"Impossible" Molecular Machines

Someone named vjtorley just posted a list of things that would falsify his faith in Intelligent Design Creationism [The 10^(-120) challenge, or: The fairies at the bottom of the garden].

Normally this wouldn't be very interesting because the IDiots almost always set up impossible criteria reflecting their fundamental misunderstanding of evolution. This posting is no exception but I was intrigued by one of the items on the list.

2. An empirical or mathematical demonstration that the probability of the emergence of any of the irreducibly complex structures listed on this page, as a result of non-foresighted processes (“random mutations plus natural selection”) is greater than 10^(-120).

The link under "this page" is to an article by Casey Luskin from last June [Molecular Machines in the Cell]. He lists a whole bunch of molecular machines and claims that these structures pose a real problem for science.

Here's the list. Judge for yourselves whether they make you believe in God.

Molecular machines are highly complex and in many cases we are just beginning to understand their inner workings. As a result, while we know that many complex molecular machines exist, to date only a few have been studied sufficiently by biologists so that they have directly tested for irreducible complexity through genetic knockout experiments or mutational sensitivity tests. What follows is a non-exhaustive list briefly describing 40 molecular machines identified in the scientific literature. The first section will cover molecular machines that scientists have argued show irreducible complexity. The second section will discuss molecular machines that may be irreducibly complex, but have not been studied in enough detail yet by biochemists to make a conclusive argument.


I Molecular Machines that Scientists Have Argued Show Irreducible Complexity

1. Bacterial Flagellum
2. Eukaryotic Cilium
3. Aminoacyl-tRNA Synthetases (aaRS)
4. Blood clotting cascade
5. Ribosome
6. Antibodies and the Adaptive Immune System

II. Additional Molecular Machines

7. Spliceosome
8. F0F1 ATP Synthase
9. Bacteriorhdopsin
10. Myosin
11. Kinesin Motor
12. Tim/Tom Systems
13. Calcium Pump
14. Cytochrome C Oxidase
15. Proteosome
16. Cohesin
17. Condensin
18. ClpX
19. Immunological Synapse
20. Glideosome
21. Kex2
22. Hsp70
23. Hsp60
24. Protein Kinase C
25. SecYEG PreProtein Translocation Channel
26. Hemoglobin
27. T4 DNA Packaging Motor
28. Smc5/Smc6
29. Cytplasmic Dynein
30. Mitotic Spindle Machine
31. DNA Polymerase
32. RNA Polymerase
33. Kinetochore
34. MRX Complex
35. Apoptosome / Caspase
36. Type III Secretory System
37. Type II Secretion Apparatus
38. Helicase/Topoisomerase Machine
39. RNA degradasome
40. Photosynthetic system

---

BioLogos vs Discovery Institute—CANCELLED

 
With breathless anticipation I awaited the showdown between BioLogos and the Discovery Institute at the upcoming conference in Texas this weekend. Here's the teaser from the Disco website [Showdown in Austin].

Next week the Vibrant Dance of Faith and Science becomes the God and evolution showdown in Austin, as the question of whether faith in God can co-exist with Darwinian evolution will be discussed and debated with people of faith on all different points of the spectrum. CSC Director Stephen Meyer will be presenting, as will CSC fellows Bill Dembski, Doug Axe, Richard Sternberg, Paul Nelson, Jack Collins, Walter Bradley, Bruce Gordon, and Ray Bohlin.

Imagine, all those people of faith from the Discovery Institute arguing that God and evolution are incompatible. And all those theistic evolutionists from BioLogos arguing that science and religion are perfectly compatible. The mind boggles.

Unfortunately, the great debate has been cancelled at the last minute. I guess Francis Collins was too busy to attend. Maybe they should have invited me to take on the Intelligent Design Creationists and the other creationists who call themselves Theistic Evolutionists?¹

---

1. They would need reinforcements in order to make it a fair fight.

Leibnizian Cosmological Arguments

 
An atheist reader send me this argument for the existence of God: Leibnizian Cosmological Arguments. It's from Alexander R. Pruss of Baylor University in Texas, USA.

