thick-thin   22

Of Mice and Men | West Hunter
It’s not always easy figuring out how a pathogen causes disease. There is an example in mice for which the solution was very difficult, so difficult that we would probably have failed to discover the cause of a similarly obscure infectious disease in humans.

Mycoplasma pulmonis causes a chronic obstructive lung disease in mice, but it wasn’t easy to show this. The disease was first described in 1915, and by 1940, people began to suspect Mycoplasma pulmonis might be the cause. But then again, maybe not. It was often found in mice that seemed healthy. Pure cultures of this organism did not consistently produce lung disease – which means that it didn’t satisfy Koch’s postulates, in particular postulate 1 (The microorganism must be found in abundance in all organisms suffering from the disease, but should not be found in healthy organisms.) and postulate 3 (The cultured microorganism should cause disease when introduced into a healthy organism.).

Well, those postulates are not logic itself, but rather a useful heuristic. Koch knew that, even if lots of other people don’t.

This respiratory disease of mice is long-lasting, but slow to begin. It can take half a lifetime – a mouse lifetime, that is – and that made finding the cause harder. It required patience, which means I certainly couldn’t have done it.

Here’s how they solved it. You can raise germ-free mice. In the early 1970s, researchers injected various candidate pathogens into different groups of germ-free mice and waited to see which, if any, developed this chronic lung disease. It was Mycoplasma pulmonis , all right, but it had taken 60 years to find out.

It turned out that susceptibility differed between different mouse strains – genetic susceptibility was important. Co-infection with other pathogens affected the course of the disease. Microenvironmental details mattered – mainly ammonia in cages where the bedding wasn’t changed often enough. But it didn’t happen without that mycoplasma, which was a key causal link, something every engineer understands but many MDs don’t.

If there was a similarly obscure infectious disease of humans, say one that involved a fairly common bug found in both the just and the unjust, one that took decades for symptoms to manifest – would we have solved it? Probably not.

Cooties are everywhere.

gay germ search: https://westhunt.wordpress.com/2013/07/21/of-mice-and-men/#comment-15905
It’s hard to say, depends on how complicated the path of causation is. Assuming that I’m even right, of course. Some good autopsy studies might be fruitful – you’d look for microanatomical brain differences, as with nartcolepsy. Differences in gene expression, maybe. You could look for a pathogen – using the digital version of RDA (representational difference analysis), say on discordant twins. Do some old-fashioned epidemiology. Look for marker antibodies, signs of some sort of immunological event.

Do all of the above on gay rams – lots easier to get started, much less whining from those being vivisected.

Patrick Moore found the virus causing Kaposi’s sarcoma without any funding at all. I’m sure Peter Thiel could afford a serious try.
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september 2017 by nhaliday
Economics empiricism - Wikipedia
Economics empiricism[1] (sometimes economic imperialism) in contemporary economics refers to economic analysis of seemingly non-economic aspects of life,[2] such as crime,[3] law,[4] the family,[5] prejudice,[6] tastes,[7] irrational behavior,[8] politics,[9] sociology,[10] culture,[11] religion,[12] war,[13] science,[14] and research.[14] Related usage of the term predates recent decades.[15]

The emergence of such analysis has been attributed to a method that, like that of the physical sciences, permits refutable implications[16] testable by standard statistical techniques.[17] Central to that approach are "[t]he combined postulates of maximizing behavior, stable preferences and market equilibrium, applied relentlessly and unflinchingly."[18] It has been asserted that these and a focus on economic efficiency have been ignored in other social sciences and "allowed economics to invade intellectual territory that was previously deemed to be outside the discipline’s realm."[17][19]

The Fluidity of Race: https://westhunt.wordpress.com/2015/01/26/the-fluidity-of-race/
So: what can we conclude about this paper? It’s a classic case of economic imperialism, informed by what ‘intellectuals’ [ those that have never been introduced to Punnet squares, Old Blue Light, the Dirac equation, or Melungeons] would like to hear.

It is wrong, not close to right.

Breadth-first search: https://westhunt.wordpress.com/2015/05/24/breadth-first-search/
When I complain about some egregious piece of research, particularly those that are in some sense cross-disciplinary, I often feel that that just knowing more would solve the problem. If Roland Fryer or Oded Galor understood genetics, they wouldn’t make these silly mistakes. If Qian and Nix understood genetics or American post-Civil War history, they would never have written that awful paper about massive passing. Or if paleoanthropologists and population geneticists had learned about mammalian hybrids, they would have been open to the idea of Neanderthal introgression.

