Friday, March 28, 2008

peer reviewed ID publications?

Dear Discovery Institute,

Today we will be considering the validity of your claim that there is a strong base of peer-reviewed articles and books on Intelligent Design. The articles in question will be taken directly from your website ( http://www.discovery.org/a/2640 ). The following question will be raised: do these publications truly qualify as peer-reviewed works in a valid sense (ie. a peer review system that doesn't include ID merely because it is ID, but rather on it's scientific merits?)/

The first questionable articles are those published in "Darwinism, Design, & Public Education, edited by John Angus Campbell and Stephen C. Meyer" (from your site). The fact that Meyer is both an editor of the book and also a major player in the internal politics of the Discovery Institute, it is apparent that there would, of course, be papers supportive of Intelligent Design included in this book. Therefore, it is not possible to consider this work an independent scientific publication due to the fact that ID is essentially guaranteed inclusion in the text with little or no regards to the validity of ID as a "science". Other ID-based or ID/evolution debate-based conference and journal publications are also removed with this group.

Removal of those sources strongly cuts down the base of "peer-reviewed" journal articles listed on your site. We will continue by removing "peer-reviewed" books, especially those that are either edited by strong ID proponents or attempting to cover both ID and evolution. While books may have valid information in them, the fact is that they are not required to be scientifically accurate, and thus are not admissible for consideration as scientific publication under our qualifications in this blog. This once again severly cuts down the list of so-called "peer-reviewed" publications.

Now we can begin to look at the scientific papers left. The first step in this process is to remove the journal articles that have been listed multiple times on your database (ie. multiple listings for single articles...almost seems like you're trying to make it look like you have more articles than you do...). Then we can begin looking at these papers (quotes taken from listed site unless stated otherwise:

"M.J. Behe and D.W. Snoke, “Simulating Evolution by Gene Duplication of Protein Features That Require Multiple Amino Acid Residues,” Protein Science, 13 (2004): 2651-2664.
In this article, Behe and Snoke show how difficult it is for unguided evolutionary processes to take existing protein structures and add novel proteins whose interface compatibility is such that they could combine functionally with the original proteins. By demonstrating inherent limitations to unguided evolutionary processes, this work gives indirect scientific support to intelligent design and bolsters Behe’s case for intelligent design in answer to some of his critics. "


"Indirect scientific support" does not qualify as a scientific article on Intelligent Design. Nice try, but the ID movement needs to do more than this if they hope to gain scientific validity. We will now remove all articles providing only "indirect scientific support" for ID from our list.

The following article is introduced as if it provides a compelling peer-reviewed article supportive of ID, implying that ID has actually gotten through the peer-review process:

"D. A. Axe, “Estimating the Prevalence of Protein Sequences Adopting Functional Enzyme Folds,” Journal of Molecular Biology, Vol. 341 (2004): 1295–1315.
This experimental study found that functional protein folds are extremely rare, finding that, “roughly one in 1064 signature-consistent sequences forms a working domain” and that the “overall prevalence of sequences performing a specific function by any domain-sized fold may be as low as 1 in 1077.” Axe concludes that “functional folds require highly extraordinary sequences.” Since Darwinian evolution only preserves biological structures which confer a functional advantage, this indicates it would be very difficult for such a blind mechanism to produce functional protein folds. This research also shows that there are high levels of specified complexity in enzymes, a hallmark indicator of intelligent design. Axe himself has confirmed that this study adds to the evidence for intelligent design: "In the 2004 paper I reported experimental data used to put a number on the rarity of sequences expected to form working enzymes. The reported figure is less than one in a trillion trillion trillion trillion trillion trillion. Again, yes, this finding does seem to call into question the adequacy of chance, and that certainly adds to the case for intelligent design." See Scientist Says His Peer-Reviewed Research in the Journal of Molecular Biology "Adds to the Case for Intelligent Design".


However, here it looks as if the author himself is stating that the article does not provide direct support for ID:

" concluded in the 2000 JMB paper that enzymatic catalysis entails "severe sequence constraints". The more severe these constraints are, the less likely it is that they can be met by chance. So, yes, that finding is very relevant to the question of the adequacy of chance, which is very relevant to the case for design. In the 2004 paper I reported experimental data used to put a number on the rarity of sequences expected to form working enzymes. The reported figure is less than one in a trillion trillion trillion trillion trillion trillion. Again, yes, this finding does seem to call into question the adequacy of chance, and that certainly adds to the case for intelligent design. " ( http://www.evolutionnews.org/2007/01/journal_of_molecular_biology_a.html )

Here's another indirect article. Although the ID term "complex specified information" is used in description, this paper is still not a pure ID-supportive paper that has made it through peer-review:

"D.K.Y. Chiu & T.H. Lui, “Integrated Use of Multiple Interdependent Patterns for Biomolecular Sequence Analysis,” International Journal of Fuzzy Systems, 4(3) (September 2002): 766-775.
The opening paragraph of this article reads: Detection of complex specified information is introduced to infer unknown underlying causes for observed patterns. By complex information, it refers to information obtained from observed pattern or patterns that are highly improbable by random chance alone. We evaluate here the complex pattern corresponding to multiple observations of statistical interdependency such that they all deviate significantly from the prior or null hypothesis. Such multiple interdependent patterns when consistently observed can be a powerful indication of common underlying causes. That is, detection of significant multiple interdependent patterns in a consistent way can lead to the discovery of possible new or hidden knowledge.” "


Lets keep looking! Here's a math-based publication:

"
Ø. A. Voie, "Biological function and the genetic code are interdependent," Chaos, Solitons and Fractals, Vol 28(4) (2006): 1000-1004.
In this article, Norwegian scientist Øyvind Albert Voie examines an implication of Gödel’s incompleteness theorem for theories about the origin of life. Gödel’s first incompleteness theorem states that certain true statements within a formal system are unprovable from the axioms of the formal system. Voie then argues that the information processing system in the cell constitutes a kind of formal system because it “expresses both function and sign systems.” As such, by Gödel’s theorem it possesses many properties that are not deducible from the axioms which underlie the formal system, in this case, the laws of nature. He cites Michael Polanyi’s seminal essay, Life’s Irreducible Structure, in support of this claim. As Polanyi put it, “the structure of life is a set of boundary conditions that harness the laws of physics and chemistry their (the boundary condition's) structure cannot be defined in terms of the laws that they harness.” As he further explained, “As the arrangement of a printed page is extraneous to the chemistry of the printed page, so is the base sequence in a DNA molecule extraneous to the chemical forces at work in the DNA molecule.” Like Polanyi, Voie argues that the information and function of DNA and the cellular replication machinery must originate from a source that transcends physics and chemistry. In particular, since as Voie argues, “chance and necessity cannot explain sign systems, meaning, purpose, and goals,” and since “mind possesses other properties that do not have these limitations,” it is “therefore very natural that many scientists believe that life is rather a subsystem of some Mind greater than humans.”"


