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Fisking a Biochemist’s Non-scientific Critique of ID

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In the OOL post below a commenter named Okfanriffic writes:

Hi guys. I work as a biochemist and like most biochemists we are concerned with understanding biology so that we can combat disease. An important part of science is understanding the underlying processes. Think about quantum electrodynamics,that advance in understanding spawned all of electronics including the computers we are communicating on! Science works, guys! Understanding origins and fundamentals has always proved productive and as such research into life’s origins is reasonable.Remember most people who call themselves christian accept the bible as metaphorical and accept that their god creates using natural processes (the entire catholic and anglican communion of 1.3 billion christians)So all science is doing is uncovering how your god did its magic. Think about it. If we uncover a natural process you can just say your god did it but if we can’t that might be proof of supernatural god magic!

I will fisk this comment from the bottom up:

“So all science is doing is uncovering how your god did its magic.”

Even though you are trying to be an insufferably smug condescending ass (and succeeding admirably I might add), what you say here is actually not far from the truth. Kepler, a Christian and one of the greatest scientists of all time, described science as “thinking God’s thoughts after him.”

“Think about it. If we uncover a natural process you can just say your god did it but if we can’t that might be proof of supernatural god magic!”

Do you find that offensive condescending nastiness helps you win arguments? I’m just wondering, because that seems to be your modus operandi. It really is a distraction and speaks volumes about your level of maturity and general character (sadly, none to your credit).

To the point you are trying to raise, the issue is not whether God did it (though he may have). The issue is whether even in principle unguided natural forces are sufficient to account for the data. To that issue, you must not have read UB’s comment at 8 in the same thread, or at least you did not address what he said. Let me quote it for you:

. . . the organization of the first living cell on earth required a translation apparatus which must include a local independence from physical determinism in order for the system to function. To say that unguided material forces established such a local independence within a system is simply to assume that it can. This assumption is necessarily made against a backdrop of – not only zero corroborating evidence – but 100% universal experience to the contrary.
On what specific empirical grounds (i.e. something well established in logic, and/or something that stems from well-documented empirical principles) do we ignore universal evidence in favor of zero evidence? What type of qualities do we look for in a pending question in order to make such a determination? Is this justification established in physical law? If so, how, and if not, then why should anyone bend a knee to it?

UB asks several questions. Do you have an answer to any of them?

“Remember most people who call themselves christian accept the bible as metaphorical and accept that their god creates using natural processes (the entire catholic and anglican communion of 1.3 billion Christians.”

I am not sure what your point is here. Are you suggesting that all 1.3 billion Catholics and Anglicans subscribe to the theory that unguided natural forces can account for the information systems in living cells. Do you have any evidence to back that up? Catholic Michael Behe would probably disagree. In any case, the statement is a distraction, so much gorilla dust thrown into the air. The issue is “what is true.” The issue is not “what do lots of people believe even though it may not be true.”

“Science works, guys!”

Yes it does. No one here has suggested otherwise. I find something about your comment fascinating though. You claim to champion science, and you attempt to cloak your comment with the authority of science (“I work as a biochemist”). Yet, your comment does not contain a single scientific statement. What’s up with that? Pardon, Okfanriffic, your metaphysics is showing.

“Understanding origins and fundamentals has always proved productive and as such research into life’s origins is reasonable.”

Research into OOL issues is indeed reasonable. No argument here. Is imposing a prior metaphysical assumptions on that research reasonable? That is the question. How do you answer it?

“Think about quantum electrodynamics,that advance in understanding spawned all of electronics including the computers we are communicating on!”

True, but completely irrelevant unless you are suggesting that OOL research has answered any of the important questions, in which case you are simply wrong.

“An important part of science is understanding the underlying processes.”

No argument here. And if the data point to a guiding intelligence as part of those processes should we avert our eyes and insist on pounding our metaphysical assumptions onto the data. Or should we accept the data on its own terms? I vote for “accept the data on its own terms.” How do you vote?

“I work as a biochemist and like most biochemists we are concerned with understanding biology so that we can combat disease.”