But that really amounts to a demand that people learn about five times as much in college and grad school as they actually do. It’s not going to happen. Or, perhaps, find a systematic and effective way of collaborating with people outside their discipline without having their heads shaved. That doesn’t sound too likely either.

Hot enough for you?: https://westhunt.wordpress.com/2015/10/22/hot-enough-for-you/
There’s a new study out in Nature, claiming that economic productivity peaks at 13 degrees Centigrade and that global warming will therefore drastically decrease world GDP.

Singapore. Phoenix. Queensland. Air-conditioners!

Now that I’ve made my point, just how stupid are these people? Do they actually believe this shit? I keep seeing papers by economists – in prominent places – that rely heavily on not knowing jack shit about anything on Earth, papers that could only have been written by someone that didn’t know a damn thing about the subject they were addressing, from the influence of genetic diversity on civilization achievement (zilch) to the massive race-switching that happened after the Civil War (not). Let me tell you, there’s a difference between ‘economic imperialism’ and old-fashioned real imperialism: people like Clive of India or Raffles bothered to learn something about the territory they were conquering. They knew enough to run divide et impera in their sleep: while economists never say peccavi, no matter how badly they screw up.
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july 2017 by nhaliday
Gauge Transformation | West Hunter
Modern armies require enormous amounts of supply, mostly gas and ammo. In those days, supply mainly meant railroads. In Germany, and in most of Europe, the separation between the rails, the rail gauge,  was 1,435 mm (4ft 8 1/2 in).   So when the Germans invaded France, they could immediately make use of the French railnet.  In Russia, the Germans faced a problem: the gauge was different, 1528 mm (5 ft).  German locomotives could not use those tracks until they had been converted.  As Pravda used to say, this was no coincidence:  it is thought that the Czarist government made this choice for defensive reasons.
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may 2017 by nhaliday
Information Processing: How Brexit was won, and the unreasonable effectiveness of physicists
‘If you don’t get this elementary, but mildly unnatural, mathematics of elementary probability into your repertoire, then you go through a long life like a one-legged man in an ass-kicking contest. You’re giving a huge advantage to everybody else. One of the advantages of a fellow like Buffett … is that he automatically thinks in terms of decision trees and the elementary math of permutations and combinations… It’s not that hard to learn. What is hard is to get so you use it routinely almost everyday of your life. The Fermat/Pascal system is dramatically consonant with the way that the world works. And it’s fundamental truth. So you simply have to have the technique…

‘One of the things that influenced me greatly was studying physics… If I were running the world, people who are qualified to do physics would not be allowed to elect out of taking it. I think that even people who aren’t [expecting to] go near physics and engineering learn a thinking system in physics that is not learned so well anywhere else… The tradition of always looking for the answer in the most fundamental way available – that is a great tradition.’ --- Charlie Munger, Warren Buffet’s partner.

...

If you want to make big improvements in communication, my advice is – hire physicists, not communications people from normal companies, and never believe what advertising companies tell you about ‘data’ unless you can independently verify it. Physics, mathematics, and computer science are domains in which there are real experts, unlike macro-economic forecasting which satisfies neither of the necessary conditions – 1) enough structure in the information to enable good predictions, 2) conditions for good fast feedback and learning. Physicists and mathematicians regularly invade other fields but other fields do not invade theirs so we can see which fields are hardest for very talented people. It is no surprise that they can successfully invade politics and devise things that rout those who wrongly think they know what they are doing. Vote Leave paid very close attention to real experts. ...

More important than technology is the mindset – the hard discipline of obeying Richard Feynman’s advice: ‘The most important thing is not to fool yourself and you are the easiest person to fool.’ They were a hard floor on ‘fooling yourself’ and I empowered them to challenge everybody including me. They saved me from many bad decisions even though they had zero experience in politics and they forced me to change how I made important decisions like what got what money. We either operated scientifically or knew we were not, which is itself very useful knowledge. (One of the things they did was review the entire literature to see what reliable studies have been done on ‘what works’ in politics and what numbers are reliable.) Charlie Munger is one half of the most successful investment partnership in world history. He advises people – hire physicists. It works and the real prize is not the technology but a culture of making decisions in a rational way and systematically avoiding normal ways of fooling yourself as much as possible. This is very far from normal politics.
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january 2017 by nhaliday
Public perceptions of expert disagreement: Bias and incompetence or a complex and random world? - Sep 07, 2015
People with low education, or with low self-reported topic knowledge, were most likely to attribute disputes to expert incompetence. People with higher self-reported knowledge tended to attribute disputes to expert bias due to financial or ideological reasons. The more highly educated and cognitively able were most likely to attribute disputes to natural factors, such as the irreducible complexity and randomness of the phenomenon.

reminds me of Hanson's interpretation of political disagreement: poor data, complex phenomena with high causal density
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january 2017 by nhaliday
Improving Economic Research | askblog
To make a long story short:

1. Economic phenomena are rife with causal density. Theories make predictions assuming “other things equal,” but other things are never equal.