Looks promising at first glance. However, once the paper is looked at, it doesn't seem to argue in favor of ID. Here's the abstract and conclusion for the paper:

"Life never ceases to astonish scientists as its secrets are more and more revealed. In particular the origin of life remains a mystery. One wonders how the scientific community could unravel a one-time past-tense event with such low probability. This paper shows that there are logical reasons for this problem. Life expresses both function and sign systems. This parallels the logically necessary symbolic self-referring structure in self-reproducing systems. Due to the abstract realm of function and sign systems, life is not a subsystem of natural laws. This suggests that our reason is limited in respect to solve the problem of the origin of life and that we are left taking life as an axiom...

Subsystems of the mind as functional objects or formal systems are unique in respect to other phenomena that follows the laws of nature and are subsystems of the universe. Life express both function and sign systems, which indicates that it is not a subsystem of the universe, since chance and necessity cannot explain sign systems, meaning, purpose, and goals [26]. Quite contrary, the human mind possesses other properties that do not have these limitations, the property of creativity with ability to create through choice with intent. This choice doesn’t violate any laws. It merely uses dynamically inert configurable switches to record into physicality the nonphysical choices of mind. It is therefore very natural that many scientists believe that life is rather a subsystem of some Mind greater than humans or symbolic number cruncher referred to by [25]. At least as observers we are left taking life as an axiom as Nils Bohr suggested in a lecture published in Nature [27] “life is consistent with, but undecidable from physics and chemistry” [19]."

http://home.online.no/~albvoie/index.cfm

While this article appears, at first, to support ID, a close read of the article shows that it, in fact, does not. Hypothetical mathematical arguments are employed to give an idea of complexity to the origin of life. However, science has shown us time and time again that mathematical probability arguments are often misguided. The following site also shows us more rebuttals of ID peer-review claims: http://www.talkorigins.org/indexcc/CI/CI001_4.html

The only articles left are either exceedingly difficult to access or continue to employ the same type of logic discussed above. If ID was a valid scientific entity, however, one would expect common, easily accessible, staunchly pro-ID papers published in mainstream journals such as Science or Nature rather than a few papers supposedly in support of ID that yet never seem to imply that ID is the cause behind these papers in obscure journals (for the most part). Publications in books put together by ID advocates or authors attempting to cover the ID movement and evolutionary theory do not count as independent peer-reviewed articles due to the fact that at least some pro-ID papers are guaranteed publication in these works by default. Somehow, the fact that the Discovery Institute repeats the listing of multiple articles multiple times on this list, as well as the fact that most of these publications are published specifically in bodies that are meant by nature to include ID theory publications, leads me to wonder about the validity of the Discovery Institute's claims. What is especially telling is the fact that many of the papers that the ID movement use for support don't even involve ID within the pagese of the papers involved. It seems like Discovery Institute is fishing for any possible citation in an attempt to buy credibility for their pet theory.

Monday, February 25, 2008

Transitional fossils

Dear Discovery Institute,

Today we will talk about your stance on transitional fossils once again. As suggested in my earlier post on transitional fossils, at least some of your members think that there are no transitional fossils. However, when a transitional form such as Tiktaalik comes up, obviously falling right between phases that were supposed to have had not transitional phases, you seem compelled to comment. We will consider an attack on mainstream scientists and Tiktaalik linked on your site in this letter.

First, here is a link to the article being discussed:
http://www.evolutionnews.org/2006/04/one_step_forward_two_steps_bac.html

Now, for our first quote:

"I love it when new "missing links" are discovered, because it's then--and only then--that Darwinists admit how precious little evidence had previously existed for the evolutionary transition in question. When reports came out this week of an alleged example of a fossil representative of the stock that might have led from fish to tetrapods -- Tiktaalik roseae -- evolutionists finally came clean about the previous lack of fossil evidence for such a transition"

I don't see the major issue with scientists admitting to not having a transitional form. An argument of this type is about as valid as attacking a scientist's background by claiming that the individual did not have a strong background before recieving an education. Just because Tiktaalik was not known initially does nothing to undermine it's validity as a transitional form. In fact, it serves to support evolutionary theory; evolution predicts the presence of a transitional form, paleontologists find exactly that in the rock record, and then claiming that the transitional fossil is invalid because scientists don't have the transitional fossils that fall between this transitional fossil, less complex fossils, and more complex fossils. But I guess this is the sort of attack that the Intelligent Design movement must resort to when any "evidence" of a Designer in the fossil record is completely and totally insignificant. Attacking admissions of the lack of transitional fossil A when we have B, C, and F does nothing to undermine the scientific validity of evolution. Rather, it shows that scientists aren't making up transitional fossils. Scientists have the transitional fossils that they claim exist. I guess this is the type of attack that must be resorted to when there is no scientific validity behind the claims of the attacking party.

The general trend with this type of argument is as follows: First, mention a transitional fossil, then make some sort of weak attack against modern science (often selectively quoting from technical papers that appear to support their claims when in actuality the article itself doesn't; I suggest referring to the link posted and checking out the papers discussed for more on this). Then, we see the argument from personal incredulity...ie "well I can't see how this can be a transitional fossil, so it must not be", ignoring that the scientists who studied the fossil may actually know more about paleontology than the author of the article debunking the science does. Funny. Does the article linked in this blog use this type of end claim? Of course!! Let's see it!

