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Richard Simons



Posts: 425
Joined: Oct. 2006

(Permalink) Posted: Nov. 08 2008,16:54   

Quote (Daniel Smith @ Nov. 08 2008,13:12)
My contention is that man cannot explain the origin of complex living systems via natural pathways because such pathways are impossible.  It never happened that way and it could not happen that way.  I believe God built life (defined as "a self-replicating cellular organism") using the same basic mechanism man uses to build things; He took raw materials from the earth and organized them for function.  Man does this on a macro scale all the time.  God did it on a nano scale.  Man makes crude (by comparison) machines that don't self-replicate, God made complex organisms that do.  Man's machines don't evolve (much) and adapt to their environments, God's do.  This is a result of the fact that God is an intelligence of the highest order and man is not.

Five years ago I could not have imagined that someone would present a fantasy like this on a science blog. How exactly could a god move raw materials around to make the first life? Was it done atom by atom to make a single first cell, or what? Arm waving and appeals to unknowable magic will not do.
 
Quote
You want me to tell you then what science can explain under my scenario.  Well, I'd say that science can essentially discover God through the examination of His creation.  It's an opportunity to unravel the greatest mystery of the universe - "What is God?".

This is what many people thought they were doing for the past few centuries, but no progress seems to have been made. What scientific studies do you propose to answer the question "What is God?" Could you give an idea what you would study (variable stars, endogenous retroviruses, gluons, rats in mazes, I've not the slightest idea myself) and the predictions you would make that would differentiate between there being no god, there being a god and between the different possible gods.

--------------
All sweeping statements are wrong.

  
Reciprocating Bill



Posts: 4265
Joined: Oct. 2006

(Permalink) Posted: Nov. 08 2008,17:02   

Quote (deadman_932 @ Nov. 08 2008,16:39)
     
Quote
It may interest you to know that there is an alternate hypothesis for the similarities of genomic sequences - it is the Universal Genome Hypothesis, and it explains these similarities (I'd argue) better than the proposed evolutionary models.

Here Daniel is lapsing into incoherence. He claims to accept most tenets of TE - while rejecting natural selection.
     
Quote
What exactly are "the main tenets of evolutionary theory" which are "so well supported that most biologists accept them with confidence"?

Common descent? I've not argued against that.

But common descent, not natural selection, is the "proposed evolutionary model" that most directly explains similarities of genomic sequences.

Daniel, are you now rejecting common descent as well as natural selection?

I also recall you repeating several times that you hadn't made up your mind regarding the age of the earth.

So, which tenets of the contemporary theory of evolution DO you accept?

--------------
Myth: Something that never was true, and always will be.

"The truth will set you free. But not until it is finished with you."
- David Foster Wallace

"Here’s a clue. Snarky banalities are not a substitute for saying something intelligent. Write that down."
- Barry Arrington

  
Erasmus, FCD



Posts: 6349
Joined: June 2007

(Permalink) Posted: Nov. 08 2008,22:48   

Quote (Reciprocating Bill @ Nov. 08 2008,17:02)
 
Quote (deadman_932 @ Nov. 08 2008,16:39)
       
Quote
It may interest you to know that there is an alternate hypothesis for the similarities of genomic sequences - it is the Universal Genome Hypothesis, and it explains these similarities (I'd argue) better than the proposed evolutionary models.

Here Daniel is lapsing into incoherence. He claims to accept most tenets of TE - while rejecting natural selection. On his own thread:
       
Quote
What exactly are "the main tenets of evolutionary theory" which are "so well supported that most biologists accept them with confidence"?

Common descent? I've not argued against that.

But common descent, not natural selection, is the "proposed evolutionary model" that most directly explains similarities of genomic sequences.

Daniel, are you now rejecting common descent as well as natural selection? I recall you repeating several times that you hadn't made up your mind regarding the age of the earth.

So, which tenets of the contemporary theory of evolution DO you accept?

quite right.  it is the shifting disequilibria model he favors.  the one where equilibria are the goalposts.

 
Quote
My contention is that man cannot explain the origin of complex living systems via natural pathways because such pathways are impossible.


From what empirical facts do you derive this conclusion?

daniel quick question about this complex living system thing, whats the difference between a complex living system and I don't know, say, a complex system?

do you know what the bible says about this?  

do you know that some scientists studying fish have found that individuals make choices, choices that risk death for reward or feeding benefit.  So it seems that these  complex self-replicating machines now must also be self-aware?  Isn't this taking raw materials from the earth and organizing them for function?

Tell me now aint it also true that a horny head nest is also a fine example of taking raw materials from the earth and organizing them for function?  I mean hell.  Wasp nest?  get outta here.  these critters are acting like GODS man.  or acting like man.  is that it?


is the idea, that a fish might risk eating a preferred prey item, in the face of a predator, based on the payoff of the prey item, a crazy religious belief for evolutionist biologists who deny God?  i mean if we are all fucking atoms you know man.

is this idea somehow not a crazy belief if one accepts the presupposition of some sort of bible thing?  can i be a fulfilled say fish behaviorist if I can deny evolution and I just say well this is God's Creation and I am going to sit here and a-study on it here.  can i be a happy geologist if I don't really give a shit about say geology and i just think God's Rocks are Cool and Really Good Evidence For His Love (can the world really be evidence of anything about god anyway Daniel, or is it just a blessing once you believe?  what can you prove anyway?)

what does this finding of empirical biology tell you about fish or living things in general?  how does this disprove evolution...  or whatever?  

my cat plays with things before it kills it.  that's kinda hateful.  do you think they did this in teh garden of eden?

