Tag Archives: Douglas Axe

New book on intelligent design by molecular biologist Douglas Axe

Undeniable: How Biology Confirms Our Intuition That Life Is Designed
Undeniable: How Biology Confirms Our Intuition That Life Is Designed

It’s not out yet, but the Kindle edition is only $12.99, so I pre-ordered it. That helps to get the book up in the bestseller lists. I’ll add it to my list of books that I am reading for the third quarter later, and maybe feature it in the coveted spot in the right column of the blog.

Anyway, here is the description:

Throughout his distinguished and unconventional career, engineer-turned-molecular-biologist Douglas Axe has been asking the questions that much of the scientific community would rather silence. Now, he presents his conclusions in this brave and pioneering book. Axe argues that the key to understanding our origin is the “design intuition”—the innate belief held by all humans that tasks we would need knowledge to accomplish can only be accomplished by someone who has that knowledge. For the ingenious task of inventing life, this knower can only be God.

Starting with the hallowed halls of academic science, Axe dismantles the widespread belief that Darwin’s theory of evolution is indisputably true, showing instead that a gaping hole has been at its center from the beginning. He then explains in plain English the science that proves our design intuition scientifically valid. Lastly, he uses everyday experience to empower ordinary people to defend their design intuition, giving them the confidence and courage to explain why it has to be true and the vision to imagine what biology will become when people stand up for this truth.

Armed with that confidence, readers will affirm what once seemed obvious to all of us—that living creatures, from single-celled cyanobacteria to orca whales and human beings, are brilliantly conceived, utterly beyond the reach of accident.

Our intuition was right all along.

Trailer is here:

Evolution News has a deal for those who pre-order:

A remarkable thing about evolutionary theory is the way it demands that we deny our intuition at almost every step. Evolutionists then assure us that the science is all figured out, so we needn’t trouble our silly heads about the relevant biology.

In a new book, Douglas Axe of Biologic Institute turns this standard assurance on its head. In Undeniable: How Biology Confirms Our Intuition That Life Is Designed, Dr. Axe restores the place of intuition alongside intellect in considering the question of life’s origins.

Undeniable will be published on July 12 by HarperOne, but you can pre-order before then and participate in an exclusive, private conference call with Dr. Axe and talk- show host Michael Medved. You’ll also receive digital versions of three complete books from Discovery Institute Press: Debating Darwin’s Doubt, The Unofficial Guide to Cosmos, and Science & Human Origins. See here for easy instructions.

And now, I have a secret story to tell you. I met Doug Axe face to face way back in the late 1990s. He told me and some other people about the post-doctoral work he was doing at Cambridge University on the probabilities of getting a functional protein by chance. He made me promise not to tell anyone, and I never did. It was from conversations like that with the intelligent design scholars that I decided to start using an alias.

From his research at Cambrudge, Dr. Axe found that the number of functional amino acid sequences is tiny:

Doug Axe’s research likewise studies genes that it turns out show great evidence of design. Axe studied the sensitivities of protein function to mutations. In these “mutational sensitivity” tests, Dr. Axe mutated certain amino acids in various proteins, or studied the differences between similar proteins, to see how mutations or changes affected their ability to function properly. He found that protein function was highly sensitive to mutation, and that proteins are not very tolerant to changes in their amino acid sequences. In other words, when you mutate, tweak, or change these proteins slightly, they stopped working. In one of his papers, he thus concludes that “functional folds require highly extraordinary sequences,” and that functional protein folds “may be as low as 1 in 10^77.”

The problem of forming DNA by sequencing nucleotides faces similar difficulties. And remember, mutation and selection cannot explain the origin of the first sequence, because mutation and selection require replication, which does not exist until that first living cell is already in place.

He published his findings in four separate publications with the prestigious Journal of Molecular Biology, and got his PhD with it. To get a PhD from Caltech, and then do post-doctoral work at Cambridge, you have to be good. And Dr. Axe is very, very good.

I have used the papers he wrote in many, many conversations with engineers in different companies where I have worked. He hit a home run with that research. You could never look at the evidence for intelligent design the same way again. Christian parents, if you have any children, be sure that you tell them about Doug Axe’s story.

New software calculates the probability of generating functional proteins by chance

Apologetics and the progress of science
Apologetics and the progress of science

Here’s an article sent to me by JoeCoder about a new computer program written by Kirk Durston.