2. When I was a student, the solution was thought to be multiple regression analysis. You entered a bunch of variables into an estimated equation, and in doing so you “controlled for” those variables and thereby created conditions of “other things equal.” However, in 1978, Edward Leamer pointed out that actual practice diverges from theory. The researcher typically undertakes a lot of exploratory data analysis before reporting a final result. This process of exploratory analysis creates a bias toward finding the result desired by the researcher, rather than achieving a scientific ideal of objectivity.

3. In recent decades, the approach has shifted toward “natural experiments” and laboratory experiments. These suffer from other problems. The experimental population may not be representative. Even if this problem is not present, studies that offer definitive results are more likely to be published but consequently less likely to be replicated.
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january 2017 by nhaliday
Overcoming Bias : Chip Away At Hard Problems
One of the most common ways that wannabe academics fail is by failing to sufficiently focus on a few topics of interest to academia. Many of them become amateur intellectuals, people who think and write more as a hobby, and less to gain professional rewards via institutions like academia, media, and business. Such amateurs are often just as smart and hard-working as professionals, and they can more directly address the topics that interest them. Professionals, in contrast, must specialize more, have less freedom to pick topics, and must try harder to impress others, which encourages the use of more difficult robust/rigorous methods.

You might think their added freedom would result in amateurs contributing more to intellectual progress, but in fact they contribute less. Yes, amateurs can and do make more initial progress when new topics arise suddenly far from topics where established expert institutions have specialized. But then over time amateurs blow their lead by focusing less and relying on easier more direct methods. They rely more on informal conversation as analysis method, they prefer personal connections over open competitions in choosing people, and they rely more on a perceived consensus among a smaller group of fellow enthusiasts. As a result, their contributions just don’t appeal as widely or as long.
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december 2016 by nhaliday
Wizard War | West Hunter
Some of his successes were classically thin, as when he correctly analyzed the German two-beam navigation system (Knickebein). He realize that the area of overlap of two beams could be narrow, far narrower than suggested by the Rayleigh criterion.

During the early struggle with the Germans, the “Battle of the Beams”, he personally read all the relevant Enigma messages. They piled up on his desk, but he could almost always pull out the relevant message, since he remembered the date, which typewriter it had been typed on, and the kind of typewriter ribbon or carbon. When asked, he could usually pick out the message in question in seconds. This system was deliberate: Jones believed that the larger the field any one man could cover, the greater the chance of one brain connecting two facts – the classic approach to a ‘thick’ problem, not that anyone seems to know that anymore.

All that information churning in his head produced results, enough so that his bureaucratic rivals concluded that he had some special unshared source of information. They made at least three attempts to infiltrate his Section to locate this great undisclosed source. An officer from Bletchley Park was offered on a part-time basis with that secret objective. After a month or so he was called back, and assured his superiors that there was no trace of anything other than what they already knew. When someone asked ‘Then how does Jones do it? ‘ he replied ‘Well, I suppose, Sir, he thinks!’
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november 2016 by nhaliday
Not Final! | West Hunter
In mathematics we often prove that some proposition is true by showing that  the alternative is false.  The principle can sometimes work in other disciplines, but it’s tricky.  You have to have a very good understanding  to know that some things are impossible (or close enough to impossible).   You can do it fairly often in physics, less often in biology.
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november 2016 by nhaliday
Enigma | West Hunter
The modern consensus is that breaking Enigma shortened the war by at least a year.

Although a number of highly-placed people knew the story, some because they had been personally involved during WWII, the successful decryption of Enigma was kept secret until 1974, when F. W. Winterbotham published The Ultra Secret.

Most historians didn’t know about it. Without that information, the course of World War II can’t really have made sense. Why didn’t anyone notice?

various WW2 trivia in the comments/corrections

high school:
https://westhunt.wordpress.com/2012/03/15/enigma/#comment-2417
They couldn’t hide an anomalous level of success. In fact, the Germans came to realize that the Allies had some kind of intelligence edge, but never managed to figure out what it was. When your opponent anticipates your moves, you must eventually notice.