Here's the guts of the argument ...

The basic Leibnizian argument has the following steps:
(1) Every contingent fact has an explanation.
(2) There is a contingent fact that includes all other contingent facts.
(3) Therefore, there is an explanation of this fact.
(4) This explanation must involve a necessary being.
(5) This necessary being is God.

My first reaction whenever I see arguments like this is to look for evidence that supports the claim.¹ I'm not very interested in arguments that hinge on the definition of words and on things that may or may not be real. What is the actual evidence that this God really exists?

What is a "contingent fact" and why should I believe that every one of them has an explanation? The article by Alexander R. Pruss tries to convince me that this belief is related to something called the Principle of Sufficient Reason (PSR) and that it is self-evident. If it's not self-evident to me, then the author tries to show that my worldview is inconsistent—in fact, I can't even believe in evolution unless I accept the Principle of Sufficient Reason and hence, that every contingent fact has an explanation! Who knew?

To me, this just seems like silly sophistry.

Similarly, I don't see any reason to believe that there is a contingent fact (whatever that is) that contains all other contingent facts. What's the point?

Even if I'm willing to consider steps 1,2, and 3 why should I conclude that something called a "necessary being" is part of the explanation?

The god of the cosmological argument is an imaginary god who exists only in the minds of philosophers. There is no connection between that imaginary "necessary being" and a god who actually does anything. If someone wants to believe in the cosmological "necessary being" then that's fine with me as long as they don't try to attribute anything else to that "necessary being" other than satisfying some unprovable premises about contingent facts.

I don't see any reason why I should believe in this "necessary being." More importantly, I don't see how I could possibly distinguish between people who believe in the cosmological "necessary being" and those who don't, if that's the only difference between them. But let's not kid ourselves. There aren't any living theists who just stop when they get to point #5.

The cosmological arguments are just rhetorical devices for satisfying theists who have acquired a belief in God for entirely different reasons. Nobody, including theists, arrives at a belief in a Christian god—or any other personal god—via the cosmological argument. To a non believer, the entire argument looks silly no matter how much you dress it up in philosophical finery. This is not proof of the existence of god so much as post hoc rationalization for believers.

Here's an example of the kind of reasoning you see in this "sophisticated" essay. Remember that Pruss is trying to convince us that you must accept the Principle of Sufficient Reason and that principle leads automatically to the conclusion that "Every contingent fact has an explanation."

It is morally acceptable to redirect a speeding trolley from a track on which there are five people onto a track with only one person. On the other hand, it is not right to shoot one innocent person to save five. What is the morally relevant difference between the two cases? If we denied the PSR, then we could simply say: “Who cares? Both of these moral facts are just brute facts, with no explanation.” Why, indeed, suppose that there should be some explanation of the difference in moral evaluation if we accept the denial of the PSR, and hence accept that there can be facts with no explanation at all?

Almost all moral theorists accept the supervenience of the moral on the non-moral. But without the PSR, would we really have reason to accept that? We could simply suppose brute contingent facts. In this world, torture is wrong. In that world, exactly alike in every other respect, torture is a duty. Why? No reason, just contingent brute fact.

The denial of the PSR, thus, would bring much philosophical argumentation to a standstill.

An interesting thing about this argument is that it yields a PSR not just for contingent truths but also for necessary ones.

Quite frankly, I have no idea what he's talking about and nothing said here prompts me to try harder to understand the point. He lost me in the second sentence because I think it IS right to shoot one person to save five, if that's the only choice.

I've also seen many institutions and societies that condone torture. There was at least one American President who liked the idea and in the not-too-distant past torture was good sport in the Roman Catholic Church. What has this got to do with the Principle of Sufficient Reason?

Notice that up until now I haven't even mentioned the most obvious problem with the cosmological argument; namely, that it doesn't explain anything. If there's really a problem identifying the explanation of everything then what explains god? I know that theists everywhere have elaborate excuses to explain why god falls outside of the original premises of the cosmological argument but isn't it interesting that they never explicitly include them in the argument?