About Kirk:

Kirk Durston is a scientist, a philosopher, and a clergyman with a Ph.D. in Biophysics, an M.A. in Philosophy, a B.Sc. in Mechanical Engineering, and a B.Sc. in Physics. His work involves a significant amount of time thinking, writing and speaking about the interaction of science, theology and philosophy within the context of authentic Christianity. He has been married for 34 years to Patti and they have six children and three grandchildren. He enjoys landscape photography, antiques of various types, wilderness canoeing and camping, fly fishing, amateur astronomy, reading, music, playing the saxophone (alto), and enjoying family and friends.

Kirk grew up on a cattle and grain farm in central Manitoba, Canada, where he spent countless hours wandering around on his own in the forest as a young boy, fascinated with the plants and animals that are native to that region of the province. Throughout his teen years he spent six days a week in the summer working as a farm hand with cattle and grain. He left his father’s farm at the age of 19 to go to university.

Canada? Can anything good come out of Canada? Oh well, at least he’s not from Scotland. Anyway, on to the research, that’s what we care about. Code!

Summary of the article:

  • Biological life requires proteins
  • Proteins are sequences of amino acids, chained together
  • the order of amino acids determines whether the sequence has biological function
  • sequences that have biological function are rare, compared to the total number of possible sequences
  • Durston wrote a program to calculate the number of the probability of getting a functional sequence by random chance
  • The probability for getting a functional protein by chance is incredibly low

With that said, we can understand what he wrote:

This program can compute an upper limit for the probability of obtaining a protein family from a wealth of actual data contained in the Pfam database. The first step computes the lower limit for the functional complexity or functional information required to code for a particular protein family, using a method published by Durston et al. This value for I(Ex) can then be plugged into an equation published by Hazen et al. in order to solve the probability M(Ex)/N of ‘finding’ a functional sequence in a single trial.

I downloaded 3,751 aligned sequences for the Ribosomal S7 domain, part of a universal protein essential for all life. When the data was run through the program, it revealed that the lower limit for the amount of functional information required to code for this domain is 332 Fits (Functional Bits). The extreme upper limit for the number of sequences that might be functional for this domain is around 10^92. In a single trial, the probability of obtaining a sequence that would be functional for the Ribosomal S7 domain is 1 chance in 10^100 … and this is only for a 148 amino acid structural domain, much smaller than an average protein.

For another example, I downloaded 4,986 aligned sequences for the ABC-3 family of proteins and ran it through the program. The results indicate that the probability of obtaining, in a single trial, a functional ABC-3 sequence is around 1 chance in 10^128. This method ignores pairwise and higher order relationships within the sequence that would vastly limit the number of functional sequences by many orders of magnitude, reducing the probability even further by many orders of magnitude – so this gives us a best-case estimate.

There are only about 10^80 particles in the entire physical universe – 10^85 at the most. These are long odds. But maybe if we expand the probabilistic resources by buying more slot machines, and we pull the slot machine lever at much faster rate… can we win the jackpot then?

Nope:

What are the implications of these results, obtained from actual data, for the fundamental prediction of neo-Darwinian theory mentioned above? If we assume 10^30 life forms with a fast replication rate of 30 minutes and a huge genome with a very high mutation rate over a period of 10 billion years, an extreme upper limit for the total number of mutations for all of life’s history would be around 10^43. Unfortunately, a protein domain such as Ribosomal S7 would require a minimum average of 10^100 trials, about 10^57 trials more than the entire theoretical history of life could provide – and this is only for one domain. Forget about ‘finding’ an average sized protein, not to mention thousands.

So even if you have lots of probabilistic resources, and lots of time, you’re still not going to get your protein.

Compare these numbers with the 1 in 10^77 number that I posted about yesterday from Doug Axe. There is just no way to account for proteins if there is no intelligent agent to place the amino acids in sequence. When it comes to writing code, writing blog posts, writing music, or placing Scrabble letters, you need an intelligence. Sequencing amino acids into proteins? You need an intelligence.

What is the best explanation for the Cambrian fossil record?

i found an interesting video that explores a mystery in the Cambrian fossil record.

Richard Dawkins explains the mystery in his famous book “The Blind Watchmaker”.

Excerpt:

“Eldredge and Gould certainly would agree that some very important gaps really are due to imperfections in the fossil record. Very big gaps, too. For example the Cambrian strata of rocks, vintage about 600 million years, are the oldest ones in which we find most of the major invertebrate groups. And we find many of them already in an advanced state of evolution, the very first time they appear. It is as though they were just planted there, without any evolutionary history.” (Dawkins, Richard [zoologist and Professor for the Public Understanding of Science, Oxford University], “The Blind Watchmaker,” [1986], Penguin: London, 1991, reprint, p.229)

He’s referring to prominent paleontologists Niles Eldredge and Stephen Jay Gould.