We here at UD are also concerned with understanding biology. If the data point to the conclusion that natural forces are sufficient to account for the data, we are perfectly happy to accept that conclusion. Example: No one here disputes that Darwinian processes are perfectly adequate to account for the development of antibiotic resistance in bacteria. But, as UB eloquently write above, if the data point in a different direction we are happy to follow where the data lead instead of trying to pound our metaphysical prejudices onto the data.

So here’s the difference between you and us: We are more open-minded. Did your training as a biochemist lead you to be close-minded? If so, that’s a shame.

Comments
Comments Closed: Further comments on this subject should be posted in the new "Thank You Okfanriffic" post.Barry Arrington
March 30, 2014
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Warning AVS: Next time you drop the F Bomb you will be shown the door.Barry Arrington
March 30, 2014
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Goodbye dorkJoe
March 30, 2014
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Thank you, that was lovely, Joe. see ya.AVS
March 30, 2014
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Good one queerius, unfortunately you have just demonstrated exactly what is wrong with the people here at UD. Your stereo analogy is comical, but in all respects it is an utterly terrible comparison to the topic at hand. What I have been talking about is a gradual process, building upon itself.AVS
March 30, 2014
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Querius, If you noticed, he said "Nature has no definite direction". I have a hard time swallowing that. The only possibility I see for him making such a claim is if he says Nature = Earth in this context. As to the rest of what you wrote, I have no disagreements there.seventrees
March 30, 2014
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Wrong again AVS- no one cares about your thought experiment because you don't have the ability to think. All you can do is insult, spew bald assertions and innuendos. You are a fine example of an intellectual coward.Joe
March 30, 2014
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cheers then...Upright BiPed
March 30, 2014
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Yes, I was referring to "nature" as Earth, as the system I was referring to only included Earth.AVS
March 30, 2014
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seventrees@84, Entropy can decrease locally in an open system under some conditions, but leaving my car parked in the sun will always leave me with cracked plastic in my dashboard. I'll never get a new stereo regardless of how long my car sits in the sun. However, if someone sneaks a new stereo into my car, the probabilistic local decrease in entropy that's offset by the increase in entropy due to solar radiation can be a convenient rationale for a professor, but trust me when I tell you that it won't work on a suspicious policeman! ;-) -QQuerius
March 30, 2014
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Upright, I'm not even sure who you are talking to or what conversation you are talking about. I don't know if you've noticed but there are numerous conversations going on here.AVS
March 30, 2014
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AVS, I typed:
And yes, I know that you were talking about localized entropy decrease. But I am talking about the Earth and its surrounding.
In other words, I understood your argument. Your argument
I would argue that nature tends toward the more complex because it does not have a definite direction.
was my issue. A localized decrease in entropy is a possibility, but with an increase with entropy to the surrounding. In other words, there is still a fixed direction which nature (the Universe) at least follows. Unless you only meant Nature = Earth. But I'll not continue to quibble with that. It's best you engage with UprightBiped's question at 24 by answering if raw energy from sunlight and all favourable conditions on Earth will produce the system which he talks of.seventrees
March 30, 2014
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It was more of a thought experiment Joe, that would explain why the conversation went completely over your head.AVS
March 30, 2014
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I am willing to defend my position with purely material definitions. Frankly, these things are not even controversial. I think this fact forms the actual basis of the reluctance on display here.Upright BiPed
March 30, 2014
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AVS:
Joe, the monster you have told me about was an RNA molecule capable of replication. It eventually produced RNA molecules of smaller and smaller size. This is the basis of your argument that nature tends toward the simple?
Nope. It is just evidence that refutes your claim. That nature tends towards the more simple is an observation made by naturalists for centuries.Joe
March 30, 2014
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AVS- when you have supporting evidence for your claim come back and tell us.Joe
March 30, 2014
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Information was defined well before Shannon was born. AVS- we use information in the normally used way. Just because YOU are too ignorant to grasp tat fact proves that you are a moron on an agenda.Joe