Take the five steps above. There should be another statement along the lines of "(4b) This necessary being does not require an explanation because it isn't a contingent fact. This doesn't violate the Principle of Sufficient Reason because I say so."

Man, those Courtier's of the Emperor sure are clever!

---

1. Actually that's not quite true. My real first reaction is more like, "Holy shit! Are there really people who believe this nonsense!

A Quiz for Atheists from a Creationist

 
Michael Egnor seems to concede that the theists were unable to come up with a good reason for believing in supernatural beings when I challenged them a few weeks ago: A Challenge to Theists and their Accommodationist Supporters.

Now he wants to return the favor by challenging atheists: What Do New Atheists Actually Believe?. It's kind of a funny question because atheists don't actually believe in anything—at least nothing that's common to all atheists. We've just failed to be convinced that supernatural beings exist.

Anyway, here are the questions ...

I want to learn more about what New Atheists really believe. So I'm asking Moran a few questions, although other atheists (Myers, Coyne, Novella, Shallit, etc) are invited to reply on their blogs, and I will answer.

Here are the questions:

1) Why is there anything?

I don't know and I don't really care. I'm quite happy to think that something has always existed but I'm not troubled by the fact that our space-time may just be an accident.

2) What caused the Universe?

I don't know. In fact, I'm not even sure what you mean by "cause." I'm told by experts in the field of cosmology that there's no need to invoke a supernatural being to explain the origin of the universe but if you want to believe in a deist god then that's all right by me.

3) Why is there regularity (Law) in nature?

I don't know. That's not my field.

4) Of the Four Causes in nature proposed by Aristotle (material, formal, efficient, and final), which of them are real? Do final causes exist?

That's two questions! I don't know the answer to the first one because I've never studied Aristotle. From the sound of the question, I haven't missed anything. As for the second question, I can't answer because I don't know what you mean by "final cause."

5) Why do we have subjective experience, and not merely objective existence?

Subjective experience seems to be what you perceive in your mind. I presume that's an epiphenomenon but it's a very pleasant one.

6) Why is the human mind intentional, in the technical philosophical sense of aboutness, which is the referral to something besides itself? How can mental states be about something?

What? What?

7) Does Moral Law exist in itself, or is it an artifact of nature (natural selection, etc.)

I don't think there's any such thing as "Moral Law."

8) Why is there evil?

All animals exhibit a range of behaviors. Sometimes those behaviors are clearly beneficial to themselves, or the group, and sometimes they aren't. There's no rule that says every animal always has to act perfectly all the time. Some humans, for example, would restrict a woman's right to choose and would discriminate against gays and lesbians. I wish those people weren't evil but their behavior isn't a big surprise to me.

---

Homology, Structural Homology, and Being a Little Bit Pregnant

Misuse of the word "homology" is one of my pet peeves.¹ I used to regularly complain about it on talkorigins and I still challenge our graduate students when they talk about "70% homology" or something that's "highly homologous." If you don't understand scientific terminology then it's very likely that you don't understand the concept either.

John Wilkins has pointed me to a couple of good articles² on the proper use of the word "homology': Distant homology and being a little pregnant and 2010 Homology High-Low Count.

The first article explains why the term "structural homology" should be banned from the scientific literature. The correct term is "structural similarity."

The meaning of homology is on my mind lately because I'm grading essays that critique Jonathan Wells' book Icons of Evolution. Student have to pick one of the chapters and analyze the arguments used by Wells to attack evolution. One of the chapters is "Homology in Vertebrate Limbs" and it's one of the most difficult chapters because Wells highlights the frequent misuse of "homology" in the scientific literature.

---

1. I have many. It's what happens when you get old.

2. I wonder if he's doing this on purpose—posting a list of provocative articles in the hopes that someone else will do all the work?

American Law Is Very Confusing

 
Just when I thought I was beginning to understand, along comes a Republican candidate for the US Senate who tells me that it's okay for local school boards to permit teaching of Intelligent Design Creationism. The US Constitution allows this. I assume she must know what she's talking about since I haven't seen any prominent Republicans pointing out that she is mistaken.