Professional historians, after the war, don’t seem to have noticed anything anomalous. I find this revealing because _I_ noticed that things had gone weirdly smoothly while I was still in high school. I wrote an essay about it.

https://westhunt.wordpress.com/2017/01/05/subsocieties/#comment-86828
I wish I still had it around. I didn’t manage to guess how many rotors Enigma had, for sure. I only talked about how mysteriously well things had gone, didn’t know why. I remember the conclusion: God protects drunks, babies, and the United States of America.
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november 2016 by nhaliday
Thick and thin | West Hunter
There is a spectrum of problem-solving, ranging from, at one extreme, simplicity and clear chains of logical reasoning (sometimes long chains) and, at the other, building a picture by sifting through a vast mass of evidence of varying quality. I will give some examples. Just the other day, when I was conferring, conversing and otherwise hobnobbing with my fellow physicists, I mentioned high-altitude lighting, sprites and elves and blue jets. I said that you could think of a thundercloud as a vertical dipole, with an electric field that decreased as the cube of altitude, while the breakdown voltage varied with air pressure, which declines exponentially with altitude. At which point the prof I was talking to said ” and so the curves must cross!”. That’s how physicists think, and it can be very effective. The amount of information required to solve the problem is not very large. I call this a ‘thin’ problem’.

...

In another example at the messy end of the spectrum, Joe Rochefort, running Hypo in the spring of 1942, needed to figure out Japanese plans. He had an an ever-growing mass of Japanese radio intercepts, some of which were partially decrypted – say, one word of five, with luck. He had data from radio direction-finding; his people were beginning to be able to recognize particular Japanese radio operators by their ‘fist’. He’d studied in Japan, knew the Japanese well. He had plenty of Navy experience – knew what was possible. I would call this a classic ‘thick’ problem, one in which an analyst needs to deal with an enormous amount of data of varying quality. Being smart is necessary but not sufficient: you also need to know lots of stuff.

...

Nimitz believed Rochefort – who was correct. Because of that, we managed to prevail at Midway, losing one carrier and one destroyer while the the Japanese lost four carriers and a heavy cruiser*. As so often happens, OP-20-G won the bureaucratic war: Rochefort embarrassed them by proving them wrong, and they kicked him out of Hawaii, assigning him to a floating drydock.

The usual explanation of Joe Rochefort’s fall argues that John Redman’s ( head of OP-20-G, the Navy’s main signals intelligence and cryptanalysis group) geographical proximity to Navy headquarters was a key factor in winning the bureaucratic struggle, along with his brother’s influence (Rear Admiral Joseph Redman). That and being a shameless liar.

Personally, I wonder if part of the problem is the great difficulty of explaining the analysis of a thick problem to someone without a similar depth of knowledge. At best, they believe you because you’ve been right in the past. Or, sometimes, once you have developed the answer, there is a ‘thin’ way of confirming your answer – as when Rochefort took Jasper Holmes’s suggestion and had Midway broadcast an uncoded complaint about the failure of their distillation system – soon followed by a Japanese report that ‘AF’ was short of water.

Most problems in the social sciences are ‘thick’, and unfortunately, almost all of the researchers are as well. There are a lot more Redmans than Rocheforts.
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november 2016 by nhaliday
Megafaunal Extinctions | West Hunter
When competent human hunters encountered naive fauna, the biggest animals, things like mammoths and toxodons and diprotodons, all went extinct. It is not hard to see why this occurred. Large animals are more worth hunting than rabbits, and easier to catch, while having a far lower reproductive rate. Moreover, humans are not naturally narrow specialists on any one species, so are not limited by the abundance of that species in the way that the lynx population depends on the hare population. Being omnivores, they could manage even when the megafauna as a whole were becoming rare.

There were subtle factors at work as well: the first human colonists in a new land probably didn’t develop ethnic/language splits for some time, which meant that the no-mans-land zones between tribes that can act as natural game preserves didn’t exist in that crucial early period. Such game preserves might have allowed the megafauna to evolve better defenses against humans – but they never got the chance.

It happened in the Americas, in Australia, in New Zealand, in Madagascar, and in sundry islands. There is no reason to think that climate had much to do with it, except in the sense that climatic change may sometimes have helped open up a path to those virgin lands in which the hand of man had never set foot, via melting glaciers or low sea level.