"But only now that we have Tiktaalik will we hear evolutionists boast about the size of the previously large "gap" in this transition, and how Tiktaalik solves all these previously unanswered questions. I'm super skeptical that this new fossil is good evidence that a transition took place: Acanthostega was truly a tetrapod, but Tiktaalik is a fish. As Clack and Ahlberg write, there's still a large gap (and any usefulness a fin had for walking was the result of a lucky pre-adaptation)"

My advice, trust scientists who have worked on the fossils, and not some random person writing on a website that claims that Tiktaalik can't be a transitional fossil because of some preconcieved devotion to the "wrongness" of evolution. I'll link some of the articles here. Have fun Discovery Institute, they make the author's points in the linked article above look extremely weak.

http://www.nature.com/nature/journal/v440/n7085/abs/nature04637.html

http://homepages.wmich.edu/~karowe/tetrapod%20fish%20brief%20summary%20NAture%20April%202006.pdf

http://www.nature.com/nature/journal/v440/n7085/abs/nature04639.html

http://www.sciencemag.org/cgi/content/full/312/5770/33

There's 4 peer-reviewed, scientific journal articles that support Tiktaalik's validity as a transitional form. I challenge you to show me even one peer-reviewed article debunking this fact.

Sunday, February 17, 2008

Discovering Discovery Institute's science education policy

Dear Discovery Institute,

Today, I've been investigating your perspectives on science education. I have noticed some interesting trends, and would like to raise some questions as to the motives of your views. It appears that your view on science education is, like most of the articles and books your fellows publish, strongly consonant with Wedge Strategy.

To discuss your science education policy, we will consider the document on your website that explains it. First, let's take the beginning of the document:

"As a matter of public policy, Discovery Institute opposes any effort require the teaching of intelligent design by school districts or state boards of education. Attempts to mandate teaching about intelligent design only politicize the theory and will hinder fair and open discussion of the merits of the theory among scholars and within the scientific community. Furthermore, most teachers at the present time do not know enough about intelligent design to teach about it accurately and objectively.

Instead of mandating intelligent design, Discovery Institute seeks to increase the coverage of evolution in textbooks. It believes that evolution should be fully and completely presented to students, and they should learn more about evolutionary theory, including its unresolved issues. In other words, evolution should be taught as a scientific theory that is open to critical scrutiny, not as a sacred dogma that can't be questioned

Discovery Institute believes that a curriculum that aims to provide students with an understanding of the strengths and weaknesses of neo-Darwinian and chemical evolutionary theories (rather than teaching an alternative theory, such as intelligent design) represents a common ground approach that all reasonable citizens can agree on."


At this point, we appear to be between phase 1 and 2 of Wedge strategy. There is the hesitance to teach Intelligent Design in the classrooms yet, but we are currently in a phase where there is a desire to undermine the validity of evolutionary theory in schools. As the opposition, with strong support from Discovery Institute yearns to "teach the controversy", they also deny any desire to teach Intelligent Design in the classroom. This is perhaps because we haven't reached that phase in the Wedge Document yet. Eventually, the Discovery Institute does, of course, wish to have Intelligent Design taught in classrooms; after all, the Wedge Document showcases a yearning to undermine the definition of science and the validity of evolutionary theory (and replace it with Intelligent Design).

"Four states (Minnesota, New Mexico, Pennsylvania, and South Carolina) have science standards that require learning about some of the scientific controversies relating to evolution.

Although Discovery Institute does not advocate requiring the teaching of intelligent design in public schools, it does believe there is nothing unconstitutional about voluntarily discussing the scientific theory of design in the classroom. In addition, the Institute opposes efforts to persecute individual teachers who may wish to discuss the scientific debate over design in an objective and pedagogically appropriate manner"


This statement should be revised to "Although Discovery Institute does not yet advocate requiring the teaching of intelligent design in public schools". As mentioned above (and also in my Wedge Document blog), the Discovery Institute does support replacing evolutionary theory with Intelligent Design in the scientific realm, and also by default the classroom, eventually. Teach the controversy now, teach Intelligent Design 5 or 10 or 15 years down the road. This way, students will be raised to doubt evolution first, and thus will become more receptive to the teaching of Intelligent Design. With luck, in a few generations, you'll succeed in raising students who will easily accept Intelligent Design. This strategy is perhaps Discovery Institute's best chance to gain some sort of scientific legitimacy. By slowly wedging their way into the scientific curriculum, they would theoretically succeed in raising America's children to accept Intelligent Design. A nation of people open to Intelligent Design would most definitely be an asset to Discovery Institute's attempt to undermine scientific materialism and redefine society. Scary thought.

"The U.S. Supreme Court in Edwards v. Aguillard strongly affirmed the individual teacher’s right to academic freedom. It also recognized that, while the statute requiring the teaching of creationism in that case was unconstitutional, “…teaching a variety of scientific theories about the origins of humankind to schoolchildren might be validly done with the clear secular intent of enhancing the effectiveness of science instruction.”

Here's an attempt to gain legal validity by the Discovery Institute. They can't legally teach Intelligent Design in the classroom because, as shown in a previous blog, Intelligent Design is inseparable from Creationism. However, by slowly wedging into the curriculum by teaching "a variety of scientific theories" (hey, here's a new scientific theory called "Intelligent Design"?), the Discovery Institute appears to see a possible way to infilitrate America's education system. Whether or not they succeed remains to be seen.

Works Cited:

Discovery Institute's Science Education Policy. Discovery Institute. 9/10/2007

Quick news update

Dear Discovery Institute,

Just thought you'd enjoy seeing a recent publication that yet again proves Behe's "irreducible complexity" argument for the bacterial flagellum wrong. Here's the links, hope you enjoy!!

http://www.newscientist.com/channel/life/mg19726431.900-uncovering-the-evolution-of-the-bacterial-flagellum.html

http://pandasthumb.org/archives/2008/02/flagellum-evolu-4.html#more

http://psom.blogspot.com/2008/02/evolutions-engine.html

As I have already touched upon this subject in a previous blog, I will not burden you with a full discussion of this information. The links above will be sufficient to show you some of the implications of the work.

Saturday, February 16, 2008

Stephen Meyer teaches Wedge Strategy

Dear Discovery Institute,

Haven't written in a while. How have you been? I've been good, but am growing intriqued by the work of Stephen C Meyer, one of your Vice Presidents. As you know, Stephen Meyer is a proponent of the "teach the controversy" approach to evolution and Intelligent Design, and also a supporter of "On Pandas and People", which we have experienced in an earlier discussion. Lets investigate his article titled "The Origin of Life and the Death of Materialism".