March 30, 2014
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Take it easy Biped, I can't just jump into any mechanisms with you guys without going through the basics, you guys just have too much of a misunderstanding on the topics. If you'd like to join in on the conversation I'm having with torley, go ahead. As for post 24, I've already said it is wise to avoid a conversation with you guys about "information" at all costs because you guys twist and bend the word to mean whatever you want. Exactly what 'information' is is way to subjective, and that is exactly why you guys cling to arguments about it so much.AVS
March 30, 2014
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My argument, seven, is that local entropy decreases can build upon themselves to form more and more complex molecules. This is driven by the constant energy input from the sun, and any favorable conditions that could be found on early Earth. I am sort of arguing from the opposite end of what you are used to hearing. "Can energy input from outside a system drive the decrease in entropy that we see in the formation of life"AVS
March 30, 2014
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DR JDD @ 57: Wow, beautifully characterized! Thanks for the great post---it's a keeper! Also, thanks to scordova for beating me to the punch regarding okf's profoundly ignorant attribution of computers to quantum electrodynamic theory, and subsequent vituperation. Your explanation was much more comprehensive than what I was going to post. Upright BiPed, I completely agree. And thanks also to insightful responses from kairosfocus, Barb, Joe, Barry, Neill, and others. As for okfanriffic, I'd say that the scientists and researchers that I've spoken with generally have an enthusiastic curiosity about what they don't know and a certain humility about what they think they know. I don't have any particular aversion or "hatred" toward Darwinism---I used to believe in it---but the data are looking less and less supportive of this scientific relic of the 19th century. It's time we moved on. And then okfanriffic posted this:
barb=smug
LOL. Sorry, but does anyone else have a hard time believing that okfanriffic is a biochemist? ;-) -QQuerius
March 30, 2014
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All I’m asking right now is whether or not you agree with the idea
So the answer is "no", you have no specific mechanisms to propose. Alternatively, I have made very specific statements in #24 and elsewhere, with definitions, which I am most certainly prepared to defend. Neither you nor okf have even attempted to respond to those statements. It is therefore not unreasonable to consider this conversation dead in the water. It appears to be little more than an opportunity for okf to vent his/her unresolved issues with religious interpretation. If this is supposed to be about science or empiricism, there is little to show for it from the ID critic's side of argument.Upright BiPed
March 30, 2014
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vjtorley @ 73 my point here: claim by scordova "the ribosome is irreducible complex" - experimental data: in E. coli the ribosomal proteins e.g. L15, L21, L24, L27, L29, L30, L34, S9, S15, S20 and S17 ... can be knocked-out and the cells still live (see e.g. doi: 10.1016/j.jmb.2011.09.004). So, at least the coli ribosome is not irreducible complex. I know at about some similar results for yeast ribosomes. about the Luskin article you quote: most bacterial ribosomes contain 3 different RNAs and ~ 50 proteins, eukaryotic ribosomes contain normally 4 different RNAs and ~ 80 ribosomal proteins. So already the first line you quote from his paper is not totally accurate. In eukaryotes there are 200 additional proteins that speed up or regulate ribosome assembly insight the cell nucleus - so called assembly factors - that might explain how he arrived at the 300 number. Some of these are essential in some organisms, many others are not. However, as I said in my post in principle ribosomes can assembly spontaneously just from their building blocks in a test tube by mixing. cech, staley and woolford which he quotes know these facts by heart or even helped establish them. Why did luskin not state this accurately?rna
March 30, 2014
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You're right, torley, DNA and RNA are certainly not ordinary molecules. Neither are proteins, phospholipids, or sugars. Yet these four biological macromolecules are simply larger conglomerates of very simple molecules. This is a central concept of biology; the building of more complex molecules from those that are more simple, and the acquisition of function from simple structural properties. The basis of my entire argument is that with a massive and constant source of energy, the early Earth was continually being pushed to a more ordered state, making the eventual formation of what we call life not only likely, but inevitable.AVS
March 30, 2014
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Greetings. AVS at 68
I would argue that nature tends toward the more complex because it does not have a definite direction.
And here I thought that our universe will cease to exist. Isn't entropy always increasing with time for the whole universe given that energy is been converted from one form to another everyday? I use universe in the sense of all matter and energy that exists. And yes, I know that you were talking about localized entropy decrease. But I am talking about the Earth and its surrounding.seventrees