---

The National Science Foundation Version of "Understanding Evolution"

 
Last month the National Science Foundation (NSF) announced a $1,990,459 grant to a team led by Paul Horwitz to teach evolution to fourth graders [Students Explore Evolution Through Evolution Readiness Project]. Here's the opening paragraph of that announcement from NSF, posted on their website.

Understanding Evolution

One hundred fifty-one years after Charles Darwin introduced his theory of evolution, the "E word" remains controversial in science education circles, sparking debate over how to teach it, at what age, and even, in extreme cases, whether it should be taught at all. Yet, essentially there is agreement among scientists that evolution by natural selection is the fundamental model that explains the extraordinary complexity and interdependence of the living world. Moreover, evolution by natural selection is a quintessential scientific theory, explaining an extraordinary collection of data, including much that Darwin himself was unaware of, with a small collection of powerful ideas.

Can such an all-encompassing theory be taught successfully in elementary school?

In a project called Evolution Readiness, funded by the National Science Foundation, principal investigator Paul Horwitz and a team of researchers from the Concord Consortium and Boston College, are trying to find out. They are introducing the basic concepts of evolution to fourth graders.

"Our goal is to teach young children how Darwin's model of natural selection explains the observation that organisms are adapted to their environment," said Horwitz. The project is also breaking new ground in science teaching. "Science is rarely described as an attempt to explain observations in terms of models," Horwitz said.

If the National Science Foundation doesn't even know the difference between "evolution" and "natural selection" then how can we ever hope to educate the general public?

I don't mind if Horwitz et al. want to concentrate on just teaching natural selection to fourth graders but I do mind that the people at NSF don't seem to understand that this is just one of the mechanisms of evolution. Natural selection alone does NOT explain the diversity and complexity we see around us.

---

[Hat Tip: Intelligent Design Creationists]

The Stoning Of Soraya M

 
With or without religion, good people can behave well and bad people can do evil — but for good people to do evil — that takes religion.

Steven Weinberg
The Stoning Of Soraya M is a movie based on the true story of an Iranian woman who was falsely accused of adultery and stoned to death by the men in her village. The penalty was carried out according to Islamic Sharia law.

According to SkyNews the government of Iran is infuriated that such a film would be shown in theaters in the Western world. I can't imagine why Iran would be upset, but if they really are infuriated then there's a very simple way to ensure that such films will never need to be made again.

There are reports that some European governments are trying to ban the movie. That's despicable. I hope those governments will soon be identified so we'll know which countries tourists should avoid.

Meanwhile, in spite of the fact that I am a non-violent person, I would be happy to see those Iranian men buried in sand up to their waist while a few hundred Iranian women looked on. It would be convenient if there was a big pile of rocks nearby. I'd like there to be a female doctor nearby to make sure that the men don't die—at least not for several days.

---

[Hat Tip: RichardDawkins.net]

National Chemistry Week

 
This is National Chemistry Week in the United States of America. Janet Stemwedel reminded us [Holy mole-y, it’s National Chemistry Week!]. She's a chemist AND a philosopher!¹

I like chemistry because it helps us understand really important things like biology. Here's the biochemistry version of the Periodic Table of the Elements. It shows you which ones you can ignore!

---

1. Eat your heart out, John Wilkins.

Dispatches from the Evolution Wars

 
"Dispatches from the Evolution Wars" by Glenn Branch, Eugenie C. Scott, and Joshua Rosenau of NCSE has been published in Annual Review of Genomics and Human Genetics (2010; 11: 317-338). You can read it here.

There's lots of good stuff in this article and Branch et al. have avoided most of the things that annoy atheists and those who thing science and religion are in conflict. Here's some good bits for you to think about.

It is therefore likely that the most effective way for scientists to help to improve the understanding of evolution among in-service teachers is at the level of preservice teacher instruction. To ensure that preservice teachers are prepared to teach evolution effectively, biology professors need to set their own houses in order. Even at the college level, evolution is often not taught explicitly; not required, even of biology majors; and not integrated throughout the course of study. With such a model, what are preservice biology teachers likely to conclude about the centrality of evolution to the discipline they aspire to teach? Additionally, it is vital that biology and education faculty work together to overcome what a recent essay rightly deplored as “[t]he profound lack of interaction, respect, and collaboration between many scientists and science educators in the academy” (103). Biology professors can help their education colleagues to ensure that a proper and up-to-date understanding of evolution and the nature of science is appropriately conveyed in the science education curriculum, while education professors can help their biology colleagues to improve their own pedagogy (1, 2, 105).