I don’t know the numbers, but certainly a large fraction of archeologists and paleontologists, perhaps a majority, don’t believe that human hunters were responsible, or believe that hunting was only one of several factors. Donald Grayson and David Meltzer, for example. Why do they think this? In part I think it is an aversion to simple explanations, a reversal of Ockham’s razor, which is common in these fields. Of course then I have to explain why they would do such a silly thing, and I can’t. Probably some with these opinions are specialists in a particular geographic area, and do not appreciate the power of looking at multiple extinction events: it’s pretty hard to argue that the climate just happened to change whenever people showed when it happens five or six times.

It might be that belief in specialization is even more of a problem than specialization itself. Lots of time you have to gather insights and information from several fields to make progress on a puzzle. It seems to me that many researchers aren’t willing to learn much outside their field, even when it’s the only route to the answer. But then, maybe they can’t. I remember an anthropologist who could believe in humans rapidly filling up New Zealand, which is about the size of Colorado, but just couldn’t see how they could have managed to fill up a whole continent in a couple of thousand years. Evidently she didn’t understand geometric growth. She is not alone. I have see anthropologists argue [The revolution that wasn’t] that increased human density in ancient Africa was driven by the continent ‘finally getting full’, rather than increased intellectual abilities and resulting greater technological sophistication. That’s truly silly. Look, back in those days, technology changed slowly: you would hardly notice significant change over 50k years. Human populations grow far faster than that, given the chance. Imagine a population with three surviving children per couple, which is nothing special: it would grow by a factor of ten million in a thousand years. The average long-term growth rate was very low, but that is because the rate of increase in human capabilities, which determine the carrying capacity, was very slow – not because rapid population growth is difficult or impossible.

I could explain this to my 11-year old twins in five minutes, but I don’t know that I could ever explain it to Brooks and McBrearty.

various comments about climate change

https://westhunt.wordpress.com/2012/05/20/megafaunal-extinctions/#comment-3039
Why do people act as if a slightly more habitable Greenland a millennium ago somehow disproves the statement that the world as a whole was cooler then than now? Motivated reasoning: they want a certain conclusion real bad. At this point it’s become an identifying tribal marker, like left-wingers believing in the innocence of Alger Hiss. And of course they’re mostly just repeating nonsense that some flack dreamed up. Many of the same people will mouth drivel about how a Finn and a Zulu could easily be genetically closer two each other than to other co-ethnics, which is never, ever, true.

When you think about it, falsehoods, stupid crap, make the best group identifiers, because anyone might agree with you when you’re obviously right. Signing up to clear nonsense is a better test of group loyalty. A true friend is with you when you’re wrong. Ideally, not just wrong, but barking mad, rolling around in your own vomit wrong. Movement conservatives have learned this lesson well.

https://westhunt.wordpress.com/2013/09/12/younger-dryas-meteorite/
It has been suggested that a large meteorite was responsible for an odd climatic twitch from about 12,800 to 11,500 years ago (the Younger Dryas , a temporary return to glacial conditions in the Northern Hemisphere) and for the extinction of the large mammals of North America. They hypothesize air bursts or impact of a swarm of meteors , centered around the Great Lakes. Probably this is all nonsense.

The topic of the Holocene extinction of megafauna seems to bring out the crazy in people. In my opinion, the people supporting this Younger Dryas impact hypothesis are nuts, and half of their opponents are nuts as well.

...

The problem for that meteorite explanation of North Ammerican megafaunal extinction is that South America had an even more varied set of megafauna (gomphotheriums, toxodonts, macrauchenia, glyptodonts, giant sloths, etc) and they went extinct around the same time (probably a few hundred years later). There’s no way for a hit around the Great Lakes to wipe out stuff in Patagonia, barring a huge, dinosaur-killer type hit that throws tremendous amount of debris into suborbital trajectories. But that would have hit the entire world… Didn’t happen.

https://westhunt.wordpress.com/2012/05/26/redlining/
If you take too many chances in the process of making a living, you’ll get yourself killed before you manage to raise a family. Therefore there is a maximum sustainable risk per calorie acquired from hunting *. If the average member of the species incurs too much risk, more than that sustainable maximum, the species goes extinct. The Neanderthals must have come closer to that red line than anatomically modern humans in Africa, judging from their beat-up skeletons, which resemble those of rodeo riders. They were almost entirely carnivorous, judging from isotopic studies, and that helps us understand all those fractures: they apparently had limited access to edible plants, which entail far lower risks. Tubers and berries seldom break your ribs.

...

