Institutions of Truth

Society is built up around institutions, which come in several varieties.

We gather together to do more than we can possibly so alone, into families, tribes, and nations. As human capabilities increased through time, and our populations increased, ever-more diverse and specialized groups assembled to deal with the incredibly complex opportunities at the technological and social frontier. Putting astronauts on the moon required a vast organization with all sorts of skills, but especially technical skills. Such an institution runs on truth. Managers need to get truthful statements from the financial bean counters, the astronauts need to have confidence in the testing and engineering operations, the engineers need to count on the vendors and technicians for quality products and work. 

As a scientist, I often think of my own community as the epitome of truth-seeking and moral righteousness. But all human communities are truthful in their own way, though rarely so explicitly and doggedly. The legal system, for example, is predicated on a search for truth. Granted, it uses an adversarial system that relies on each side bending the truth to its interests, which is an ethic and practice that can easily get out of hand. Even politics is a sort of truth-finding system, not in its speechifying and rhetoric, but in gauging the feelings of an electorate- how it views its problems and who it thinks might solve them, assuming that voting is truly secret and civically engaged. It has been fascinating to see the lies of our current president, so meaningful to his base, functioning as permission to be their worst selves- racist, greedy, incontinent, misogynist, hateful, ignorant.

The news media is an explicitly truth-seeking and publishing enterprise, but can be compromised, both by its market incentives and by political pressures and interests. Markets and business are likewise truth-seeking, not in that they always tell the truth, but that they are predicated on finding a ground truth of what makes money- what is the most efficient and useful thing to be done at this moment. And connected with this is advertising, apparently one of the best ways to make money, and the financial foundation of the news media. Advertising is a curious phenomenon. Its practitioners are paid to tell lies, but only little lies, that skirt the boundaries of fraud. Their art is more typically to insinuate their lies rather than state them outright. That pretty women will flock to the owner of this watch or that car, or that betting at this casino will make you both handsome and rich. 

The arts dispense with explicit truths entirely, and tell human truths though imagined stories. The mark of great art is that it cuts to the heart of the human condition using all its artifice and archetypes. The Matrix is a great example of a wildly creative and frankly insane story that poses the central moral dilemma- can we take the truth, and can we- do we even want to- overcome pleasant illusions to get there?

At the bottom of it all is religion, which offers spiritual purpose and community, founded on pure fantasy. It used to be, in pagan times, that religions were not taken so literally and seriously. Each cult coexisted with the others, and none claimed to be more than an art of the archetypes whereby people could get in touch with a sense of binding social and philosophical purpose. A civic pleasure and ceremonial. But then came Christianity, child of the collision between Judaism and Egyptian and Greek philosophies. Christianity claimed a true historical story, even though it was fabricated more or less out of whole cloth. It claimed absolute truth, certain life after death, and salvation for something... apparently, the human condition was not good enough and had to be redeemed, by blood and death. It certainly was dramatic, but truth? Only on some campy (and masochistic) emotional level.

This institution has had incredibly pervasive effects on our view of truth, and it has taken hundreds of years to extricate ourselves from its presumptions and bizarre claims. Even now there is a rump movement of biblical literalists who are wreaking evil on our politics and society. All in the name of a hot mess of fabrications and primitive morals. We need to take a closer look at the role that truth plays in our day-to-day lives and society, in our moral lives and imaginations. 

• Progress on post-viral syndromes.

Curious Computation

A biologist and former employee of IBM visits the Computer History Museum, in Mountain View, California.

Walking into the Computer History Museum, it seems unassuming enough- a slightly clean aesthetic, some open space, an early Waymo. But it is one of the most intense religious shrines I have been to. If Silicon Valley is a religion, one of industry, hope, and salvation, this is its interpretive and devotional reliquary. It honors the efforts of countless acolytes who have put their hearts into the technical organization of knowledge, from punch cards to SQL to data centers. And it honors its prophets, above all Thomas Watson and Steve Jobs. While the Silicon Valley religion has fallen on tumultuous times now that its powers have grown so intrusive, even reviled, and fallen into decidedly lesser hands, its eschatology has never been closer, as its greatest monastic centers are working towards "general" artificial intelligence, humanoid robots, and (ironically) the end of work. 

In the last century, IBM (with Thomas Watson as its benevolent dictator) was the leader of creating and handling mechanized information. Punch cards were a wonder of their day, allowing for efficient storage and flexible tabulation of huge amounts of data. Businesses quickly became dependent on them for modeling (and forecasting) their inventories, employees, payrolls, and financial streams. There was a tinge of omniscience and prophecy in the powers these machines could bring. But IBM was slow to get into electronics, slow to get into relational databases, and slow to get into small/personal computers. Particularly heartbreaking to me was the exhibit on SQL. Researchers at IBM invented the relational database and its SQL language. But IBM didn't see its advantage over its existing, less flexible data search/organization methods, and let Larry Ellison steal the idea and set up Oracle corporation, now as large as IBM itself.

The IBM system 360 was a revolution in style as well as computation.

The museum has a special room devoted to Apple and Steve Jobs, the quintessential prophet of Silicon Valley and its positive message of hope through technology. He has died and gone to heaven, but who has not stared into his handiwork? Who can say that he is not living still among us? Seeing the small beginnings and flickering flame of Apple's early challenges, before it became what one may now say is the official religion of technologically advanced society, well ... it was stirring, to say the least. 

Is that a halo?

The collection of the museum is very rich, dealing as it does with the relatively recent past (other than the abacus collection!). Indeed, I have a minor version of it in my basement. It is remarkable how diverse the flow of ideas was in the early computer age, with computers made in Japan, Germany, along analog as well as digital lines, by countless designs. There was a ferment that is characteristic of nascent technological fields (and, not incidentally, of biological radiations and innovations) where new possibilities are interpreted in various ways, and different prophets try out contrasting visions of the future, some regimented (like IBM), some more free flowing (like the home-brew computer club).

But the scope of the museum is also a bit confining, focused as it is on the human-built apparatuses of data processing. Information and computation is a larger subject, and as a biologist, I have to say that the finest computers at the Computer History Museum were walking around, not in the display cases. We are computers, and darn good ones. The fact that AI companies with their Sauronic datacenters can not accomplish what one person can with one brain, powered by little more than a burrito, means that some fundamental aspect of intelligence is missing in what is so blithely called AI. Computers have far surpassed what humans can do in data storage, and in mathematical computation. But in other areas our intelligence remains untouched. Technology will undoubtedly get there, but I don't think it will get there in the current dispensation, just by "scaling". 

So, for the moment, biology still wins. Indeed, information is so fundamental that biology has from the start created information systems. The simplest bacterium senses its environment and can tell whether there is food, or danger. The Cambrian explosion featured eyes- one of the most powerful weapons in the battle of life. Humans are naked in part because of our advanced sensing and cognitive abilities. We don't need shells, scales, or even fur. We can see far away, into the future, and around corners. We can organize flexibly to defeat any opponent on the planet, to the point that we now pine for those monsters we have lost, and are still losing. Information is power.

Not only that, but biology is doubly about information, since life has not only persistently created computational machinery, it is a computational machine, with that four-bit code at its heart. While software developers have a cycle of [ write - test - fix ], biology uses reproduction to get around the fixing part. Good programs are replicated/manifested, bad ones die. The cycle is [ reproduce - test ]. That is it, with ineluctable variation thrown into the "reproduce" part of the process. Simplicity itself, but profoundly transformative to the Earth, not to mention creating the greatest computers currently in existence. Of course, some physicists will say the universe is a big computer as well. It is computers all the way down!