In communicating with the public about evolution, creationism, and the nature of science, it is important for scientists not to reinforce the common misconceptions in these areas (119). To give just a few examples, talking about “the theory of evolution” reinforces the idea that evolution is just a theory—a guess or a hunch (25, 49). Calling evolutionary biology “Darwinism” is not only ambiguous and inaccurate but also conducive to a creationist campaign suggesting that evolution is a disreputable ideology (131). Likewise, talking about belief in (rather than acceptance of) evolution is likely to be taken as a profession of faith, reinforcing the idea that evolution is a quasireligious dogma (134). The temptation to proclaim that a new and exciting discovery in the evolutionary sciences is a paradigm shift, overturns the accepted wisdom, or supplies the missing link also needs to be resisted: It suggests that evolution was a theory in crisis beforehand, which is precisely the wrong message to send. The recent overpromotion of Darwinius masillae—“a revolutionary scientific find that will change everything,” blared its publicist—is a melancholy case in point (48).

---

[Hat Tip: NCSE]

Telling the "Truth" about Science and Religion

 
Hemant Mehta of Friendly Atheist recently experienced a "conversion." He used to be an accommodationist but lately he's become more and more sympathetic to the position of the Gnu Atheists. He describes how he sees the dispute in How Pushy Should Atheists Be?.

Here’s the difference between the two sides: You know that courtroom phrase, “tell the truth, the whole truth, and nothing but the truth”?

Both Mooney and PZ want to tell the truth about science and evolution.

Only PZ is willing to tell the whole truth — that the logical conclusion of accepting science fully is that you must dismiss any notion of gods, miracles, and the supernatural.

Mooney thinks it’s bad PR for us to admit that — and he may be right — but it’s wrong to let Christians keep thinking science and religion are perfectly compatible when they really aren’t.

I’m clearly on PZ’s side of the spectrum, but I don’t think anyone could realistically call me a “confrontationalist.” I’m not looking to pick fights with theists, I frequently get invited by churches to help Christians understand our perspective, and I’m not calling religious people names just to underscore my point. PZ revels in that.

So the downside of the accommodationist/confrontationalist dichotomy is that it leaves a lot of people with no label. What do you call those of us who might lean to one side but aren’t in one camp entirely?

This is a pretty good analysis of the Gnu Atheist side of the problem. Gnu Atheists think that superstition is the problem and they want to tell the whole truth; namely, that superstitious beliefs are not compatible with a scientific way of knowing.

But here's the problem. Accommodationsts don't necessarily believe that science and religion are in conflict. They aren't avoiding the whole truth, instead, they are telling the whole truth as they see it. Compatibility is their version of the truth, even if they are atheists.

I can respect that even though I believe they are wrong. Compatibility seems to be the position of Genie Scott and the National Center for Science Education (NCSE).

But what about those atheists who actually believe that science and religion are in conflict but who still want to be accommodationists? Do those atheists have to avoid telling the whole truth? How do they justify that?

Joshua Rosenau has the answer: A Prak-tical guide to confrontationalism and accommodationism.

The point being, it's impossible to constantly be telling "the whole truth," and no audience really wants you to do that. You pick and choose which truths (as you see them) you want to expound. Part of the way you do that is by thinking about how much of the truth you can express without driving your audience insane. Hopefully you also select your slice of the truth based on what will convince your audience that your central point is, in fact, true. Omitting parts of the truth that will drive your audience away (or insane) is not dishonest, and may well be the best service you can do for the truth.

There's a word that's used to describe leaving out part of the truth in order to please your audience. It's called lying. Lying is very similar to framing. Josh probably doesn't think that omitting an important part of the truth is the same as lying by omission.