First, we will return to a common theme in these blogs. Does this article remain consonant with Wedge Strategy? The answer is a resounding "yes", and as the following quote seems to imply, Intelligent Design is essentially a way to promote Wedge Strategy:

"Thus, for scientific materialists at the end of the nineteenth century, the whole history of the universe and life could be told as a seamless‚ or nearly seamless, unfolding of the potentiality of matter and energy. No longer could it be held that a pre-existent mind shaped matter. Rather, modern science showed that matter shaped and created the capacities of mind (and not the reverse). God did not create "the heavens and the earth." The heavens and the earth (i.e., matter) created (via evolution) the minds that created the concept of God.

By the turn of the twentieth century, this once shockingly materialistic approach to science had become the norm. Most twentieth century scientists have assumed no limits to the explanatory power of materialistic forces. Materialistic modes of thought and assumptions have spread from physics and biology to psychology, sociology, criminology, economics, educational theory, and even theology. Thus, Whitehead would in the end attempt to reconcile science and religion by asserting that even God himself evolves.

Yet now at the end of the twentieth century after many wars and genocidal policies pursued in the name of materialistic "science-based" ideologies, the scientific picture of the world is rapidly changing. From the microcosm of the cell and the quantum world, to the macrocosm of an expanding and finely-tuned universe, the materialistic vision of nature now seems incomplete. Even in biology where Darwin's theory, perhaps more than any other, inspired the possibility of a fully materialistic world view, materialism now seems to be failing as scientists have uncovered an awe-inspiring complexity in even the simplest of living cells. Indeed, nowhere is the inadequacy of materialistic science more evident than in the contemporary discussion of how life in its very "simplest" form might have first originated."
(Meyer 1996)

So, as implied by this statement, the materialistic worldview is destined to fall; for those who haven't read my other blogs, in laymen's terms, the implication here is that the very definition of science is supposed to be due to be overthrown (or at least according to Meyer's comments here). But is this truly the case? As I have shown previously, the very structures paraded as "irreducibly complex" by the Intelligent Design movement have been shown to be evolvable. Therefore, this statement by Meyer is obviously outdated, and currently inaccurate. While
most groups would give up an argument once it becomes untenable, however, Discovery Institute still holds onto the "irreducibly complex" argument. Therefore, besides the point that this constitutes an extremely poor attempt at science, it is possible to still use Meyer's 1996 statement to day as a good explanation of Discovery Institute's views, mainly because it is still an accurate representation.

Next, Meyer goes on to attempt to deny the evolvability of DNA (after discussing origin-of-life research, which is not my area of expertise). See, for example, the following quote:

"Second, in nature every amino acid has a distinct mirror image of itself, one left-handed version or L-form and one right-handed version or D-form. These mirror-image forms are called optical isomers. Functioning proteins tolerate only left-handed amino acids, yet the right-handed and left-handed isomers occurs in nature with roughly equal frequency. Taking this into consideration compounds the improbability of attaining a biologically functioning protein. The probability of attaining at random only L-amino acids in a hypothetical peptide chain 100 amino acids long is again (1/2)100 or roughly 1 chance in 10^30. The probability of building a 100 amino acid length chain at random in which all bonds are peptide bonds and all amino acids are L-form would be (1/4)100 or roughly 1 chance in 10^60(zero for all practical purposes given the time available on the early earth). " (Meyer 1996).

While to some readers, this may seem like a valid argument, it is not. In April 2001, Robert Hazen published an article titled "Life's Rocky Start", which discusses geology-based research that accounts for the left-handed bias in amino acids. In this article, Hazen shows that if mineral facies are used as a point of growth for amino acids, then biases in "handedness" will occur. One of the most "useful" minerals for a left-handed bias is Calcite. While research is still ongoing on this possibility, it shows promising results thus far.

It is also worth noting that Meyer goes on to claim that Intelligent Design is the only known explanation for the creation of "information" in organic systems. Let's see the claim, however:

"since intelligent design is the only known cause of information-rich systems, the presence of information--including the information-rich nucleotide sequences in DNA--implies an intelligent source. Scientists in many fields recognize the connection between intelligence and information and make inferences accordingly. Archaeologists assume a mind produced the inscriptions on the Rosetta Stone. Evolutionary anthropologists try to demonstrate the intelligence of early hominids by arguing that certain chipped flints are too improbably specified to have been produced by natural causes. N.A.S.A.'s search for extra-terrestrial intelligence (S.E.T.I.) presupposed that information imbedded in electromagnetic signals from space would indicate an intelligent source. As yet, however, radio-astronomers have not found information-bearing signals coming from space. But closer to home, molecular biologists have identified encoded information in the cell. Consequently, a growing number of scientists now suggest that the information in DNA justifies making what probability theorist William Dembski and biochemist Michael Behe call "the design inference." (Meyer 1996).

To disprove this statement would severly undermine Meyer's credibility, and the credibility of the Discovery Institute as a whole. So, lets consider the following question: Is Intelligent Design the only explanation for the evolution of biological information? No. But don't take my word for it; let's see some of the technical literature!! First, here's an experiment showing the evolvability of information. I will quote the abstract, then link the entire article under works cited:

"How do genetic systems gain information by evolutionary processes? Answering this question precisely requires a robust, quantitative measure of information. Fortunately, 50 years ago Claude Shannon defined information as a decrease in the uncertainty of a receiver. For molecular systems, uncertainty is closely related to entropy and hence has clear connections to the Second Law of Thermodynamics. These aspects of information theory have allowed the development of a straightforward and practical method of measuring information in genetic control systems. Here this method is used to observe information gain in the binding sites for an artificial ‘protein’ in a computer simulation of evolution. The simulation begins with zero information and, as in naturally occurring genetic systems, the information measured in the fully evolved binding sites is close to that needed to locate the sites in the genome. The transition is rapid, demonstrating that information gain can occur by punctuated equilibrium. " (Schneider 2000)

There's one source showing that information is evolvable. Is this conclusion repeatable? Adami et al show that it is, in fact reproducable.