The Silicon Valley religion is, as all religions are, about ourselves, really, and the image of ourselves that we see and strive for. That is why the quest for artificial intelligence is so haunting. Originally, that vision was progressive- one that achieves the deep yearning of the defeat of all enemies, of poverty, of conflict, of limitation and bounded-ness. That achieves freedom. Does Amazon help us achieve freedom? Does Netflix? Yes, a little, and so the works and wonders keep coming, even though they may come out of decidedly unfree channels. And some of the leaders have, sadly, gone in a different direction, preaching freedom as libertarianism, coarseness, even racism.

So there is a dark side to this religion, as the powers of all this technology conjure up greed and conflict, surveillance and control. IBM's biggest customer was the government, after all, and it happily sold to Nazi Germany. Religions, especially ones that promise power, can turn bad, and they have to consitute an ongoing conversation that comes back to people, not technology, to determine what the future should look like. The Computer History Museum houses an immensely positive story, about people who helped us overcome age-old limitations and achieve incredible dreams. But look in the mirror- we are the real subjects and agents of this story.

• Corruption, lies, impunity.
• The Manchurian director of national intelligence.

Bad Faith

"Skepticism" about vaccines, or about evolution... isn't skepticism at all.

This was going to be a post about the Ediacaran epoch, which is a fascinating time, spanning the hundred million years before the Cambrian, when animals began to appear in the fossil record. First tentatively, as sessile sheets of tissue, then later as beautiful motile segmented discs (below), and later still as something a bit more aggressively shaped. All this is yet another (as though more were needed) justification of the overall scheme of evolution developed by Charles Darwin, who knew about what in his time was already a distinct and puzzling lack of animal fossils below the Cambrian strata. If one seeks data in good faith, and while pursuing a well-reasoned hypothesis, one is bound to find something interesting! Incidentally, David Attenborough and the BBC gave an excellent treatment of this era.

The beautiful, and slightly motile, Dickinsonia, from the mid-Ediacaran, about 560 million years ago.

Yet there are some who don't see things that way. Over at the Discovery institute, they don't discover anything, but they do write blogs taking potshots at science. No fossil is enough, no explanation is acceptable. There is always a question left to answer, a gap that has not been filled, wherein God can be squeezed. It is the essence of bad faith, arguing not from reason and evidence, but from a pre-existing truth that must be defended at all costs, particularly against an inveterate enemy which ignores them so assiduously. An enemy who publishes, and publishes, and for whom the God hypothesis is not even worth mentioning in the quest to explain how things happen. Who regards them and their arguments as beneath contempt.

Well, needless to say, they were all in for Trump. If one likes to argue in bad faith, why not vote for the master? The new administration doesn't seem to have much stomach for the Darwinian evolution culture war of decades past (though there are three years to go.. who knows!?). But they have been doing their best to destroy science in the US and put China in the lead for good. Whether it is climate science, medical science, space science, it is all being gutted. Diplomats and other experts? Who needs them? We have discarded our allies, and our best friends are now Victor Orban, Vladimir Putin, Muhammad bin Salman, and Bibi Netanyahu. Fairness and legality at the Justice Department? Who needs that? The theme is kicking intelligent, moral people in the teeth, to bring in a callous, greedy and corrupt new dispensation for the US. One of the more alarming and consequential elements of this campaign has been against vaccines. All the real scientists were thrown off the advisory panels, replaced with vaccine "skeptics". 

We in the US have a long history with vaccines. The revolutionary war featured solicitations for soldiers already vaccinated against (or recovered from) smallpox, the most frightening scourge of the army's camps. Later on, Washington approved mass vaccination for the army. Vaccination in that day (variolation) was no easy matter. It involved introducing someone else's smallpox into an opened vein, and taking all the risks of infection. It was lethal 1-2% of the time, but those were better odds than the 25% death rate from normally contracted small pox. These people knew how to assess risks, and took the vaccination risk to forestall the greater risk. Then there was the polio vaccine, in the 1950's, that wiped out another scourge. One would think that getting a vaccine made in record time that promptly resolved the Covid pandemic and saved millions of lives would have been greeted with a bit more appreciation. But no, it was all too easy to take that science for granted, and adopt bad faith arguments against that and other vaccines.

Today's vaccines still carry risk, though minuscule compared to variolation. The odds are incredibly good. It takes no brains at all to judge vaccines worthwhile. But we have "skeptics". Why do we have them? For the same reason that we have Donald Trump, or have believers in religion. Humans are gullible and seek easy truths over hard ones. It is easy to feel squeamish about getting an injection. It is easy to believe that a con man with enormous self-confidence and wealth has some degree of competence. And it is easy to believe that we as humans are special with some special someone running the universe who cares about our fate. Those are the easy truths, archetypally ingrained, apparently. It takes higher intellectual standards and discipline to look at reality and accept that many easy truths are not true at all. 

For all their religious faith, (and indeed because of it), the religious people who pervade the current administration, Supreme Court, and culture war strongholds routinely argue in bad faith. They are pre-selected for their ability to believe stupid and wrong things. They are not sincere in looking for evidence, or making logical arguments. They put forth laughable legal arguments. They hardly even bother to explain why the "endangerment finding" on CO2 is wrong on the merits. They care about loyalty ahead of competence. And do not even understand what might be systematically wrong about raging corruption. When faith (in their charismatic leader, or their warped religious convictions) comes first, intellect takes a back seat. That is the fundamental rule of this new dispensation in the US, and it will be damaging us for a very long time.

• Clowns in high places.
• History repeats, the second time as farce.
• An AI winter?
• To touch, or not to touch, in curling.
• The rich just keep getting richer.
• For three justices, the law has no meaning whatsoever.

Jonathan Singer and the Cranky Book

An eminent scientist at the end of his career writes out his thoughts and preoccupations.

Jonathan Singer was a famous scientist at my graduate school. I did not interact with him, but he played a role in attracting me to the program, as I was interested in biological membranes at the time. Singer himself studied with Linus Pauling, and they were the first to identify a human mutation in a specific gene as a cause for a specific disease- sickle cell disease. After further notable work in electron microscopy, he reached a career triumph by developing, in 1972, the fluid mosaic model of biological membranes. This revolutionized and clarified the field, showing that cells are bounded by something incredibly simple- a bilayer of phospholipids that naturally order themselves into a remarkably stable sheet, (a bubble, one might say), all organized by their charged headgroups and hydrophobic fatty tails. This model also showed that proteins would be swimming around freely in this membrane, and could be integrated in various ways, ether lightly attached on one side, or spanning it completely, thereby enabling complex channel and transporter functions. The model implied the typical length of a protein alpha helix that, by virtue of its hydrophobic side chains, would naturally be able to do this spanning function- a prediction that was spot-on. He could have easily won a Nobel for this work.

I was intrigued when I learned recently that Singer had written a book near the end of his career. It is just the kind of thing that a retired professor loves to do in the sunset of his career, sharing the wisdom and staving off the darkness by taking a stab at the book biz. And Singer's is a classic of the form- highly personal, a bit stilted, and ultimately meandering. I will review some of its high points, and then take a stab of my own at knitting together some of the interesting themes he grapples with.

For at base, Singer turns out to be a spiritual compadre of this blog. He claims to be a rationalist, in a world where, as he has it, no more than 9% of people are rational. Definition? It is the poll question of whether one believes that god created man, rather than the other way around. Singer recognizes that the world around him is crazy, and that the communities he has been a part of have been precious oases amid the general indifference and grasping of the world. But changing it? He is rather fatalistic about that, recognizing that reason is up against overwhelming forces.