Now let’s watch the video.

Part 1 of 2: (41 minutes)

Part 2 of 2: (33 minutes)

This documentary has a mix of scholars who accept the standard naturalistic explanation for the Cambrian explosion, and some who are skeptical of the standard explanation. The first three scholars in the list below are considered to be world-renown experts in the Cambrian era fossils.

List of scholars:

Simon Conway Morris is Professor of Palaeobiology at the University of Cambridge and one of the world’s leading evolutionary paleontologists. He is noted in particular for his contributions to the understanding of the Cambrian Explosion and the fossils found in the Burgess Shale. Elected as a Fellow of the Royal Society (United Kingdom) in 1990, he also has been awarded the Walcott Medal of the National Academy of Sciences (United States). Dr. Conway Morris is author of the noted books The Crucible of Creation: The Burgess Shale and the Rise of Animals (1998) and Life’s Solution: Inevitable Humans in a Lonely Universe (2003). His views about the extent as well as the limits of Neo-Darwinism can be found in his article “Darwin was right. Up to a point.”

James Valentine is Emeritus Professor in the Department of Integrative Biology at the University of California, Berkeley, where he is also affiliated with the Museum of Paleontology and the Center for Integrative Genomics. He is one of the world’s leading experts on the Cambrian Explosion, and is the author of numerous technical articles on the subject, as well as author of the books On the Origin of Phyla and Evolutionary Paleoecology of the Marine Biosphere, co-author of Evolution and Evolving, and editor of Phanerozoic Diversity Patterns: Profiles in Macroevolution.

Paul Chien is a Professor in the Department of Biology at the University of San Francisco. A marine biologist, Dr. Chien received his Ph.D. in Biology from the University of California at Irvine, and he was a postdoctoral fellow at the California Institute of Technology (Caltech). Dr. Chien’s work has been published in over fifty technical journals, and he has spoken internationally, and on numerous occasions, from Brazil to mainland China—where he has also been involved in cooperative research programs. Dr. Chien has done research in the renowned fossil beds of Chengjiang, China.

Jonathan Wells is currently a Senior Research Biologist at the Discovery Institute. He holds two Ph.D.s, one in Molecular and Cell Biology from the University of California at Berkeley, and one in Religious Studies from Yale University. He has worked as a postdoctoral research biologist at the University of California at Berkeley and the supervisor of a medical laboratory in Fairfield, California, and he has taught biology at California State University in Hayward. Dr. Wells has published articles in numerous journals, and he is author of Icons of Evolution: Why much of what we teach about evolution is wrong and The Politically-Incorrect Guide to Darwinism and Intelligent Design, and co-author of The Design of Life.

Richard Sternberg is a Research Scientist at the Biologic Institute and a Research Collaborator at the Smithsonian’s National Museum of Natural History. He is an evolutionary biologist with interests in the relation between genes and morphological homologies, and the nature of genomic “information.” He holds a Ph.D. in Biology (Molecular Evolution) from Florida International University and a Ph.D. in Systems Science (Theoretical Biology) from Binghamton University. From 2001-2007, he served as a staff scientist at the National Center for Biotechnology Information, and from 2001-2007 he was a Research Associate at the Smithsonian’s National Museum of Natural History. Dr. Sternberg’s website can be visited here.

Douglas Axe is Director of Biologic Institute. His research uses both experiments and computer simulations to examine the functional and structural constraints on the evolution of proteins and protein systems. After earning his Ph.D. at the California Institute of Technology, Dr. Axe held postdoctoral and research scientist positions at the University of Cambridge, the Cambridge Medical Research Council Centre, and the Babraham Institute in Cambridge. His work has been reviewed in Nature and featured in a number of books, magazines and newspaper articles, including Life’s Solution by Simon Conway Morris, The Edge of Evolution by Michael Behe, and Signature in the Cell by Stephen Meyer.

Paul Nelson is a philosopher of biology, specializing in evolutionary developmental biology (evo-devo). He earned his Ph.D. from the University of Chicago in 1998, and he is presently an Adjunct Professor in the M.A. Program in Science & Religion at Biola University. He has published articles in such journals as Biology & Philosophy and Zygon and has contributed essays to numerous anthologies.