But there's a more serious issue here. Josh works for NCSE, although he's very careful to point out that he doesn't always speak for that organization on his blog. In this posting he's defending accommodationism of the sort defined by Hemant Mehta. This is not the position of those who believe in compatibility because those people are not hiding the truth.

In this case I hope Josh isn't speaking for NCSE because his statement suggests something pretty ominous. He raises the possibility that there are some people who think science and religion are in conflict but who might be willing to say something quite different in public in order to appease moderate theists. That's not just lying by omission.

I wonder if there are people who think science and religion are actually incompatible but who are willing to lie about their position in order to keep creationism out of the classroom. Is Josh one of those people?

---

Critical Thinking about Religion?

Frans de Waal is a biologist specializing in primate behavior—mostly non-human primates. He wrote an article for The New York Times on Morals Without God.

Like so many others, de Waal can't imagine what kind of morals and ethics a society would create without guidance from supernatural beings.

Even the staunchest atheist growing up in Western society cannot avoid having absorbed the basic tenets of Christian morality. Our societies are steeped in it: everything we have accomplished over the centuries, even science, developed either hand in hand with or in opposition to religion, but never separately. It is impossible to know what morality would look like without religion. It would require a visit to a human culture that is not now and never was religious. That such cultures do not exist should give us pause.

I do not accept that my society is steeped in Christian morality. I believe that Christianity has borrowed some very sound ethical principles shared by all societies and tried to make them its own. That does not mean that our wish to discourage murder and theft is a Christian value.

Furthermore, those values that are uniquely religious—such as banning contraception, prohibiting gay marriage, and rejecting evolution—are frequently the very ones that are rejected by modern Western societies.

It is NOT impossible to know what a society would look like without religion. It would look very much like the societies of Western Europe. Those societies have retained the moral and ethical values that pre-date and supercede religion and they have rejected the values of Christianity that they have outgrown. In countries like France, Belgium, the Netherlands, and Denmark citizens are rapidly approaching the point where religions are completely irrelevant. The Pope can continue to hold Sunday mass at St. Peter's and he can create a bevy new saints every year, but hardly anyone will care. Most of them don't even care today. In fact, most Canadians don't care even though more than 40% of us are nominally Roman Catholic.

I'm surprised that de Waal doesn't mention this since he is from the Netherlands and he makes this an important part of his opinion piece in The New York Times article.

It's true that no historical human cultures have been free of superstition. Almost all of them believed in magic. Our ancestors thought there were gods who controlled the weather and they feared evil gods who would do them harm. They believed in magic potions, fairies, and dragons. They believed in lucky numbers and developed elaborate rituals to avoid bad fortune (don't let a black cat cross your path).

The fact that all past cultures were highly superstitious is interesting, but it certainly doesn't trouble me the same way it troubles Frans de Waal. He said, "That such [non-superstitious] cultures do not exist should give us pause." Why? Is it hard to explain why older cultures believed silly things that aren't true?

Other primates have of course none of these problems, but even they strive for a certain kind of society. For example, female chimpanzees have been seen to drag reluctant males towards each other to make up after a fight, removing weapons from their hands, and high-ranking males regularly act as impartial arbiters to settle disputes in the community. I take these hints of community concern as yet another sign that the building blocks of morality are older than humanity, and that we do not need God to explain how we got where we are today. On the other hand, what would happen if we were able to excise religion from society? I doubt that science and the naturalistic worldview could fill the void and become an inspiration for the good. Any framework we develop to advocate a certain moral outlook is bound to produce its own list of principles, its own prophets, and attract its own devoted followers, so that it will soon look like any old religion.

This is really hard to understand. On the one hand, de Waals admits that we don't need God to make us moral. On the other hand, he suggests that our society is steeped in Christian morality. He seems to be saying that religion is important even if God is unnecessary.

One of the essential hallmarks of critical thinking is skepticism, especially skepticism about your own personal beliefs. One should always be prepared to question one's own assumptions.

One way of doing this is to look for evidence that will back up or refute your assertion. In this case, Frans de Waal should be asking himself whether there are any examples of societies that are adopting naturalistic worldviews and abandoning religion. If there are such societies, then is it true that they are in the process of evolving prophets and devotees and forming another kind or religion?