His specific themes cover a great deal of biology, and then some more mystical reflections on balance and diversity in biology, and later, in capitalism and politics. He points out that the nature/nurture debate has been settled by twin studies. Nature, which is to say, genetics, is the dominant influence on human characteristics, including a wide variety of psychological traits, including intelligence. Environment and nurture is critical for reaching one's highest potential, and for using it in socially constructive ways, but the limits of that potential are largely set by one's genes. Singer does not, however, draw the inevitable conclusion from these observations, which is that some kind of long-term eugenic approach would be beneficial to our collective future, assuming machines do not replace us forthwith. Biologists know that very small selective coefficients can have big effects, so nothing drastic is needed. But what criteria to use- that is the sticky part. Just as success in the capitalist system hardly signals high moral or personal qualities, nor does incarceration by the justice system always show low ones. It is virtually an insoluble problem, so we muddle along, destined probably for continued cycles of Spenglerian civilizational collapse.

Turning to social affairs, Singer settles on "structural chaos" as his description of how the scientific enterprise works, and how capitalism at large works. With a great deal of waste, and misdirected effort, it nevertheless ends up providing good results- better than those that top-down direction can provide. He seems a sigh a little that "scientific" methods of social organization, such as those in Soviet Russia, were so ineffective, and that the best we can do is to muddle along with the spontaneous entrepreneurship and occasional flashes of innovation that push the process along. Not to mention the "monstrous vulgarity" of advertising, etc. Likewise, democracy is a mess, with most people totally incapable of making the reasoned decisions needed to maintain it. Again, the chaos of democracy is sadly the best we can do, and the duty of rational people, in Singer's view, is to keep alive the flame of intellectual freedom while outside pressures constantly threaten.

Art, and science.

What can we do with this? I think that the unifying thread that Singer was groping for was competition. One can frame competition as a universal principle that shapes the physical, biological, and social worlds. Put two children on a teeter-totter, and you can see how physical forces (e.g. gravitation) compete all the time, subtly producing equilibria that characterize the universe. Chemical equilibria are likewise a product of constant competition, even including the perpetual jostling of phospholipids to find their lowest energy configuration amidst the biological membrane bilayer, which has the side-effect of creating such a stable, yet highly flexible, structure. With Darwin, competition reaches its apotheosis- the endless proliferation, diversification, and selection of organisms. Singer marvels at the fragility of individual life, at the same time that life writ large is so incredibly durable and prolific. Well, the mechanism behind that is competition. And naturally, economics of any free kind, including capitalism and grant-making in science, are based on competition as well- the natural principle that selects which products are useful, which employees are productive, and which technologies are helpful. Waste is part of the process, as diversity amidst excess production is the essential ingredient for subsequent selection. 

And yet.. something is missing. The earth's biosphere would still be a mere bacterial soup if competition were the only principle at work. Bacteria (and their viruses) are the most streamlined competition machines- battlebots of the living world. It took cooperation between a bacterial cell and an archaeal cell to make a revolutionary new entity- the eukaryotic cell. It then took some more cooperation for eukaryotic cells to band together into bodies, making plants and animals. And among animals, cooperation in modest amounts provides for reproduction, family structure, flock structures, and even complex insect societies. It is with humans that cooperation and competition reach their most complex heights, for we are able to regulate ourselves, rationally. We make rules. 

Without rules, human society is anarchic mayhem- a trumpian, dystopian and corrupt nightmare. With them, it (ideally) balances competition with cooperation to harness the benefits of each. Our devotion to sports can be seen as a form of rule worship, and explicit management of the competitive landscape. Can there be too many rules? Absolutely, there are dangers on both sides. Take China as an example. In the last half-century, it revamped its system of rules to lower the instability of political competition, harness the power of economic competition, and completely transform its society. 

The most characteristic and powerful human institution may be the legislature, which is our ongoing effort to make rational rules regulating how the incredibly powerful motive force of competition shapes our lives. Our rules, in the US, were authored, at the outset, by the founders, who were- drumroll please- rationalists. To read the Federalist Papers is to see exquisite reasoning drawing on wide historical precedent, and particularly on the inspirations of the rationalist enlightenment, to formulate a new set of rules mediating between cooperation and competition. Not only were they more fair than the old rules, but they were designed for perpetual improvement and adjustment. The founding was, at base, a rationlist moment, when characters like Franklin, Hamilton, Madison, and Jefferson- deists at best and rationalists through and through, led the new country into a hopeful, constitutional future. At the current moment, two hundred and fifty years on, as our institutions are being wantonly destroyed and anything resembling reason, civility, and truth is under particularly vengeful attack, we should appreciate and own that heritage, which informs a true patriotism against the forces of darkness.

• Bill Mitchell on AI.
• How this drives politics.
• And can thought survive against an onslaught of slop?
• Paul Krugman on abasement.
• Is evil lack of religion, or too much religion?

My Religion is Star Trek

Denial of death and the origin of evil- Ernest Becker on religion.

I have always wondered about the purpose of clothes. Nudists obviously do as well. Sometimes you need to keep warm. But most of the time, clothes are a cultural convention full of signifiers of taste, status ... and something else. That something else is the illusion that we are not animals. Positively, absolutely, something wholly different and on another plane of existence. Not animals. 

Even a century and a half after Darwin explained that we are animals, there are plenty of people who cling to various stories of denial. But these stories have purposes that go well beyond this ontological illusion. Because not only are we animals, but we are animals without meaning. Animals that will die. That is, no meaning is given objectively. So just as we clothe our bodies with fabric, we clothe our spirits with illusions of meaning, for otherwise we could not live. 

I have been following a provocative podcast series, which spent a couple of episodes on Ernest Becker, a mid-20th century philosopher in the US. He posited that we all follow a religion, in the anthropological sense that we live in cultural structures that give us meaning. Structures that are fundamentally illusory, because there is no there there. Meaning has always been generated by us, for us, subjectively by our psychological proclivities for social connection and drama. We are psychologically adapted to make and seek meaning, though in the final analysis, however powerful they feel, these are all conjured, not given. Take Disney as an example. Many people get highly involved with, and take solace from, the narratives Disney puts out, in its parks, cruise ships, movies, merchandise, and other channels. Relentless provision of mechanically assembled archetypes and other psychological triggers that activate / soothe, inspire, and motivate apparently has a substantial market. 

While atheists take no end of potshots at the absurdities and hypocrisies of formal religions, they also live (and must live) in some sort of illusion themselves. The idea that learning and science makes for a more "objective" value system and life of meaning may be less absurd, but is no more objective. These values come with a rationale and a story, one of service to ultimately human ends of knowledge and betterment. But that doesn't make them true- just another set of values that must be gauged subjectively. And when measured by the ironic criterion of Darwinian success in promoting reproduction, they often turn out to be lacking. At the most basic level, getting through the day requires some kind of motivation, and that motivation, when it goes beyond the most animal requirements, requires meaning, which requires us to have some story that narrates a purpose to a life whose end is otherwise irredeemably meaningless. 

There is a problem, however, to Becker. The more enveloping and functional the narrative of meaning, the more any competing narrative becomes alien and threatening. Indeed, threatening narratives become evil. Thus Judaism became the nemesis of Christianity, and Catholicism that of Protestantism. If the meaning of our lives, in a spiritual and eternal sense, is devalued by another story that has competing status, there is no limit to our horror at its doctrines or our dehumanization of its adherents. Thence to crusades, religious wars, pogroms, and the delicately named "communal violence". The management of narratives of meaning thus is perhaps the most critical aspect of human affairs, as all religious leaders have known forever.

