Invited responses to my nylonase research and the question of “New Proteins Without God’s Help”

Susumo Ohno (who coined the term “junkDNA”) published a paper in 1984 through the National Academy of Sciences that was used by the NCSE, Ken Miller and Dennis Venema to claim “proteins can evolve without God’s help”. At the request of John Sanford, a courtesy associate research professor at Cornell, I was recruited to write a paper to refute Ohno’s evolutionary hypothesis on nylonases. I wrote it under John’s guidance based on his intuitions about genetics, his life-long specialty of 40 years and for which he became famous as attested by the fact he is one of the few geneticists who had their work featured in the Smithsonian National Museum of American History.

The actual paper is now in review, but it is not intended to be published in any journal, but will be released in a variety of channels shortly. It is hoped the material can be used by others to actually create papers that enter peer review. The motivation for releasing the paper in this way is to counter Venema’s book while it is still hot off the press.
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Where is the scientific evidence that arguments change minds?

There is considerable scientific evidence that arguing with people about their beliefs usually has an effect opposite of what you would hope (assuming, generously, that you care more about the effect your arguing has on others than the effect it has on you). I’m sure that most of you have seen reviews of the relevant literature. In any case, I have not the least interest in arguing about the evidence that arguing hardens, rather than changes, beliefs. Why? I insist that, as obviously negative as arguments are, the burden is on the arguer to provide strong evidence that arguing is, on balance, more beneficial than harmful.

It would be entertaining to observe the arguing of the most compulsive of arguers that they actually do not argue. But let’s make that a wee bit harder for them to do, and require that, whatever they regard their not-arguing to be, they present scientific evidence that it generally benefits the people with whom they not-argue. And, no, I have not overlooked the fantasy that the benefit is to the silent Onlookers, and that you are their Champion. Either provide us with evidence that there exists such an effect, or entertain us with your Kairosfocus imitation.

The Arrival of the Fittest: a book review

Andreas Wagner’s book,The Arrival of the Fittest has been mentioned many times (just try a site search as I’ve just done) since it was published. Petrushka pointed it out in a comment

For anyone interested in whether RMNS can create stuff, I recommend a relatively new book, Arrival of the Fittest. I just bought the Kindle version an haven’t finished, but it has a lot to say about how goldilocks mutations occur.

Much later Mung writes:

Reminds me of petrushka, who is always plugging Andreas Wagner’s Arrival of the Fittest, but will never post an OP on it for discussion.

So I’ve taken the hint and bought the book at last. I can see why people have recommended it. Continue reading

Jerry Falwell Jr, a Trump appointee.

I’m sure the name Jerry Falwell Jr means more to US members than it does to me. A friend passed on a link where I read:

Donald Trump appoints creationist college president to lead higher education reform taskforce

According to Salon:

The focus will be on “overregulation and micromanagement of higher education,” according to university spokesman Len Stevens. This would be consistent with Falwell’s past positions, in which he has opposed federal regulations on funding and accreditation for American schools of higher learning.

Following the appointment of (Calvinist?) Betsy DeVos as Education secretary, should we be concerned for the future of public education in the US?

Darwin’s House of Cards

In this provocative history of contemporary debates over evolution, veteran journalist Tom Bethell depicts Darwin’s theory as a nineteenth-century idea past its prime, propped up by logical fallacies, bogus claims, and empirical evidence that is all but disintegrating under an onslaught of new scientific discoveries. Bethell presents a concise yet wide-ranging tour of the flash points of modern evolutionary theory, investigating controversies over common descent, natural selection, the fossil record, biogeography, information theory, evolutionary psychology, artificial intelligence, and the growing intelligent design movement. Bethell’s account is enriched by his own personal encounters with of some our era’s leading scientists and thinkers, including Harvard biologists Stephen Jay Gould and Richard Lewontin; British paleontologist Colin Patterson; and renowned philosopher of science Karl Popper.

Darwin’s House of Cards: A Journalist’s Odyssey Through the Darwin Debates

Of course, no real skeptic will want to read this book.

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The Glories of Global Warming and the Faint Young Sun Paradox

It is a little known fact that scientists who argue that the paleontological record of life is hundreds of millions of years old, when confronted with astrophysical facts, must eventually rely heavily on the hypothesis of finely tuned, large scale global warming. The problem is known as the Faith Young Sun Paradox. A few claim they have solved the paradox, but many remain skeptical of the solutions. But one fact remains, it is an acknowledged scientific paradox. And beyond this paradox, the question of Solar System evolution on the whole has some theological implications.

Astrophysicists concluded that when the sun was young, it was not as bright as it is now. As the sun ages it creates more and more heat, eventually incinerating the Earth before the sun eventually burns out. This is due to the change in products and reactants in the nuclear fusion process that powers the sun. This nuclear evolution of the sun will drive the evolution of the solar system, unless Jesus returns…
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Climate Change: myth or reality?

There’s no question in my mind the “Intelligent Design” movement has lost all its arguments with Science. Unfortunately, post Trump-it, that fact is now an irrelevance. With Trump’s appointment of Betsy de Vos as Education Secretary, it looks like religious fundamentalism no longer needs its figleaf. What concerns me much more is that a similar fate awaits climate research if his appointment of Rex Tillerson as Secretary of State is any indication of future policy on combating climate change. Continue reading

Knowledge As Articulated Insight

The standard definition of knowledge, canonized in epistemology textbooks, is that knowledge is “justified true belief.”

I think that this is badly wrong, and to put it right, we should return to where this idea comes from: Plato’s argument (“argument”) in Meno. I suggest, based in part on Plato, that we should reject the JTB definition of knowledge in favor of knowledge as articulated insight.

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Evolution’s Puzzle & Trans-Evolutionary Change

In lead-up to the recent Royal Society’s “New Trends in Evolutionary Biology: Biological, Philosophical and Social Sciences Perspectives” meeting in London, which courted the terms ‘extension,’ ‘replacement’ and ‘amendment’ in regard to the (neo-)Darwinian evolutionary ‘Modern Synthesis’ in biology, as presented by active and leading members of the (mainly Anglo-American) biological scientific community as well as philosophers (and a couple of largely physical rather than cultural anthropologists), including several members of The Third Way of Evolution, this was one of a few trans-evolutionary change preparations aimed at liberating the social sciences and humanities from positivist, reductionist, evolutionist, atomist & naturalist (PREAN) ideologies (none of which, of course, refers to a single soul at TSZ because almost everyone here is – by definition of being a ‘skeptic’ – skeptical about even their own admittedly personal ideologies that are often so easily identifiable by their words made in public?), which display hegemonic tendencies by capital-capture political positioning scholars & dehumanising ‘public understanding’ gurus coming from oftentimes highly specialised natural-physical sciences fields that have become an unfortunate burden in collaborative science, philosophy and theology/worldview discourse, to everyone.

Cheers to moving beyond (neo-)Darwinian evolutionism with trans-evolutionary li-ber-a-tion!

Some evidence ALUs and SINES aren’t junk and garbologists are wrong

Larry Moran, Dan Graur and other garbologists (promoters of the junkDNA perspective), have argued SINES and ALU elements are non-functional junk. That claim may have been a quasi-defensible position a decade ago, but real science marches forward. Dan Graur can only whine and complain about the hundreds of millions of dollars spent at the NIH and elsewhere that now strengthens his unwitting claim in 2013, “If ENCODE is right, Evolution is wrong.”

Larry said in Junk in Your Genome: SINES
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