"To make a case for or against a trend in the evolution of complexity in biological evolution, complexity needs to be both rigorously defined and measurable. A recent information-theoretic (but intuitively evident) definition identifies genomic complexity with the amount of information a sequence stores about its environment. We investigate the evolution of genomic complexity in populations of digital organisms and monitor in detail the evolutionary transitions that increase complexity. We show that, because natural selection forces genomes to behave as a natural "Maxwell Demon," within a fixed environment, genomic complexity is forced to increase. " (Adami et al 2000)

Thus, the claim that Intelligent Design is the only explanation for biological complexity is proven false. Yet another blow to the coffin of Intelligent Design, and also the Discovery Institute's Wedge Strategy. Let us conclude with a final quote from Meyer's 1996 article:

"Other work promises to reshape our conception, not only of living things but of our science and ourselves. If the simplest life owes its origin to an intelligent Creator, then perhaps man is not the "cosmic orphan" that twentieth century scientific materialism has taught. Perhaps then, during the twenty first century, the traditional moral and spiritual foundations of the West will find support from the very sciences that once seemed to undermine them. " (Meyer 1996)

Here we see more of Discovery Institute's Wedge Strategy at work. This is a telling quote, because it shows that Intelligent Design advocates are appealing to religion as a source of legitimacy to some degree; see, for example, how the above quote attempts to show that Intelligent Design proves the validity of religion. As shown by the blogs on this site, however, Intelligent Design does not itself have scientific validity as a theory. However, ID proponents keep attempting to undermine the definition of modern science in attempt to give their "theory" scientific validity. Until they can provide compelling evidence in favor of this action, their attempts to gain scientific validity will consistently fail.

Works Cited:
Adami, C., Ofria, C., Collier, T. "Evolution of Biological Complexity". PNAS, April 25, 2000. Vol. 97, no. 9. 4463-4468. http://www.pnas.org/cgi/content/full/97/9/4463
Hazen, R. "Life's Rocky Start". Scientific American, April 2001.
Meyer, S.C. "The Origin of Life and the Death of Materialism". The Intercollegiate Review 31, no. 2. April 1, 1996.
http://www.discovery.org/a/98
Schneider, T. "Evolution of Biological Information" Nucleic Acids Research, 2000. Vol. 28 No 14. 2794-2799. http://nar.oxfordjournals.org/cgi/content/full/28/14/2794

Sunday, January 20, 2008

Intelligent Design, Creationism, and a panda with a sore thumb

Dear Discovery Institute,

Today we will be discussing Dean Kenyon and whether or not Intelligent Design is linked to Creation Science. It is perhaps best to let Kenyon's own words express his viewpoint, so let's let his own words speak for him.

Dean Kenyon is a prominent defender of Creation science. In fact,Answers in Genesis lists him in a listing of Creation Scientists (see list http://www.answersingenesis.org/home/area/bios/default.asp), and he was a witness in the Edwards v. Aquillard evolution-creation case in favor of Creation Science(see link for trial transcript with Kenyon)(http://www.talkorigins.org/faqs/edwards-v-aguillard/kenyon.html ). Let's consider parts of his affidavit:

" It is my opinion, although not in the area of my expertise, that creation-science is as nonreligious as evolution."

This shows that Kenyon accepts Creation Science as scientifically valid. Thus, it calls into question the validity of Pandas...ie could Of Pandas and People be a Creationist text in disguise? Let's see another quote from the above link:

"Creation-science means origin through abrupt appearance in complex form, and includes biological creation, biochemical creation (or chemical creation), and cosmic creation. Evolution-science is equivalent to evolution. Evolution is generally understood by scientists (although some would disagree) to include biological evolution (or organic evolution) from simple life to all plants and animals, biochemical evolution (or chemical evolution or prebiotic evolution of the first life), and cosmic evolution (including stellar evolution) (of the universe). Creation-science does not include as essential parts the concepts of catastrophism, a world-wide flood, a recent inception of the earth or life, from nothingness (ex nihilo), the concept of kinds, or any concepts from Genesis or other religious texts. The subject of origins is a part of evolution, and the origin of the first life and tre-origin of the universe are generally regarded by the scientific community as part of evolution."

This almost sounds like an early discussion of Intelligent Design. Perhaps that is because it is. In "Of Pandas and People", Kenyon and Davis state the following:

"Intelligent Design means that various forms of life began abruptly through an abrupt agency, with their distinctive features already intact--fish with fins and scales, birds with feathers, beaks, and wings, etc." (Kenyon and Davis 1989)

Intelligent Design appears to be the same thing as Creation Science according to Kenyon. Would the Discovery Institute support such a text? If yes, then it would be evidence that the Discovery Institute accepts Intelligent Design as Creation Science. Here, we see Stephen Meyer, a major player at the Discovery Institute, actually writing a "note to teachers" to be published within the textbook supplement ( http://www.discovery.org/scripts/viewDB/index.php?command=view&id=1671 ). Shows that at least some at Discovery Institute at one point at least accepted the validity of the textbook, and thus Creation Science as a whole. Is it possible that the book itself never was a Creationist textbook supplement? No. In 1986, this exact textbook was published as "Creation and Biology". The only differences between the 2 books are the name and the fact that Creation science is changed to intelligent design in the 1989 edition. Telling. So the Discovery Institute (or at least some of its higher-ups) support an initially Creationist textbook supplement.

Time for another statement by Kenyon (from the trial transcript linked):

"The creationist scientific conclusion is that empirical data currently in hand demand the inference that the first living organisms were created. This view of the origin of life is based on a detailed analysis of laboratory information from molecular biology, biochemistry, organic chemistry, the simulation experiments on chemical evolution, as well as relevant aspects of physics, geology, astrophysics, probability and information theory."

Again, sounds exactly like Intelligent Design theory. There seems to be some sort of pattern here. Let's read some more from the trial transcript:

"At the heart of the molecular activity of all living cells is the genetic coding and protein-synthesizing machinery which stores and translates biologic information. This information is contained in the specific linear sequences of the subunits of DNA, RNA and proteins. At least 20 different proteins are required for the replication of DNA. At least another 50 proteins are needed to transcribe and translate the information stored in the DNA molecules into the amino acid sequences of proteins (J. Fox 1978; Sheeler and Bianchi 1980). Among these proteins are the aminoacylsynthetases, the enzymes that link the various amino acids to their respective transfer RNA molecules. In the absence of even one of these enzymes, protein synthesis does not take place. The genetic code is actually read by the aminoacylsynthetases since they match an amino acid with its own transfer-RNA molecule. If we go back into the past to the first time the protein-synthesizing machinery functioned, we are faced with the problem of the origin of the necessary aminoacylsynthetases. Where did the proteins come from before the protein-synthesizing system originated? One can postulate that the necessary proteins formed abiotically in the primitive ocean, but there is virtually no experimental evidence for such a postulate. "

Here we have Behe's Irreducible Complexity concept, proposed as part of Creation Science. But Intelligent Design isn't the same thing as Creation Science. Or is it? What can one do to explain these extremely close similarities without accepting the two "sciences" as one in the same? Perhaps ignore the evidence and paper trail? Let's look at one final quote from the trial transcript:

"These scientific considerations form the core of biochemical creation, and show that it is as scientific as chemical evolution, and in fact is preferable in scientific plausibility to chemical evolution. These are weighty issues of fact. Evidence often taken to support a naturalistic chemical origin of life, actually, upon close analysis, points in another direction, namely, toward the conclusion that the first life was created. The data of molecular biology, especially the details of the genetic-coding and protein-synthesizing systems, lend further powerful support to this view. Probability arguments applied to the problem of the origin of genetic information also confirm the creationist view of origins. Laboratory data and theoretic arguments concerning the origin of the first life lead one to doubt the evolution of subsequent forms of life. The fossil record and other lines of evidence confirm this suspicion. In short, when all the available evidence is carefully assessed in toto, the evolutionary story of origins appears significantly less probable than the creationist view."