One can see the US civil war through this lens. The people of the South, wedded to slavery, justified it through their theology and culture. They were mortally offended by the busybodies of the North who dared cast aspersions on their moral narratives and justifications, not to mention their economic basis. Where "Uncle Tom's Cabin" may have broken through the indifference of Northern culture, it was met with outrage in the South- a stout defense of their powerful cultural and religious narratives. The conflict was spiritual and existential.

Becker did not have terribly novel solutions to the problems of meaning and counter-meaning. Just the meta prescription that arose in the enlightenment, secularism and in all the branches of modern psychology. Which is that understanding this dynamic and taking one's stories less seriously is the path to social peace. It may not be the path to optimal personal meaning, however. How do you compare the smorgasbord of Disney, mainline religion, Western Buddhism, science, and a thousand other sects and value systems to a traditional society with one church, one story, and one universe? The power of social and spiritual unity must have been tremendously validating and comfortable. So there has been a big tradeoff to get to our current state of social and spiritual innovation, plurality, and anomie. It is evident that our political moment is one of deep spiritual revanchism- of revulsion (by the more traditional-minded) against all this plurality, back towards a more benighted unity.

• Only Catholics go to heaven.
• Religious zealots have no clue whatsoever.
• Homelessness as a problem of affluence, gentrification, and too-good policing.
• But crime in DC? We know where that is.
• Cutting off our health to spite our libtards.
• The state of cars.

A Very French Star Wars

Bruno Dumont's "The Empire" touches on the true meaning of Sci Fi. (Spoiler alerts!)

The online reviews are not very good, but to me, this film was both hilarious and profound. A bunch of scuzzy French villagers go about their normal business, fishing, arguing, flirting, driving around. Then, though the magic of acting, they betray another plot entirely. Some are extraterrestrials just taking human form, deeply engaged in some cosmic battle and sponsored by hulking space ships above, in the heavens. The kicker is that the space ship is topped by ... a gothic cathedral. At first, this just seems like a hilarious way to cut special effects expenses. Why not use the local cathedral to shoot the space ship interiors?!? But as you revolve all this in your mind, it starts to appear as though Dumont is making a more interesting point.

By the traditional theological story, aren't we all extra-terrestrials, trapped in human bodies, constantly fighting with the flesh and destined to return to a better realm? Conversely, isn't the standard science fiction story full of magical wonders and grand dramas and theologies? What if religion and science fiction are ultimately, as L. Ron Hubbard appreciated, the same thing? Transporter, resurrection; medical miracle, laying on of hands; Borg, Satan; tomato, tomahto. 

Unfortunately, sometimes the humanity takes charge, sex first and foremost fouling up the neat good vs bad dynamic. In the plot, neither side really does anything bad or good, reinforcing the absurdity of a film that comes off as a sort of French Terry Gilliam masterpiece. The "1"s come from the flying gothic cathedral and think of themselves as good, while the "0"s come from a flying Versailles, (which makes for a particularly ungainly space ship), and know they are demons. But they are all equally distracted by those human bodies.

The ending was, as far as I understood it, a disappointment. The armadas of mini-cathedral and mini-Versailles fighters are lined up for the final battle, à la Star Wars. But suddenly, they all get sucked into a wormhole, and ... end of film. It is almost as though Dumont holds out hope that there is a real deity, or at least higher being out there, to save humanity from this battle between these wonderfully absurdist extra-terrestrials. After the wind dies down, the local policemen and villagers are left to puzzle over the wreckage, and what these signs and wonders could have meant.

• Yes, the nutbars are still at it.
• Trump remains a useful idiot, but not for us.
• And the ultimate goals are becoming clearer.
• Inequality? Give me more of that, please.
• What humans have wrought.

Jews Demand Signs and Greeks Look for Wisdom, but We Preach Christ Crucified

Review of God of the Mind, by Rob Haskell

This blog had its start in a religious discussion, pitting a Christian perspective against an atheist one. That discussion never ended because these viewpoints inevitably talk past each other, based as they are on fundamentally different epistemologies and axioms. Is truth facts, or is it a person? Does it have a capital "T", or a little "t"? Does reality come first, or does faith? With this election, this conflict, usually politely ignorable at the cultural sidelines, has come front and center, as half the country has transferred a Christian style of reasoning to politics, with catastrophic consequences.

I very much wish I had had this book by Rob Haskell back in the day. It lays out in a concise and thorough way all (well, let's say many of) the philosophical and psychological deficiencies of god-belief. It is hands-down the best discussion I have ever read on the subject- well-written, with humor and incisive insight. For example, he provides the bible quote that I have used to title this post, in a discussion of Christianity's approach to reason and intellect. While reams of theology support Christianity with reasons, at the end of the day, any honest theologian and Christian thinker will say that reason doesn't get you there. Faith needs to come first. Only then does all else follow. And this "all" is laced with superstition, suspension of normal rules of evidence, submission to authority, and a need to convert the whole world to the same system of belief. It is, implicitly, a preference for unity and power over truth. No wonder they were marks for the charismatic authority of Donald Trump.

One of the most disturbing aspects of the whole debate is the moralism that creeps into what is ostensibly a reasoned discussion of viewpoints and philosophy. If one does not accept god, Christians have been taught to believe that there is a reason. Not a logical reason, but a moral reason. Depravity is a word that comes up. Lack of belief betrays a moral failure, because god is the foundation of all moral law (those twelve commandments!). Those outside the fold merely want their false freedom to enjoy debauchery and crime, without the nagging conscience, which is apparently implanted not by god at birth, (let alone by evolution, or by moral reasoning), but by regular sermons, loudly professed faith, and bible reading. A bible, we might note, that is full of militarism, sexual abuse, deceit, and political authoritarianism. The whole proposition is absurd, from the ground up, unless, of course, you are of the religious tribe, in which case it has an irresistible logic and allure.

No wonder Christians feel good, right, and justified. And feel a birthright to rule over all, to claim that the US is (or should be) a Christian nation. One where resistance to its moral imperatives would, at last, be futile.

But here we are, getting off track! Rob Haskell is a former protestant missionary and minister, graduate of Regent College, and came to his new positions through deep personal engagement and turmoil. He knows intimately of which he speaks. An interesting aspect of his book is that he is almost more focused on psychology than on philosophy. For it is psychology that drives religious conversion, drives people to prostrate themselves before the void, and drives a faith that calls itself truth. Without the indoctrination by families, for example, no religion would amount to much- certainly not Christianity. And indoctrination of the young is obviously a highly irrational process, combining the most powerful psychological forces known- peer pressure, parental pressure, authority, tradition, community, repetition, fancy costumes. Who could resist? And yet Christians have no problem claiming that the result of all this is belief in truth, with a capital T. 

Haskell recounts an educational experience he had inviting Mormon missionaries to an extended discussion of why he should take up Mormonism. They tout the book of Mormon, which Haskell knows very well is a absurd fabric of early nineteenth century prejudices and speculations. They tout the archeological work a few believers have undertaken to prove their scripture, which is highly dubious, to say the least. But at last, when reason fails and argument slackens, Haskell is urged to pray. Pray hard enough, and the light is sure to shine. And for Mormons, brought up with all the pressures and templates ready-made for their belief, such prayer is very likely to work, activating the archetypes and feelings conducive to agreement with their culture. Will the story or the prayer work for others? Rarely, but occasionally it does strike a nerve, especially in the psychologically vulnerable. Haskell recognizes, uncomfortably, that while the stories are different, the psychological methods used by the Mormons and by him as a missionary are eerily similar.