March 30, 2014
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claude shannon defines information but it is still subjective. a crystal lattice contains information by any metric but it is still subjective. you are just the ass in assertion. admit it. you love jesus and you don't want to live in a universe where you can't go to heaven and see grandma and grandpa. i love you ;)okfanriffic
March 30, 2014
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Dr. Torley, you might find this a useful addition to your notes on ribosomes which you linked at 73 Endoplasmic Reticulum: Scientists Image 'Parking Garage' Helix Structure in Protein-Making Factory - July 2013 Excerpt: The endoplasmic reticulum (ER) is the protein-making factory within cells consisting of tightly stacked sheets of membrane studded with the molecules that make proteins. In a study published July 18th by Cell Press in the journal Cell, researchers have refined a new microscopy imaging method to visualize exactly how the ER sheets are stacked, revealing that the 3D structure of the sheets resembles a parking garage with helical ramps connecting the different levels. This structure allows for the dense packing of ER sheets, maximizing the amount of space available for protein synthesis within the small confines of a cell. "The geometry of the ER is so complex that its details have never been fully described, even now, 60 years after its discovery," says study author Mark Terasaki of the University of Connecticut Health Center. "Our findings are likely to lead to new insights into the functioning of this important organelle.",,, ,, this "parking garage" structure optimizes the dense packing of ER sheets and thus maximizes the number of protein-synthesizing molecules called ribosomes within the restricted space of a cell. When a cell needs to secrete more proteins, it can reduce the distances between sheets to pack even more membrane into the same space. Think of it as a parking garage that can add more levels as it gets full.,,, http://www.sciencedaily.com/releases/2013/07/130718130617.htmbornagain77
March 30, 2014
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AVS, If it's macromolecules that you're after, then I'm happy to give you what you want. Sure, sunlight could create those. But a cell is more than a molecule, and DNA (or for that matter RNA) is no ordinary molecule. The genetic code is found in all living things. Have you ever seen sunlight creating a code? Now that would be a sight to see!vjtorley
March 30, 2014
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AVS: Are you prepared to show us that there is no significant, observable difference between text such as this sentence in English, and random gibberish such as fuihdr6tiuvcs6guig or a repetitive string such as sdsdsdsdsdsdsd? Failing that, it is apparent that it is you who are bending the concept of information into pretzels driven by question-begging ideology. You will also find yourself running cross grained to the concept of complex specified info pioneered by the likes of those redneck fundy creationist yahoos -- NOT -- Orgel and Wicken. Not to mention what is typically mentioned when we speak about the strings and files commonly used in information technology. And, FYI, Shannon info is a metric of average info carrying capacity in a symbol or string, specifically without reference to the functional specificity involved. KF PS, onlookers, you will find that the basic information concept being used here can be simply cited from Wiki via the glossary in the resources tab:
Information — Wikipedia, with some reorganization, is apt: “ . . that which would be communicated by a message if it were sent from a sender to a receiver capable of understanding the message . . . . In terms of data, it can be defined as a collection of facts [i.e. as represented or sensed in some format] from which conclusions may be drawn [and on which decisions and actions may be taken].”
kairosfocus
March 30, 2014
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okfanriffic You write: "information is subjective." Not so. The term "information" given a mathematically rigorous definition on page 13 of Dembski and Marks' paper, which I cited above. You might have your own definition of information, but on the definition used by Dembski and Marks, it's a mathematically conserved quantity, which means that you can't posit an increase in the universe's information over the course of time, without also positing a Being outside the universe, inputting that information. If, on the other hand, the information is in the universe from the get-go, then as possible universes go, it's a very strange universe indeed, as the amount of information it contains is far in excess of what is required to produce life. The information-richness of the cosmos makes perfect sense, however, if the universe was designed in order to reveal the existence of its Maker to us.vjtorley
March 30, 2014
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Anybody willing to admit their belief in magic? Go on guys, defend the biblical story or are you all just atheists who think science is hard to understand. ;)okfanriffic
March 30, 2014
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