I've been in Europe many times over the past decade and I've not seen any evidence of this new religion that's supposed to look just like any old religion. There's no evidence of this new form of religion in North America either. I currently live in a very secular society in the suburbs of Toronto. Half of the people in my immediate neighborhood are non-believers and most of remainder do not agree with the moral and ethical tenets of any religion—especially Christian ones.

None of the non-believers in my neighborhood seem to have a pressing need to find another kind of religion to replace the one they've discarded. We are happy that Canada legalized gay marriage, prohibits capital punishment, allows abortion, promotes gender equality, and defends the right of every Canadian to have affordable access to health care. We don't need prophets and priests to tell us that this is good for society.

Frans de Waal is wrong to claim that our ethics and morals are derived from religion. He is wrong to claim that past belief in silly superstition is evidence that those superstitions can't be discarded. And he is wrong to believe that when societies discard religion they will be faced with such a void that they will have to re-invent religion.

---

Lies, Damned Lies, and Medical Science

 
Here's an article from the Atlantic that everyone should read: Lies, Damned Lies, and Medical Science. It highlights the efforts of John Ioannidis to discover what's true and what's not true about modern medical research publications and clinical trials. I think this is going to become one of the hottest topics in science within a few years. The fallout will be horrendous when the public realizes that doctors are not as scientific as we thought.

Some interesting quotes from the article should prompt you to follow the link to the Atlantic website.

It didn’t turn out that way. In poring over medical journals, he was struck by how many findings of all types were refuted by later findings. Of course, medical-science “never minds” are hardly secret. And they sometimes make headlines, as when in recent years large studies or growing consensuses of researchers concluded that mammograms, colonoscopies, and PSA tests are far less useful cancer-detection tools than we had been told; or when widely prescribed antidepressants such as Prozac, Zoloft, and Paxil were revealed to be no more effective than a placebo for most cases of depression; or when we learned that staying out of the sun entirely can actually increase cancer risks; or when we were told that the advice to drink lots of water during intense exercise was potentially fatal; or when, last April, we were informed that taking fish oil, exercising, and doing puzzles doesn’t really help fend off Alzheimer’s disease, as long claimed. Peer-reviewed studies have come to opposite conclusions on whether using cell phones can cause brain cancer, whether sleeping more than eight hours a night is healthful or dangerous, whether taking aspirin every day is more likely to save your life or cut it short, and whether routine angioplasty works better than pills to unclog heart arteries.

.

Still, Ioannidis anticipated that the community might shrug off his findings: sure, a lot of dubious research makes it into journals, but we researchers and physicians know to ignore it and focus on the good stuff, so what’s the big deal? The other paper headed off that claim. He zoomed in on 49 of the most highly regarded research findings in medicine over the previous 13 years, as judged by the science community’s two standard measures: the papers had appeared in the journals most widely cited in research articles, and the 49 articles themselves were the most widely cited articles in these journals. These were articles that helped lead to the widespread popularity of treatments such as the use of hormone-replacement therapy for menopausal women, vitamin E to reduce the risk of heart disease, coronary stents to ward off heart attacks, and daily low-dose aspirin to control blood pressure and prevent heart attacks and strokes. Ioannidis was putting his contentions to the test not against run-of-the-mill research, or even merely well-accepted research, but against the absolute tip of the research pyramid. Of the 49 articles, 45 claimed to have uncovered effective interventions. Thirty-four of these claims had been retested, and 14 of these, or 41 percent, had been convincingly shown to be wrong or significantly exaggerated. If between a third and a half of the most acclaimed research in medicine was proving untrustworthy, the scope and impact of the problem were undeniable. That article was published in the Journal of the American Medical Association.

---

[Hat Tip, again to John Wilkins]

Mark Anthony Signorelli Doesn't Like Darwinians

 
According to his blog posting Mark Anthony Signorelli is, "is a poet, playwright, and essayist." He has a very strong opinion about evolution and the "Darwinists" who promote it [The Jurisdiction of Science]. His main point is that anyone should be allowed to criticize modern evolution and I agree with him on that. However, just as there's good science and bad science, there's also valid criticism and not-so-valid criticism. The not-so-valid criticism often comes from people who don't understand evolution.