"This points back to what I've already described, namely that in evangelical thinking, and possibly in all religious thinking, the acceptance of certain crucial and non-negotiable ideas comes first. Then, after that acceptance comes the search for evidence that supports it. But that evidence always gets the short end of the stick. Evidence is great when it affirms the things that are accepted by faith. But here isn't a lot of interest in evangelical circles in evidence itself, or in thinking clearly about evidence. And when the evidence falls short, the believer goes back to where it all started: not evidence but faith. So, it's really a matter of wanting to have your cake and eat it too. There's a built-in permission to be sloppy. 'We like evidence!' says the evangelical, 'so long as it proves our point. but when the evidence brings up difficult questions, we reserve the right to toss it out and appeal to faith.' ... How can you have a serious conversation with someone who thinks like this? It's like talking with your teenager."

Rationalization and confirmation bias are fundamental aspects of human psychology. Science has developed an organized and reasonably effective way to address it, but other institutions have not, notably the echo chambers of current news and social media. We do it all the time, (I am certainly doing it here), and it is no wonder that Christians do it too. The problem is the lack of humility, where Christians revel in their fantastical story, impugn anyone so dense (if not evil) as to not get it, and twist the very vocabulary of epistemology in order to declare that "Truth" comes, not out of reality, but precisely out of unreality- a faith that is required to believe in things unseen and tales thrice-told.

• And he writes a blog, too.
• Example of typical religious condescension, by J D Vance's mentor, James Orr.
• The Discovery Institute will try anything...
• Then there is the no true Scotsman defense.
• The Supreme Court lowers itself still further.
• What makes a human brain?
• We continue speeding ever faster to disaster.
• Poisonous propaganda + AI = our future.

Damned if You do, Damned if You Don't

The Cherokee trail of tears, and the Palestinian conundrum.

History is a long and sad tale of conflict, interspersed with better times when people can put their animosities aside. Just as economics deals in scarcity and its various solutions, history likewise turns on our inevitable drive towards overpopulation, with resulting scarcity and conflict. Occasionally, special technological, spiritual, organizational achievements- or catastrophes- may allow periods of free population growth with its attendant bouyant mood of generosity. But more commonly, groups of people covet each other's resources and plot ways to get them. This was one of the lessons of Malthus and Darwin, who addressed the deeper causes of what we see as historical events.

The "New World" provided Europeans with an unprecedented release for their excess populations, especially the malcontented, the desperate, and the ambitious. They rhapsodized about the "virgin" lands that lay open, generally dismissing the numerous and well-organized natives present all over these lands, as "savages", occupying a lower technological and theological level of existence. There were plenty of rationalizations put forth, like Christianizing the natives, or "civilizing" them. But the hypocrisy of these formulations becomes clear when you consider the fate of the Cherokees, one of the "five civilized tribes". 

By the early 1800's, a couple of centuries of contact had already gone under the bridge, (as narrated by Pekka Hämäläinen in "Indigenous continent"), and native Americans were all integrated to various degrees in trading networks that brought them European goods like guns, pots, knives, and novel practices like horse riding. The Cherokees, occupying the lower Appalachians and piedmont between what is now Georgia and Alabama, were more integrated than most, adopting European farming, living, schooling, and governing practices. They even owned African American slaves, and wrote themselves a US-modeled constitution in 1827, in the script devised the scholar Sequoya.

Did this "progress" toward assimilation with the European culture help them? Far from! Their excellence in farming, literacy, and government raised fears of competition in the white colonists, and the Georgia state government lobbied relentlessly for their removal. Andrew Jackson finally obliged. He pressured the Cherokees to re-open their status as a settled nation, devised a removal treaty with a minority party, and then sent all the Cherokees in the region (about 16,000) off on the Trail of Tears, to the barren lands of Oklahoma. These Cherokees lost roughly a quarter of their population along the way, in a brutal winter. Compare this with the partition of India, where about twelve percent of the refugees are thought to have perished, out of roughly 16 million total.

A small part of the annals of ethnic cleansing, US edition. Needless to say, the "Indian territory" ended up a lot smaller than originally promised.

 

Georgia was thus ethnically cleansed, and does not seem to experience a great deal of regret about it. The logic of power is quite simple- the winner gets the land and spoils. The loser is lucky to not be killed. That the Europeans were significantly more powerful than their native antagonists doesn't change the logic, though it might appeal to our empathy and nostalgia in retrospect. The Cherokees and other Native Americans might have been accepted into US society. They might have been given one or two states for their sovereign governments, as the Mormons managed. There were a lot of possibilities that might have made us a more interesting and diverse nation. But at the same time, most Native Americans participated fully in the politics of power, terrorizing each other, making slaves of each other, and killing each other. They were not innocents. So the fact that they came up against a stronger power was hardly a novelty, though in this case that power was blundering and cruel, shared very few of their cultural coordinates, and was highly hypocritical about its own.

All this comes to mind when viewing the Israeli-Palestinian conflict. Israel won the major Middle East wars that so dramatically emasculated the Palestinians, first in the civil war that left Jordan and Egypt in charge of the Palestinian areas, then in the 1967 war that left all these areas in Israeli hands. But what to do with them? On founding, Israel was a liberal, New Testament kind of country, with humanist values and lefty kibbutzim. The then-recent Holocaust also caused a bit of hesitance when it came to either killing or exiling the losing Palestinians. Indeed, given that its neighbors Jordan and Egypt lost these wars, it would have made some sense at that time to deport all the Palestinians, of which there were about one to two million. But rather than do that, or make a firm border, Israel immediately started encroaching into Palestinian territory with security areas and "settlements", and has set up an ever more elaborate, though selectively porous and self-serving, security and boundary system.

Both sides have a schizophrenic reaction to the other. On the Palestinian side, the psychology of losing has meant quietism and acquiescence by some, but resentment and militantcy by others. Both lead to a spiral of worse treatment, the weakness of the former inviting abuse, and the desperate depredations of the latter inciting revenge, "security" measures, and tighter occupation. The provocations by each side are unendurable, and thus the situation deteriorates. Yet, in the end, Israel has all the power and the responsibility to come up with a long term solution. Over the decades, Israel has morphed from its founding ethos into something much more conservative and Old Testament, less beholden to the humanisitic ideals of the post-WW2 period. The wanton killing, starvation, and collective punishment of Gaza makes visible this moral breakdown.

The Palestinians can't win either way, either through Hamas's implacable hatred and impotent attacks, nor through the acquiescence of the Palestinian National Authority, which, in thanks for its good behavior, has received the creeping expansion of Israeli "settlements" on its land. These now take up, according to a detailed map, about 1/3 to 1/2 of the land of the West Bank. Overall, the options are: 1) to expel the Palestinians outright, which appears to be, for Gaza at least, where Israeli policy is heading, (made more ironic by the realization by historians that the Biblical Exodus never actually took place), or 2) to continue to muddle along in a torturous occupation with creeping dispossession, or 3) to grant Palestine some kind of autonomy and statehood. Assimilation, (4), long dreamt of by some, seems impossible for a state that is fundamentally an ethnic (or theological) state, and whose whole raison d'etre is ethnic separation, not to even mention the preferences of the Palestinians. Though perhaps assimiliation without voting rights, in sort of semi-slavery or apartheid, is something the Israelies would be attracted to? Perhaps insignia will need to be worn by all Palestinians, sewn to their clothing?

Map of the West Bank of the Jordan, color coded by Palestinian marginal control in brown, and settler/Israeli control in red.