Attacks on naturalistic explanations for life? Sounds like...Wedge Strategy. Probability attacks? Brings to mind the work of William Dembski. Sounds like Intelligent Design really does have a lot in common with Creation Science after all! What would be thoroughly damning for Discovery Institute's claim that Intelligent Design is not science would be to have a Creation Scientist, such as Kenyon, as a member. And surprisingly enough, Dean Kenyon is indeed a fellow of the Discovery Institute! http://www.discovery.org/scripts/viewDB/index.php?command=view&id=89&isFellow=true

Dear Discovery Institute, if you hope to uphold any scientific validity, you have a lot of explaining to do. It seems as if Intelligent Design is closer to Creation Science than you claim to accept. Perhaps we are not getting the whole story from you.



Davis, P. and Kenyon, D. "Of Pandas and People: The Central Question of Biological Origins". Haughton Publishing Company. Dallas. 1989

Edwards Vs Aguillard trial transcript links:

http://www.law.cornell.edu/supct/html/historics/USSC_CR_0482_0578_ZD.html
http://www.talkorigins.org/faqs/edwards-v-aguillard/kenyon.html (Kenyon's affidavit)
http://supreme.justia.com/us/482/578/case.html

Wednesday, January 16, 2008

The Wedge Document...so what?

Dear Discovery Institute,

Now it is time to face one of our biggest issues, namely, the Wedge Document itself. First, lets see the document itself. It is visible at http://www.discovery.org/scripts/viewDB/filesDB-download.php?id=349 , but I will include text of the Wedge Document on this blog as well:

"CENTER FOR THE RENEWAL OF SCIENCE & CULTURE


INTRODUCTION

The proposition that human beings are created in the image of God is one of the bedrock principles on which Western civilization was built. Its influence can be detected in most, if not all, of the West's greatest achievements, including representative democracy, human rights, free enterprise, and progress in the arts and sciences.


Yet a little over a century ago, this cardinal idea came under wholesale attack by intellectuals drawing on the discoveries of modern science. Debunking the traditional conceptions of both God and man, thinkers such as Charles Darwin, Karl Marx, and Sigmund Freud portrayed humans not as moral and spiritual beings, but as animals or machines who inhabited a universe ruled by purely impersonal forces and whose behavior and very thoughts were dictated by the unbending forces of biology, chemistry, and environment. This materialistic conception of reality eventually infected virtually every area of our culture, from politics and economics to literature and art


The cultural consequences of this triumph of materialism were devastating. Materialists denied the existence of objective moral standards, claiming that environment dictates our behavior and beliefs. Such moral relativism was uncritically adopted by much of the social sciences, and it still undergirds much of modern economics, political science, psychology and sociology.


Materialists also undermined personal responsibility by asserting that human thoughts and behaviors are dictated by our biology and environment. The results can be seen in modern approaches to criminal justice, product liability, and welfare. In the materialist scheme of things, everyone is a victim and no one can be held accountable for his or her actions.


Finally, materialism spawned a virulent strain of utopianism. Thinking they could engineer the perfect society through the application of scientific knowledge, materialist reformers advocated coercive government programs that falsely promised to create heaven on earth.


Discovery Institute's Center for the Renewal of Science and Culture seeks nothing less than the overthrow of materialism and its cultural legacies. Bringing together leading scholars from the natural sciences and those from the humanities and social sciences, the Center explores how new developments in biology, physics and cognitive science raise serious doubts about scientific materialism and have re-opened the case for a broadly theistic understanding of nature. The Center awards fellowships for original research, holds conferences, and briefs policymakers about the opportunities for life after materialism.


The Center is directed by Discovery Senior Fellow Dr. Stephen Meyer. An Associate Professor of Philosophy at Whitworth College, Dr. Meyer holds a Ph.D. in the History and Philosophy of Science from Cambridge University. He formerly worked as a geophysicist for the Atlantic Richfield Company.


THE WEDGE STRATEGY


Phase I.


* Scientific Research, Writing & Publicity


Phase II.


* Publicity & Opinion-making


Phase III.


* Cultural Confrontation & Renewal


THE WEDGE PROJECTS


Phase I. Scientific Research, Writing & Publication


* Individual Research Fellowship Program

* Paleontology Research program (Dr. Paul Chien et al.)

* Molecular Biology Research Program (Dr. Douglas Axe et al.)


Phase II. Publicity & Opinion-making


* Book Publicity

* Opinion-Maker Conferences

* Apologetics Seminars

* Teacher Training Program

* Op-ed Fellow

* PBS (or other TV) Co-production

* Publicity Materials / Publications


Phase III. Cultural Confrontation & Renewal


* Academic and Scientific Challenge Conferences

* Potential Legal Action for Teacher Training

* Research Fellowship Program: shift to social sciences and humanities


FIVE YEAR STRATEGIC PLAN SUMMARY


The social consequences of materialism have been devastating. As symptoms, those consequences are certainly worth treating. However, we are convinced that in order to defeat materialism, we must cut it off at its source. That source is scientific materialism. This is precisely our strategy. If we view the predominant materialistic science as a giant tree, our strategy is intended to function as a "wedge" that, while relatively small, can split the trunk when applied at its weakest points. The very beginning of this strategy, the "thin edge of the wedge," was Phillip ]ohnson's critique of Darwinism begun in 1991 in Darwinism on Trial, and continued in Reason in the Balance and Defeatng Darwinism by Opening Minds. Michael Behe's highly successful Darwin's Black Box followed Johnson's work. We are building on this momentum, broadening the wedge with a positive scientific alternative to materialistic scientific theories, which has come to be called the theory of intelligent design (ID). Design theory promises to reverse the stifling dominance of the materialist worldview, and to replace it with a science consonant with Christian and theistic convictions.