Stephen Meyer is Director of the Center for Science and Culture at Discovery Institute. Formerly a geophysicist with Atlantic Richfield Company (ARCO), Dr. Meyer earned his Ph.D. in the history and philosophy of science at Cambridge University as a Rotary International Scholar. From 1990-2002, he was on the faculty of Whitworth College. Dr. Meyer is author of peer-reviewed publications in technical, scientific, philosophical and other books and journals. His latest book is Signature in the Cell: DNA and the Evidence for Intelligent Design. His other books include Darwinism, Design and Public Education and Explore Evolution. Dr. Meyer’s website can be visited here.

If you like the video, you can buy the DVD here.

Related videos

How do proponents of Darwinian evolution respond to debate?

Here’s what happened at the recent public discussion on Darwinism and intelligent design at Southern Methodist University.

Excerpt:

The evening started with a screening of Darwin’s Dilemma:The Mystery of the Cambrian Fossil Record for a standing room only crowd in the theater of the Hughes Trigg Student Center, and was rounded out by four presentations and a question and answer period with the speakers.

CSC’s Stephen Meyer moderated the discussion after the film which included four serious challenges to Darwinian evolution. The first speaker was evolutionary biologist Richard Sternberg, who presented the challenge of population genetics to Darwin’s Theory. He was followed by Biologic Institute’s Doug Axe, who spoke on the challenge of finding functional proteins, and CSC Fellow Paul Nelson, who explained why evolving animal body plans by random mutation and natural selection is probably impossible. CSC biologist Jonathan Wells concluded the short presentations by explaining the challenge of ontogenetic information. The evening closed with a robust 40 minutes of questions from the audience.

Is that crazy? Four scholars with Ph.Ds from Yale, Berkeley, Harvard, Cambridge, etc. – 6 Ph.Ds in all for FOUR speakers spoke. The four scholars presented information then had 40 minutes of unscripted public discussion with the audience.

Excerpt:

What do hox genes, gene duplication, evo-devo and ontogenetic information all have in common? They were among the subjects raised–in some detail–by audience members during the Q&A portion of 4 Nails in Darwin’s Coffin: New Challenges to Darwinian Evolution event at SMU last night.

Wow. Public, unscripted discussion of biological science between two opposing points of view.

I’ll bet that open discussion of controversial theories happens all the time in public schools, right?

Not so much.

Excerpt:

I was treated to a –sadly– all too typical story in the aftermath of the great 4 Nails in Darwin’s Coffin: New Challenges to Darwinian Evolution conference the other night at SMU. An SMU staffer told me about what happened to a student that wanted to let his friends know about the event.

Earlier this week the student asked his science professor if at the end of class he could make a quick announcement and the prof said no problem. At the end of the class the student stood up and very quickly announced the name of the event and that students could come and hear about some of the flaws in Darwin’s theory. At that point the professor put his hand on the student’s shoulder and said, in front of the whole class: “Hold on, if I’d known you were going to announce that I wouldn’t have let you stand up. There are NO flaws in Darwin’s theory!” The teacher continued to pontificate about how there simply are no flaws in Darwin’s theory and that any such claims are all myths.

Then yesterday I read the Nature blog about the new ID Centre that has just launched in the UK. There was a link to this story about the British Humanist Association which is lobbying for the government to grant what amounts to special status to Darwinian evolution in British schools. The ink has barely dried from the announcement and already British Darwinists are feverishly trying to stamp out any dissent.

Essentially, they want to put their hand on every British school student and tell them not to question Darwin’s theory.

Yeah, those secular humanists are as open-minded about dissent as Mao Zedong. He was a secular humanist, too.

Related posts

Four intelligent design experts will present at Dallas event on Thursday

I really don’t like the liberal Southern Methodist University, and their liberal Perkins Seminary (ultra-liberal), but this is good news.

Details:

4 Nails in Darwin’s Coffin: New Challenges to Darwinian Evolution

  • Date: Sept. 23, 2010
  • Place: Southern Methodist University, Hughes-Trigg Ballroom
  • Time: 7:00-9:30 pm

Featuring a Free Screening of Darwin’s Dilemma: The Mystery of the Cambrian Fossil Record

Plus Live Presentations and Q and A with:

More than a century ago, Charles Darwin thought he had explained away the evidence for intelligent design in biology. But now new evidence from molecular biology, genetics, and related fields are raising four important challenges to the claim that complex biological life is the result of an undirected process of natural selection acting on random mutations. Learn about these “4 nails in Darwin’s coffin” at this FREE event.

Bring your questions!

Sponsored by PULSE and Victory Campus Ministries, SMU
For more information, email sykes@smu.edu or call 214.528.7343 x110

Every single one of these guys is an expert on ID. Do not miss this if you are in the area.

And don’t forget the On Guard conference in Dallas that is happening in early November.