Risk per calorie was particularly high among the Neanderthals because they seem to have had no way of storing meat – they had no drying racks or storage pits in frozen ground like those used by their successors. Think of it this way: storage allow more complete usage of a large carcass such as a bison, that might weigh over a thousand pounds – it wouldn’t be easy to eat all of that before it went bad. Higher utilization – using all of the buffalo – drops the risk per calorie.

You might think that they could have chased rabbits or whatever, but that is relatively unrewarding. It works a lot better if you can use nets or snares, but no evidence of such devices has been found among the Neanderthals.

It looks as if the Neanderthals had health insurance: surely someone else fed them while they were recovering from being hurt. You see the same pattern, to a degree, in lions, and it probably existed in sabertooths as well, since they often exhibit significant healed injuries.

...

So we can often understand the pattern, but why were mammoths rapidly wiped out in the Americas while elephants survived in Africa and south Asia? I offer several possible explanations. First, North American mammoths had no evolved behavioral defenses against man – while Old World elephants had had time to acquire such adaptations. That may have made hunting old world elephants far more dangerous, and therefore less attractive. Second, there are areas in Africa that are almost uninhabitable, due to the tsetse fly. They may have acted as natural game preserves, and there are no equivalents in the Americas. Third, the Babel effect: in the early days, paleoIndians likely had not yet split into different ethnic groups with different languages: with less fighting among the early Indians, animals would not have had relatively border regions acting as refugia. Also, with fewer human-caused casualties, paleoindians could have taken more risks in hunting.

https://westhunt.wordpress.com/2013/09/18/hunter-gatherer-fish-and-game-laws/
I don’t think that there are any. But then how did they manage to be one-with-the-land custodians of wildlife? Uh….

Conservation is hard. Even if the population as a whole would be better off if a given prey species persisted in fair numbers, any single individual would benefit from cheating – even from eating the very last mammoth.

More complicated societies, with private property and draconian laws against poaching, do better, but even they don’t show much success in preserving a tasty prey species over the long haul. Considers the aurochs, the wild ancestor of the cow. The Indian version seems to have been wiped out 4-5,000 years ago. The Eurasian version was still common in Roman times, but was rare by the 13th century, surviving only in Poland. Theoretically, only members of the Piast dynasty could hunt aurochsen – but they still went extinct in 1627.

How then did edible species survive in pre-state societies? I can think of several ways in which some species managed to survive … [more]
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november 2016 by nhaliday
Son of low-hanging fruit | West Hunter
You see, you can think of the thunderstorm, after a ground discharge, as a vertical dipole. Its electrical field drops as the cube of altitude. The threshold voltage for atmospheric breakdown is proportional to pressure, while pressure drops exponentially with altitude: and as everyone knows, a negative exponential drops faster than any power.

The curves must cross. Electrical breakdown occurs. Weird lightning, way above the clouds.

As I said, people reported sprites at least a hundred years ago, and they have probably been observed occasionally since the dawn of time. However, they’re far easier to see if you’re above the clouds – pilots often do.

Pilots also learned not to talk about it, because nobody listened. Military and commercial pilots have to pass periodic medical exams known as ‘flight physicals’, and there was a suspicion that reporting glowing red cephalopods in the sky might interfere with that. Generally, you had to see the things that were officially real (whether they were really real or not), and only those things.

Sprites became real when someone recorded one by accident on a fast camera in 1989. Since then it’s turned into a real subject, full of strangeness: turns out that thunderstorms sometimes generate gamma-rays and even antimatter.
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november 2016 by nhaliday
Information Processing: What is medicine’s 5 sigma?
I'm not aware of this history you reference, but I am only a recent entrant into this field. On the other hand Ioannidis is both a long time genomics researcher and someone who does meta-research on science, so he should know. He may have even written a paper on this subject -- I seem to recall he had hard numbers on the rate of replication of candidate gene studies and claimed it was in the low percents. BTW, this result shows that the vaunted intuition of biomedical types about "how things really work" in the human body is worth very little. We are much better off, in my opinion, relying on machine learning methods and brute force statistical power than priors based on, e.g., knowledge of biochemical pathways or cartoon models of cell function. (Even though such things are sometimes deemed sufficient to raise ~$100m in biotech investment!) This situation may change in the future but the record from the first decade of the 21st century is there for any serious scholar of the scientific method to study.

Both Ioannidis and I (through separate and independent analyses) feel that modern genomics is a good example of biomedical science that (now) actually works and produces results that replicate with relatively high confidence. It should be a model for other areas ...
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november 2016 by nhaliday

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