crash
Do we know, exactly, how much of the 737 Max 8's flight envelope was lost compared to earlier models? I'm getting the feeling that the instability happens far closer to the regular maneuvering envelope than is being alluded to in the press.
gomijacogeo··on Ethiopian Airlines: Boeing 737 Crashes on Way to Kenya
It's now being reported there were no survivors.
gomijacogeo··on Undercover spy exposed in NYC was one of many
It could definitely have been a "bump" (a manufactured 'accidental' introduction). If you work in a sensitive field, I'd definitely report it. If you hold a clearance, you should have already reported it.

I wouldn't spend much energy trying to second-guess who was ultimately behind the meeting. Especially if it is nefarious, often the initial contact is done with a cut-out or other intermediary and true affiliations are almost never disclosed initially (or perhaps ever).

gomijacogeo··on Boeing 787 Suffers Rare Dual Engine Failure on Landing
Next from Boeing: a car where, if you unlatch your seatbelt before the engine stops, the airbags deploy.
gomijacogeo··on A Science Journal Funded by Peter Thiel Dismisses Climate Change and Evolution
https://sci-hub.se/10.1126/science.324_1254

In short, sexual reproduction is very old (> 1 billion years ago) and first appeared in an ancestor of all eukaryotic cells and long predates multicellular life. So, all of multicellular life evolved with the haploid/diploid molecular machinery already available and different branches of life have built vastly different strategies to use it. You'd be better served IMHO to start at DNA replication and build up rather than starting at sex organs and working backward.

gomijacogeo··on Strong and Weak Technologies
If you rolled back the clock a decade or so, every 'weak' technology listed could have been presented as a 'strong' technology with another, earlier technology as the 'weak' one. E.g. Private intranets <- dedicated hardlines, Interactive TV <- broadcast TV, MP3 downloads <- physical objects (records, tapes, etc), Hybrid cars <- gasoline cars, ...

I'd reframe it as: Technologists come in two flavors, the ones who think their current era is fundamentally distinct from earlier eras, and the ones who don't.

gomijacogeo··on Why You Should Care About the Julian Assange Case
I think there's a spectrum of behaviors that range from legitimate news gathering to something very much like espionage.

Scenario 1: Leaker: Hi, I'm XXX, I work for YYY and I'm witness to event ZZZ that I think must be exposed. I have classified documents to back up what I have to tell you. Reporter: I'm going to stop you there and make sure my editor, owner, and lawyers are on board with this and determine how to proceed. Please do not communicate any classified material at this time.

Scenario 2: Leaker: Hi, I'm unhappy with the general state of things and am willing to exfiltrate any secure data I can get my hands on. Reporter: Great! What do you have access to? No, better, just send me a listing of everything. Here's a secure server and software that should crawl your net and get it out without raising any eyebrows. No wait, even better, I'll send you a USB dongle that will look like a keyboard to the hw event logger with everything you'll need on it.

Not saying Assange did exactly scenario #2, but I think the press can be only so much of an active participant before they incur some liability for the removal of classified information.

gomijacogeo··on Woman Partially Sucked Out of Jet When Window Breaks
The request to minimize frequency changes was to lessen their workload in the cockpit and was probably also meant to convey that they were still a bit busy flying the plane. It's not an unreasonable request.
gomijacogeo··on Intel Has a Big Problem
Ask them to sign NDAs.
gomijacogeo··on C++17 Standard Published
In one way, the last draft is more canonical than the official spec - if you are talking chapter and verse to another person about the spec, odds are good that they are referring to the last public draft also.
gomijacogeo··on Babylonians developed trigonometry superior to modern version 3,700 years ago
Two words: Norman Wildberger.
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