The Wedge strategy can be divided into three distinct but interdependent phases, which are roughly but not strictly chronological. We believe that, with adequate support, we can accomplish many of the objectives of Phases I and II in the next five years (1999-2003), and begin Phase III (See "Goals/ Five Year Objectives/Activities").


Phase I: Research, Writing and Publication


Phase II: Publicity and Opinion-making


Phase III: Cultural Confrontation and Renewal


Phase I is the essential component of everything that comes afterward. Without solid scholarship, research and argument, the project would be just another attempt to indoctrinate instead of persuade. A lesson we have learned from the history of science is that it is unnecessary to outnumber the opposing establishment. Scientific revolutions are usually staged by an initially small and relatively young group of scientists who are not blinded by the prevailing prejudices and who are able to do creative work at the pressure points, that is, on those critical issues upon which whole systems of thought hinge. So, in Phase I we are supporting vital witting and research at the sites most likely to crack the materialist edifice.


Phase II. The pnmary purpose of Phase II is to prepare the popular reception of our ideas. The best and truest research can languish unread and unused unless it is properly publicized. For this reason we seek to cultivate and convince influential individuals in pnnt and broadcast media, as well as think tank leaders, scientists and academics, congressional staff, talk show hosts, college and seminary presidents and faculty, future talent and potential academic allies. Because of his long tenure in politics, journalism and public policy, Discovery President Bruce Chapman brings to the project rare knowledge and acquaintance of key op-ed writers, journalists, and political leaders. This combination of scientific and scholarly expertise and media and political connections makes the Wedge unique, and also prevents it from being "merely academic." Other activities include production of a PBS documentary on intelligent design and its implications, and popular op-ed publishing. Alongside a focus on influential opinion-makers, we also seek to build up a popular base of support among our natural constituency, namely, Chnstians. We will do this primarily through apologetics seminars. We intend these to encourage and equip believers with new scientific evidence's that support the faith, as well as to "popularize" our ideas in the broader culture.


Phase III. Once our research and writing have had time to mature, and the public prepared for the reception of design theory, we will move toward direct confrontation with the advocates of materialist science through challenge conferences in significant academic settings. We will also pursue possible legal assistance in response to resistance to the integration of design theory into public school science curricula. The attention, publicity, and influence of design theory should draw scientific materialists into open debate with design theorists, and we will be ready. With an added emphasis to the social sciences and humanities, we will begin to address the specific social consequences of materialism and the Darwinist theory that supports it in the sciences.


GOALS


Governing Goals


* To defeat scientific materialism and its destructive moral, cultural and political legacies.

* To replace materialistic explanations with the theistic understanding that nature and hurnan beings are created by God.


Five Year Goals


* To see intelligent design theory as an accepted alternative in the sciences and scientific research being done from the perspective of design theory.

* To see the beginning of the influence of design theory in spheres other than natural science.

* To see major new debates in education, life issues, legal and personal responsibility pushed to the front of the national agenda.


Twenty Year Goals


* To see intelligent design theory as the dominant perspective in science.

* To see design theory application in specific fields, including molecular biology, biochemistry, paleontology, physics and cosmology in the natural sciences, psychology, ethics, politics, theology and philosophy in the humanities; to see its innuence in the fine arts.

* To see design theory permeate our religious, cultural, moral and political life.


FIVE YEAR OBJECTIVES


1. A major public debate between design theorists and Darwinists (by 2003)


2. Thirty published books on design and its cultural implications (sex, gender issues, medicine, law, and religion)


3. One hundred scientific, academic and technical articles by our fellows


4. Significant coverage in national media:


* Cover story on major news magazine such as Time or Newsweek

* PBS show such as Nova treating design theory fairly

* Regular press coverage on developments in design theory

* Favorable op-ed pieces and columns on the design movement by 3rd party media


5. Spiritual & cultural renewal:

* Mainline renewal movements begin to appropriate insights from design theory, and to repudiate theologies influenced by materialism

* Major Christian denomination(s) defend(s) traditional doctrine of creation & repudiate(s)

* Darwinism Seminaries increasingly recognize & repudiate naturalistic presuppositions

* Positive uptake in public opinion polls on issues such as sexuality, abortion and belief in God


6. Ten states begin to rectify ideological imbalance in their science curricula & include design theory


7. Scientific achievements:


* An active design movement in Israel, the UK and other influential countries outside the US

* Ten CRSC Fellows teaching at major universities

* Two universities where design theory has become the dominant view

* Design becomes a key concept in the social sciences Legal reform movements base legislative proposals on design theory


ACTVITIES


(1) Research Fellowship Program (for writing and publishing)

(2) Front line research funding at the "pressure points" (e.g., Daul Chien's Chengjiang Cambrian Fossil Find in paleontology, and Doug Axe's research laboratory in molecular biology)


(3) Teacher training


(4) Academic Conferences


(5) Opinion-maker Events & Conferences


(6) Alliance-building, recruitment of future scientists and leaders, and strategic partnerships with think tanks, social advocacy groups, educational organizations and institutions, churches, religious groups, foundations and media outlets


(7) Apologetics seminars and public speaking


(8) Op-ed and popular writing


(9) Documentaries and other media productions


(10) Academic debates


(11) Fund Raising and Development


(12) General Administrative support


THE WEDGE STRATEGY PROGRESS SUMMARY


Books


William Dembski and Paul Nelson, two CRSC Fellows, will very soon have books published by major secular university publishers, Cambridge University Press and The University of Chicago Press, respectively. (One critiques Darwinian materialism; the other offers a powerful altenative.)


Nelson's book, On Common Descent, is the seventeenth book in the prestigious University of Chicago "Evolutionary Monographs" series and the first to critique neo-Dacwinism. Dembski's book, The Design Inference, was back-ordered in June, two months prior to its release date.


These books follow hard on the heals of Michael Behe's Darwin's Black Box (The Free Press) which is now in paperback after nine print runs in hard cover. So far it has been translated into six foreign languages. The success of his book has led to other secular publishers such as McGraw Hill requesting future titles from us. This is a breakthrough.