Here's how Signorelli ends his rant. Judge for yourself ...

The fact that our intellectual climate is such that so many merely scientific thinkers so consistently and so brazenly offer up their lame insights on the most momentous of topics does indeed constitute an essential aspect of our present barbarism. The attempt to understand the entirety of human existence in biological terms has less of philosophical seriousness about it, and more of professional pride. We would find ourselves in a very nearly analogous situation if a conclave of plumbers began writing books, asserting that water was the essential element in all nature, that our thoughts could best be understood as so many conduits to our actions, and that society itself is nothing other than a complex structure of pipes, aqueducts, and irrigatory canals, sending and receiving every life-giving benefit. Such a mode of philosophizing might be enjoyable for a while, but it could never be persuasive, and it could never be right. In both cases, we would recognize that the hard labor of authentic thought was being replaced by the facile application of a vocational jargon. In both cases, we would conclude that a form of knowledge, immensely valuable in its own sphere, had been distorted and falsified, by being rashly extended far beyond that sphere.

And this is why the Darwinians so constantly complain about hostile foreigners intruding into their sovereign territory of biology: in order to distract us from the reality of their own imperial ambitions. There is one enormous fact about the contemporary intellectual scene, and it is not the fact that non-scientists are relentlessly asserting their opinions on scientific questions; it is the fact that many scientists are now in the incurable habit of relentlessly asserting their opinions – their very dopey opinions – on a range of philosophical and cultural issues. And this is a situation that is infinitely more perilous and revolting than if the opposite were the case, because it means that those persons who, by trade and by training, are least competent to judge mankind’s most momentous questions are precisely the ones who are more and more commonly doing just that. We should not be distracted from this terrible reality by the Darwinians incessant howling about the rest of us critiquing their opinions; rather, we should recognize their noise for the rhetorical feint that it is, but one more tawdry polemical maneuver utilized by the proponents of an ideology that is false, ignorant, and dishonest to its core.

Let's be clear about my complaint. It's not that scientists are making foolish statements about evolutionary psychology—that's one area where Signorelli and I agree. My compliant is that he writes an essay on the more general topic of why poets should be allowed to criticize science—an essay that criticizes scientists (like me) who get upset when people misrepresent science in order to advance their personal agendas. The irony is that in this very essay Signorelli reveals a serious lack of understanding of the science behind evolutionary biology beginning with use of the creationist term "Darwinians" to describe all modern evolutionary biologists.

There are good poets and bad poets. It would be wrong to criticize all poetry just because you've read some bad poets. Right?

I agree with this ...

Yet if evolutionary theory does have broad consequences for the study of ethics or the study of the arts – as we have been told with greater and greater frequency of late – then it is a theory which may be fairly considered, and fairly criticized, by scholars in the fields of ethical philosophy or literary criticism. This should be a perfectly uncontroversial matter. To maintain that evolutionary theory needs to be taken seriously by humanist scholars, while simultaneously forbidding those same scholars, under penalty of the severest invective, to weigh the rational substance of evolutionary theory, is a piece of impudence so raw and ridiculous that it could only be performed in this most outlandish of ages. Whatever absurdities were perpetrated in the past by Freudian and Marxist theorists, they never retorted to objections towards their ideological reading of texts by saying, “you are no psychologist,” or “you are no economist.” If the Darwinians wish their theory to be taken seriously outside the laboratories of the biology departments, then they simply must accept the fact that it has become a fair subject of refutation to the entirety of the educated community.

Let's all try and distinguish between the proper science of evolution and evolutionary theory and the abuses perpetrated in it's name. Let's not make the naive assumption that "refuting" the worst abuses is equivalent to questioning what goes on in biology departments. That's silly.

We all have worldviews that shape our opinions. Here's one ...

---

[John Wilkins made me post this.]

Saturday Morning Cartoons

 

---