What should happen? Indigenous Americans were infected, decimated, hunted down, translocated, re-educated, and confined to a small and very remote system of reservations. Hopefully we have have progressed a little since then, as a largely European civilization, which is putatively shared by Israel. Thus the only way forward, as is recognized by everyone outside Israel, is the two-state solution, including a re-organization of the Palestinian territories into a final, clearly demarked, and contiguous state. Israel's current political system will never get there. But we can help the process along in a few ways.

First, it is disappointing to see our current administration shipping arms to Israel at a furious pace, only to see them used to kill thousands of innocent, if highly resentful, civilians. Israel has plenty of its own money to buy whatever it needs elsewhere. We need to put some limitations on our military and other aid relationships, to motivate change. (Though that raises the question of Israel's increasingly cozy relationship with Russia). Second, we should recognize Palestine as a state, and bring forward its integration into the international system. This will not resolve its borders or myriad security and territory issues viz Israel, but it would helpfully motivate things in that direction. Israel has constantly cried wolf about the lack of a credible partner to negotiate with, but that is irrelevant. Israel is perfectly capable of building the walls it needs to keep Palestinians at bay. But then it wants pliant workers as well, and a peaceful neighbor, security viz Jordan and Egypt, territorial encroachments, and many other things that are either destructive, or need to be negotiated. 

By far the most constructive thing that could be done is to freeze and re-organize the Jewish settlements and other periphernalia that have metastasized all over the West Bank. There is no future without a decent and fair solution in territory, which is the third big thing we need to press- our own detailed territorial plan for Palestine. For one thing, Israel could easily vacate the whole corridor / valley facing Jordan. That would give a consolidated Palestine a working border with a country that is now peaceful, quite well run, and friendly to both sides. There are countless possible maps. We just need to decide on one that is reasonably fair and force it on both sides, which are each, still after all these years, apparently unwilling to imagine a true peace. This means principally forcing it on Israel, which has been the dominant and recalcitrant party the entire time.

The Cherokees are now one of the largest indigenous populations in the US, at roughly a quarter million, with their own territory of about seven thousand square miles in Oklahoma. They have internal and partial sovereignty, which means that they deal with their own affairs on a somewhat independent basis, but otherwise are largely subject to most laws of the enclosing governments. The Cherokees could easily have been assimilated into the US. Only racism stood in the way, in a mindset that had long descended into a blind and adversarial disregard of all native Americans as "others", (the irony!), competitive with and less than, the newly arrived immigrants. We could have done much better, and one would like to think that, a hundred or a hundred and fifty years on, we would have.

In the end, the West (read as European civilization, as developed out of the ashes of World War 2) is either for or against wars of aggression, ethnic cleansing, apartheid, and human rights. Israel has won its wars, but never faced up to its responsibilities to the conquered Palestinians, and has tried to have it both ways, to be viewed by the world as a modern, enlightened state, even as it occupies and slowly strangles the people it defeated decades ago. 

• Slovenly strategic thinking. But really, visionless long-term politics.
• One Gazan speaks.
• Settler colonialism.
• Who's the victim?
• Shades of Scientology ... the murky networks of the deep evangelical state.
• In California, solar still makes sense.

Empty Skepticism at the Discovery Institute

What makes a hypothesis scientific, vs a just-so story, or a religious fixation?

"Intelligent" design has fallen on hard times, after a series of court cases determined that it was, after all, a religious idea and could not be foisted on unsuspecting schoolchildren, at least in state schools and under state curricula. But the very fact of religious motivation leads to its persistence in the face of derision, evidence, and apathy. The Discovery Institute, (which, paranthetically, does not make any discoveries), remains the vanguard of intelligent design, promoting "skepticism", god, alternative evolutionary theories, and, due to the paucity of ways to attack evolution, tangential right-wingery such as anti-vaccine agitation. By far their most interesting author is Günter Bechly, who delves into the paleontological record to heap scorn on other paleontologists and thereby make room for the unmentioned alternative hypothesis ... which is god.

A recent post discussed the twists and turns of ichthyosaur evolution. Or should we say biological change through time, with unknown causes? Ichthyosaurs flourished from about 250 million years ago (mya) to 100 mya, with the last representatives dated to 90 mya. They were the reptile analogs of whales and dophins, functioning as apex predators in the ocean. They were done in by various climate crises well-prior to the cometary impact that ended the Cretaceous and the reign of dinosaurs in general.

Bechly raises two significant points. First is the uncertain origins of Ichthyosaurs. As is typical with dramatic evolutionary transitions like that from land to water in whales, the time line is compressed, since there are a lot of adaptations that are desirable for the new environment that might have been partially pre-figured, but get fleshed out extensively with the new ecological role and lifestyle. Selection is presumably intense and transitional fossils are hard to find. This was true for whales, though beautiful transitional fossils have been found more recently. And apparently this is true for the Ichthyosaurs as well, where none have been found, yet. There is added drama stemming from the time of origin, which is right after the Permian exinction, perhaps the greatest known extinction event in the history of the biosphere. Radiations after significant extinction events tend to be rapid, with few transitional fossils, for the same reason of new niches opening and selection operating rapidly.

Ichthyosaur

Bechly and colleagues frequently make hay out of gaps in the fossil record, arguing that something (we decline to be more specific!) else needs to be invoked to explain such lack of evidence. It is a classic god of the gaps argument. But since the fossils are never out of sequence, and we are always looking at millions of years of time going by with even the slimmest layers of rock, this is hardly a compelling argument. One thing that we learned from Darwin's finches, and the whole argument around punctuated equilibrium, is that evolution is typically slow because selection is typically not directional but conservative. But when selection is directional, evolution by natural selection can be startlingly fast. This is an argument made very explicitly by Darwin through his lengthy discussions of domestic species, whose changes are, in geological terms, instant. 

But Bechly makes an additional interesting argument- that a specific hypothesis made about ichthyosaurs is a just-so story, a sort of hypothesis that evolutionary biologists are very prone to make. Quite a few fossils have been found of ichthyosaurs giving birth, and many of them find that the baby comes out not only live (not as an egg, as is usual with reptiles), but tail-first. Thus some scientists have made the argument that each are adaptations to aquatic birth, allowing the baby to be fully borne before starting to breathe. Yet Bechly cites a more recent scientific review of the fossil record that observes that tail-first birth is far from universal, and does not follow any particular phylogenetic pattern, suggesting that it is far from necessary for aquatic birth, and thus is unlikely to be, to any significant extent, an adaptation. 

Ha! Just another story of scientists making up fairy tales and passing them off as "science" and "evolutionary hypotheses", right?  

"Evolutionary biology again and again proves to be an enterprise in imaginative story-telling rather than hard science. But when intelligent design theorists question the Darwinist paradigm based on empirical data and a rational inference to the best explanation, they are accused of being science deniers. Which science?" ... "And we will not let Darwinists get away with a dishonest appeal to the progress of science when they simply rewrite their stories every time conflicting evidence can no longer be denied."

Well, that certainly is a damning indictment. Trial and sentencing to follow! But let's think a little more about what makes an explanation and a hypothesis, on the scientific, that is to say, empirical, level. Hypotheses are always speculative. That is the whole point. They try to connect observations with some rational or empirically supported underlying mechanism / process to account for (that is, explain) what is observed. Thus the idea that aquatic birth presents a problem for mammals who have to breathe represents a reasonable subject for an hypothesis. Whether headfirst or tailfirst, the baby needs to get to the surface post haste, as soon as its breathing reflex kicks in. While the direction of birth doesn't seem to the uninitiated (and now, apparently to experts with further data at hand) to make much difference, thinking it does is a reasonable hypothesis, based on obvious geometric arguments and biological assumptions, that it is possible that the breathing reflex is tied to emergence of the head during birth, in which case coming out tailfirst might delay slightly the time it takes between needing to breathe and being able to breathe. 