InterVarsity will publish our large anthology, Mere Creation (based upon the Mere Creation conference) this fall, and Zondervan is publishing Maker of Heaven and Earth: Three Views of the Creation-Evolution Contoversy, edited by fellows John Mark Reynolds and J.P. Moreland.


McGraw Hill solicited an expedited proposal from Meyer, Dembski and Nelson on their book Uncommmon Descent. Finally, Discovery Fellow Ed Larson has won the Pulitzer Prize for Summer for the Gods, his retelling of the Scopes Trial, and InterVarsity has just published his co-authored attack on assisted suicide, A Different Death.


Academic Articles


Our fellows recently have been featured or published articles in major sciendfic and academic journals in The Proceedings to the National Academy of Sciences, Nature, The Scientist, The American Biology Teacher, Biochemical and Biophysical Research Communications, Biochemirtry, Philosophy and Biology, Faith & Philosophy, American Philosophical Quarterly, Rhetoric & Public Affairs, Analysis, Book & Culture, Ethics & Medicine, Zygon, Perspectives on Science and the Christian Faith, Relgious Studies, Christian Scholars' Review, The Southern Journal ofPhilosophy, and the Journal of Psychalogy and Theology. Many more such articles are now in press or awaiting review at major secular journals as a result of our first round of research fellowships. Our own journal, Origins & Design, continues to feature scholarly contribudons from CRSC Fellows and other scientists.


Television and Radio Appearances


During 1997 our fellows appeared on numerous radio programs (both Christian and secular) and five nationally televised programs, TechnoPolitics, Hardball with Chris Matthews, Inside the Law, Freedom Speaks, and Firing Line. The special edition of TechnoPolitics that we produced with PBS in November elicited such an unprecedented audience response that the producer Neil Freeman decided to air a second episode from the "out takes." His enthusiasm for our intellectual agenda helped stimulate a special edition of William F. Buckley's Firing Line, featuring Phillip Johnson and two of our fellows, Michael Behe and David Berlinski. At Ed Atsinger's invitation, Phil Johnson and Steve Meyer addressed Salem Communications' Talk Show Host conference in Dallas last November. As a result, Phil and Steve have been interviewed several times on Salem talk shows across the country. For example, in ]uly Steve Meyer and Mike Behe were interviewed for two hours on the nationally broadcast radio show ]anet Parshall's America. Canadian Public Radio (CBC) recently featured Steve Meyer on their Tapestry program. The episode, "God & the Scientists," has aired all across Canada. And in April, William Craig debated Oxford atheist Peter Atkins in Atlanta before a large audience (moderated by William F. Buckley), which was broadcast live via satellite link, local radio, and intenet "webcast."


Newspaper and Magazine Articles


The Firing Line debate generated positive press coverage for our movement in, of all places, The New York Times, as well as a column by Bill Buckley. In addition, our fellows have published recent articles & op-eds in both the secular and Christian press, including, for example, The Wall Street Journal, The New York Times, The Washington Times, National Review, Commentary, Touchstone, The Detroit News, The Boston Review, The Seattle Post-lntelligenter, Christianity Toady, Cosmic Pursuits and World. An op-ed piece by Jonathan Wells and Steve Meyer is awaiting publication in the Washington Post. Their article criticizes the National Academy of Science book Teaching about Evolution for its selective and ideological presentation of scientific evidence. Similar articles are in the works."


What does the Discovery Institute say about all this? They attempt to explain away the document as nothing more than a modest fundraising proposal. (see link) However, note that they do not attempt to debunk the validity of the document, and indeed admit to its authenticity. Note also that "Wedge Strategy" has been incorporated into the work of many ID theorists (for example, Jonathan Wells). The paper trail that has been pointed to throughout these blogs show that the Wedge Strategy is an attempt to redefine the definition of science itself. The Discovery Institute admits this fact as well, and complain that science is controlled by "Scientific materialists". However, the fact is that science cannot deal with that which can't be touched or percieved, and therefore by nature the supernatural is not part of science.

In "The Wedge Document, So What?" (see link), the Discovery Institute argues that they are not trying to force a theocracy. However, that is besides the point. The question is whether or not they are attempting to push religion into science classrooms. Although the Discovery Institute maintains that the Designer is not named (ie no religion is favored), lets look at a quote from the Wedge Document:


"Alongside a focus on influential opinion-makers, we also seek to build up a popular base of support among our natural constituency, namely, Chnstians. We will do this primarily through apologetics seminars. We intend these to encourage and equip believers with new scientific evidence's that support the faith, as well as to "popularize" our ideas in the broader culture. "

This statement shows the fact that they are in fact (apparently) attempting to use Intelligent Design to support Christianity. Not a theocracy, but it is a practice that has been declared unconstitutional (if the Discovery Institute hopes to one day put Intelligent Design into the classroom). This action would violate the seperation of church and state clause in the Constitution, and similar attempts to do this have been repeatedly shot down by the Supreme Court.

Let's consider another short quote for more damning evidence:

"Governing Goals


* To defeat scientific materialism and its destructive moral, cultural and political legacies.

* To replace materialistic explanations with the theistic understanding that nature and hurnan beings are created by God. "


Let's look at Discovery Institute's comment on a similar statement from the Wedge Document (taken from linked article):

"Discovery Institute's Center...wants to reverse the stifling dominance of the materialist worldview, and to replace it with a science consonant with Christian and theistic convictions. [from Wedge Document]

This passage instead was referring to our conviction that sceince, rather than supporting a materialistic philosophy, is at least consistent with theistic belief, including Christian belief. In fact, some of our fellows actually go further than this. They think that new developments in science may actually support a theistic worldview or have "theistic implications," even though they do not think that science can "prove" the existence of God or specific religious doctrines"


Again, telling. This shows that the Discovery Institute does, indeed, aim to redefine science to include the supernatural. Under the definition of science required to incorporate Intelligent Design, astrology would also be considered a science. Also please note the Discovery Institute quote that ends with "even though they do not think that science can 'prove' the existence of God" (above). If you can't prove a Designer exists, then Intelligent Design necessarily fails the test of science, even if science were redefined to include the supernatural. As shown, Intelligent Design is not science. Besides, even if the definition of science were changed so that Intelligent Design could be considered science, it would fail the burden of proof. I have shown this before by showing evolutionary pathways for structures that the ID movement claims to be "irreducibly complex", and the Discovery Institute shows us that by admitting that you cannot prove the existence of "God" (the "Creator"). Game over.