This argument combines a lot of known factors- the geometry of birth, the necessity of breathing, the phenomenon of the breathing reflex initiating in all mammals very soon after birth, by mechanisms that doubtless are not entirely known, but at the same time clearly the subject of evolutionary tuning. And also the paleontological record. Good or bad, the hypothesis is based on empirical data. What characterizes science is that it follows a disciplined road from one empirically supported milestone to the next, using hypotheses about underlying mechanisms, whether visible or not, which abide by all the known/empirical mechanisms. Magic is only allowed if you know what is going on behind the curtain. Unknown mechanisms can be invoked, but then immediately become subjects of further investigation, not of protective adulation and blind worship.

In contrast, the intelligent design hypothesis, implicit here but clear enough, is singularly lacking in any data at all. It is not founded on anything other than the sentiment that what has clearly happened over the long course of the fossil record operates by unknown mechanisms, by god operating pervasively to carry out the entire program of biological evolution, not by natural selection (a visible and documented natural process) but by something else, which its proponents have never been able to demonstrate in the least degree, on short time scales or long. Faith does not, on its own, warrant novel empirical mechanisms, and nor does skeptical disbelief warrant them. Nor does one poor, but properly founded, hypothesis that is later superceded by more careful analysis of the data impugn the process of science generally or the style of evolutionary thinking specifically.

Imagine, for example, if our justice system operated at this intellectual level. When investigating crimes, police could say that, if the causes were not immediately obvious, an unnamed intelligent designer was responsible, and leave it there. No cold cases, no presumption of usual natural causality, no dogged pursuit of "the truth" by telegenic detectives. Faith alone would furnish the knowledge that the author of all has (inscrutibly) rendered "his" judgement. It would surely be a convenient out for an over-burdened and under-educated police force!

Evolution by natural selection requires a huge amount of extrapolation from what we know about short time scales and existing biology to the billions of years of life that preceeded us. On the other hand, intelligent design requires extrapolation from nothing at all- from the incredibly persistent belief in god, religion, and the rest of the theological ball of wax not one element of which has ever been pinned down to an empirical fact. Believers take the opposite view solely because religious propaganda has ceaselessly drilled the idea that god is real and "omnipotent" and all-good, and whatever else wonderful, as a matter of faith. With this kind of training, then yes, "intelligent" design makes all kinds of sense. Otherwise not. Charles Darwin's original hypothesis was so brilliant because it drew on known facts and mechanisms to account (with suitable imagination and extrapolation) for the heretofore mysterious history of biology, with its painfully slow yet inexorable evolution from one species to another, one epoch to another. Denying that one has that imagination is a statement about one's intelligence, no matter how it was designed.

• Only god can give us virulent viruses.
• The priest who knew it so well, long ago.
• A wonderful Native American Film- Dance me outside.
• With a wonderful soundtrack, including NDN Kars.
• We need to come clean on Taiwan.
• Appeasers, cranks, and fascist wannabes.
• Vaccines for poor people are not profitable.
• California is dumbing down math, and that will not help any demographic.

Everything is Alive, but the Gods are all Dead

Barbara Ehrenreich's memoir and theological ruminations in "Living with a Wild God".

It turns out that everyone is a seeker. Somewhere there must be something or someone to tell us the meaning of life- something we don't have to manufacture with our own hands, but rather can go into a store and buy. Atheists are just as much seekers as anyone else, only they never find anything worth buying. The late writer Barbara Ehrenreich was such an atheist, as well as a remarkable writer and intellectual who wrote a memoir of her formation. Unusually and fruitfully, it focuses on those intense early and teen years when we are reaching out with both hands to seize the world- a world that is maddeningly just beyond our grasp, full of secrets and codes it takes a lifetime and more to understand. Religion is the ultimate hidden secret, the greatest mystery which has been solved in countless ways, each of them conflicting and confounding.

Ehrenreich's tale is more memoir than theology, taking us on a tour through a dysfunctional childhood with alcoholic parents and tough love. A story of growth, striking out into the world, and sad coming-to-terms with the parents who each die tragically. But it also turns on a pattern of mystical experiences that she keeps having, throughout her adult life, which she ultimately diagnoses as dissociative states where she zones out and has a sort of psychedelic communion with the world.

"Something peeled off the visible world, taking with it all meaning, inference, association, labels, and words. I was looking at a tree, and if anyone had asked, that's what I would have said I was doing, but the word "tree" was gone, along with all the notions of tree-ness that had accumulated in the last dozen years or so since I had acquired language. Was it a place that was suddenly revealed to me? Or was it a substance- the indivisible, elemental material out of which the entire known and agreed-upon world arises as a fantastic elaboration? I don't know, because this substance, this residue, was stolidly, imperturbably mute. The interesting thing, some might say alarming, was that when you take away all the human attributions- the words, the names of species, the wisps of remembered tree-related poetry, the fables of photosynthesis and capillary action- that when you take all this this away, there is still something left."

This is not very hard to understand as a neurological phenomenon of some kind of transient disconnection of just the kind of brain areas she mentions- those that do all the labeling, name-calling, and boxing-in. In schizophrenia, it runs to the pathological, but in Ehrenreich's case, she does not regard it as pathological at all, as it is always quite brief. But obviously, the emotional impact and weirdness of the experience- that is something else altogether, and something that humans have been inducing with drugs, and puzzling over, forever. 

Source

As a memoir, the book is very engaging. As a theological quest, however, it doesn't work as well, because the mystical experience is, as noted above, resolutely meaningless. It neither compels Ehrenreich to take up Christianity, as after a Pauline conversion, nor any other faith or belief system. It offers a peek behind the curtain, but, stripped of meaning as this view is, Ehrenreich is perhaps too skeptical or bereft of imagination to give it another, whether of her own or one available from the conventional array of sects and religions. So while the experiences are doubtless mystical, one can not call them religious, let alone god-given, because Ehrenreich hasn't interpreted them that away. This hearkens back to the writings of William James, who declined to assign general significance to mystical experiences, while freely admitting their momentous and convincing nature to those who experienced them.

Only in one brief section (which had clearly been originally destined for an entirely different book) does she offer a more interesting and insightful analysis. There, Ehrenreich notes that the history of religion can be understood as a progressive bloodbath of deicide. At first, everything is alive and sacred, to an animist mind. Every leaf and grain of sand holds wonders. Every stream and cloud is divine. This is probably our natural state, which a great deal of culture has been required to stamp out of us. Next is a hunting kind of religion, where deities are concentrated in the economic objects (and social patterns) of the tribe- the prey animals, the great plants that are eaten, and perhaps the more striking natural phenomena and powerful beasts. But by the time of paganism, the pantheon is cut down still more and tamed into a domestic household, with its soap-opera dramas and an increasingly tight focus on the major gods- the head of the family, as it were. 

Monotheism comes next, doing away with all the dedicated gods of the ocean, of medicine, of amor and war, etc., cutting the cast down to one. One, which is inflated to absurd proportions with all-goodness, all-power, all-knowledge, etc. A final and terrifying authoritarianism, probably patterned on the primitive royal state. This is the phase when the natural world is left in the lurch, as an undeified and unprotected zone where human economic greed can run rampant, safe in the belief that the one god is focused entirely on man's doings, whether for good or for ill, not on that of any other creature or feature of the natural world. A phase when even animals, who are so patently conscious, can, through the narcissism of primitive science and egoistic religion, be deemed mere mechanisms without feeling. This process doesn't even touch on the intercultural deicide committed by colonialism and conquest.

This in turn invites the last deicide- that by rational people who toss aside this now-cartoonish super-god, and return to a simpler reverence for the world as we naturally respond to it, without carting in a lot of social power-and-drama baggage. It is the cultural phase we are in right now, but the transition is painfully slow, uneven, and drawn-out. For Ehrenreich, there are plenty of signs- in the non-linear chemical phenomena of her undergraduate research, in the liveliness of quantum physics even into the non-empty vacuum, in the animals who populate our world and are perhaps the alien consciousnesses that we should be seeking in place of the hunt through outer space, and in our natural delight in, and dreams about, nature at large. So she ends the book as atheist as ever, but hinting that perhaps the liveliness of the universe around us holds some message that we are not the only thinking and sentient beings.

"Ah, you say, this is all in your mind. And you are right to be skeptical; I expect no less. It is in my mind, which I have acknowledged from the beginning is a less than perfect instrument. but this is what appears to be the purpose of my mind, and no doubt yours as well, its designed function beyond all the mundane calculations: to condense all the chaos and mystery of the world into a palpable Other or Others, not necessarily because we love it, and certainly not out of any intention to "worship" it. But because ultimately we may have no choice in the matter. I have the impression, growing out of the experiences chronicled here, that it may be seeking us out." 

Thus the book ends, and I find it a rather poor ending. It feels ripped from an X-Files episode, highly suggestive and playing into all the Deepak and similar mystical tropes of cosmic consciousness. That is, if this passage really means much at all. Anyhow, the rest of the trip is well worth it, and it is appropriate to return to the issue of the mystical experience, which is here handled with such judicious care and restraint. Where imagination could have run rampant, the cooly scientific view (Ehrenreich had a doctorate in biology) is that the experiences she had, while fascinating and possibly book-proposal-worthy, did not force a religious interpretation. This is radically unlike the treatment of such matters in countless other hands, needless to say. Perhaps our normal consciousness should not be automatically valued less than more rare and esoteric states, just because it is common, or because it is even-tempered.

• God would like us to use "they".
• If you are interested in early Christianity, Gnosticism is a good place to start.
• Green is still an uphill battle.

A Gene is Born

Yes, genes do develop out of nothing.

The "intelligent" design movement has long made a fetish of information. As science has found, life relies on encoded information for its genetic inheritance and the reliable expression of its physical manifestations. The ID proposition is, quite simply, that all this information could not have developed out of a mindless process, but only through "design" by a conscious being. Evidently, Darwinian natural selection still sticks on some people's craw. Michael Behe even developed a pseudo-mathematical theory about how, yes, genes could be copied mindlessly, but new genes could never be conjured out of nothing, due to ... information.

My understanding of information science equates information to loss of entropy, and expresses a minimal cost of the energy needed to create, compute or transmit information- that is, the Shannon limits. A quite different concept comes from physics, in the form of information conservation in places like black holes. This form of information is really the implicit information of the wave functions and states of physical matter, not anything encoded or transmitted in the sense of biology or communication. Physical state information may be indestructable (and un-create-able) on this principle, but coded information is an entirely different matter.

In a parody of scientific discussion, intelligent design proponents are hosted by the once-respectable Hoover Institution for a discussion about, well, god.

So the fecundity that life shows in creating new genes out of existing genes, (duplications), and even making whole-chromosome or whole-genome duplications, has long been a problem for creationists. Energetically, it is easy to explain as a mere side-effect of having plenty of energy to work with, combined with error-prone methods of replication. But creationistically, god must come into play somewhere, right? Perhaps it comes into play in the creation of really new genes, like those that arise from nothing, such as at the origin of life?

A recent paper discussed genes in humans that have over our recent evolutionary history arisen from essentially nothing. It drew on prior work in yeast that elegantly laid out a spectrum or life cycle of genes, from birth to death. It turns out that there is an active literature on the birth of genes, which shows that, just like duplication processes, it is entirely natural for genes to develop out of humble, junky precursors. And no information theory needs to be wheeled in to show that this is possible.

Yeast provides the tools to study novel genes in some detail, with rich genetics and lots of sequenced relatives, near and far. Here is portrayed a general life cycle of a gene, from birth out of non-gene DNA sequences (left) into the key step of translation, and on to a subject of normal natural selection ("Exposed") for some function. But if that function decays or is replaced, the gene may also die, by mutation, becoming a pseudogene, and eventually just some more genomic junk.

The death of genes is quite well understood. The databases are full of "pseudogenes" that are very similar to active genes, but are disabled for some reason, such as a truncation somewhere or loss of reading frame due to a point mutation or splicing mutation. Their annotation status is dynamic, as they are sometimes later found to be active after all, under obscure conditions or to some low level. Our genomes are also full of transposons and retroviruses that have died in this fashion, by mutation.

Duplications are also well-understood, some of which have over evolutionary time given rise to huge families of related proteins, such as kinases, odorant receptors, or zinc-finger transcription factors. But the hunt for genes that have developed out of non-gene materials is a relatively new area, due to its technical difficulty. Genome annotators were originally content to pay attention to genes that coded for a hundred amino acids or more, and ignore everything else. That became untenable when a huge variety of non-coding RNAs came on the scene. Also, occasional cases of very small genes that encoded proteins came up from work that found them by their functional effects.

As genome annotation progressed, it became apparent that, while a huge proportion of genes are conserved between species, (or members of families of related proteins), other genes had no relatives at all, and would never provide information by this highly convenient route of computer analysis. They are orphans, and must have either been so heavily mutated since divergence that their relationships have become unrecognizable, or have arisen recently (that is, since their evolutionary divergence from related species that are used for sequence comparison) from novel sources that provide no clue about their function. Finer analysis of ever more closely related species is often informative in these cases.

The recent paper on human novel genes makes the finer point that splicing and export from the nucleus constitute the major threshold between junk genes and "real" genes. Once an RNA gets out of the nucleus, any reading frame it may have will be translated and exposed to selection. So the acquisition of splicing signals is a key step, in their argument, to get a randomly expressed bit of RNA over the threshold.

A recent paper provided a remarkable example of novel gene origination. It uncovered a series of 74 human genes that are not shared with macaque, (which they took as their reference), have a clear path of origin from non-coding precursors, and some of which have significant biological effects on human development. They point to a gradual process whereby promiscuous transcription from the genome gave rise by chance to RNAs that acquired splice sites, which piped them into the nuclear export machinery and out to the cytoplasm. Once there, they could be translated, over whatever small coding region they might possess, after which selection could operate on their small protein products. A few appear to have gained enough function to encourage expansion of the coding region, resulting in growth of the gene and entrenchment as part of the developmental program.

Brain "organoids" grown from genetically manipulated human stem cells. On left is the control, in middle is where ENSG00000205704 was deleted, and on the right is where ENSG00000205704 is over-expressed. The result is very striking, as an evolutionarily momentous effect of a tiny and novel gene.

One gene, "ENSG00000205704" is shown as an example. Where in macaque, the genomic region corresponding to this gene encodes at best a non-coding RNA that is not exported from the nucleus, in humans it encodes a spliced and exported mRNA that encodes a protein of 107 amino acids. In humans it is also highly expressed in the brain, and when the researchers deleted it in embryonic stem cells and used those cells to grow "organoids", or clumps of brain-like tissue, the growth was significantly reduced by the knockout, and increased by the over-expression of this gene. What this gene does is completely unknown. Its sequence, not being related to anything else in human or other species, gives no clue. But it is a classic example of gene that arose from nothing to have what looks like a significant effect on human evolution. Does that somehow violate physics or math? Nothing could be farther from the truth.

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