Quote
 It never happened that way and it could not happen that way.  I believe God built life (defined as "a self-replicating cellular organism") using the same basic mechanism man uses to build things; He took raw materials from the earth and organized them for function.  Man does this on a macro scale all the time.  God did it on a nano scale.  Man makes crude (by comparison) machines that don't self-replicate, God made complex organisms that do.  Man's machines don't evolve (much) and adapt to their environments, God's do.  This is a result of the fact that God is an intelligence of the highest order and man is not.


Is this a testable prediction?  You know I have never seen anything built with earthen raw materials took and organized for function.  Now, I have however woved a basket out of a honeysuckle vine.  But you don't get no basket when you run around saying bullshit like "I'm fixing to take somma these here raw materials from the earth and organize those shits for this function".  the level of obfusculatory abstraction you are premissifying up in here is ridiculous.  but here is the essence of this claim  
Quote
man makes complex machines.  God makes complex self-replicating machines


is self-replicating all the difference?

is there more to a living thing than it's complex self-replicatingnessossity?  say, my cat?  or a shitty little vicious pillow shittin Jack Russel?  if that dog is just a complex self-replicating machine then why is it that you know those shitty little dogs will all bite your ankles and poop in your shoe or hat?  does this disprove the soul, or is it broadly possessed throughout vertebrates or something?  primates? creation day?

 
Quote
You want me to tell you then what science can explain under my scenario.  Well, I'd say that science can essentially discover God through the examination of His creation.  It's an opportunity to unravel the greatest mystery of the universe - "What is God?".


Oh, so you ain't ever gonna define living thing, so we didn't get to "What is Man", so how you gonna jump to "What is God?"?  That means we skipped angels too.  I must be boring you.  I suggest you talk some more about Javison, Javison.

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You're obviously illiterate as hell. Peach, bro.-FtK

Finding something hard to believe based on the evidence, is science.-JoeG

the odds of getting some loathsome taint are low-- Gordon E Mullings Manjack Heights Montserrat

I work on molecular systems with pathway charts and such.-Giggles

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,05:14   

Quote (Quack @ Nov. 08 2008,16:17)
Quote
it explains these similarities (I'd argue) better than the proposed evolutionary models.


May I chime in? Daniel, please, please do not stop at "I'd argue", please do argue, I am dying to learn what exiting news you have that finally will convince science - and me too, that Darwin and all the rest are wrong, have always been wrong, will never be right.

That ain't asking too much, is it? The ball is in your park now.

I'd agree. Please do give us a specific example where your theory explains the observed facts better then the current evolutionary model. Specifically.

I mean, you must already have specific examples? The ones that convinced you will do for starters. You know, the ones that converted you originally to this new understanding? Remember them?

You must already have plenty of specific examples.

Please detail one.

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I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Louis



Posts: 6436
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,05:36   

Quote (Erasmus, FCD @ Nov. 08 2008,07:34)
[SNIP]

Louis, what your probability of being deposited in life orientation?

WTF is that anyway?

[SNIP]

{Stops, looks, reads, sniffs, faints}

I can has smelling salts?

Louis

P.S. I'm going to go with 1. Give or take 1.

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Bye.

  
deadman_932



Posts: 3094
Joined: May 2006

(Permalink) Posted: Nov. 09 2008,08:30   

Above, this bit :
Quote
"This, along with your statements above (previous post to this) indicate that you won't even look at the evolution of enzymes, how some are autocatalytic, others can be catalyzed by processes that don't involve other aminos, Daniel...this is how we find aminos in space and in meteorites. It's also how some of the original experiments in amino acid synthesis formed lots of aminos in the lab."

should read:
Quote
""This, along with your statements above (previous post to this) indicate that you won't even look at the evolution of enzymes, how some are autocatalytic, how others can be catalyzed from fragments, others from ribozymes. Aminos can be catalyzed by processes that don't involve other aminos, Daniel...."


I screwed it up somehow when I was editing and just noticed.

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AtBC Award for Thoroughness in the Face of Creationism

  
Lou FCD



Posts: 5455
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,09:52   

Desktop took a nose dive.

I'm on a new laptop now, running Ubuntu. If I can get the damned wireless card working, I'll be a very happy camper.

Unfortunately, I won't be able to ditch windoze altogether because some of my school work is at the Pearson Publishing site, which only supports Internet Destroyer.

I was really hoping that IETab would be available for Firefox, but alas... not for Linux.

Damn it.

Plus I still have to try to recover what's on the desktop hard drive. Not looking forward to that exercise in headdesking...

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“Why do creationists have such a hard time with commas?

Linky“. ~ Steve Story, Legend

   
Lou FCD



Posts: 5455
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,09:54   

P.S. Can I just say how cool it is of Greg Laden to take time out of his Sunday to look into my wireless card issue?

I hope so, because I just did.

--------------
“Why do creationists have such a hard time with commas?

Linky“. ~ Steve Story, Legend

   
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,14:06   

Quote (Reciprocating Bill @ Nov. 06 2008,17:16)
 
Quote (Daniel Smith @ Nov. 06 2008,19:30)
Did you read that Bill?  ANY system.  You pick it.

(Five minutes pass as a non-biologist pokes around Ohiolink electronic journal center):

REVIEW ARTICLE
450 million years of hemostasis

ABSTRACT

In mammalian blood coagulation, five proteases (factor VII [FVII]; factor IX [FIX]; factor X [FX]; protein C [PC] and prothrombin [PT]) act with five cofactors (tissue factor [TF]; factor V [FV]; factor VIII [FVIII]; thrombomodulin and protein S) to control the generation of fibrin. Biochemical evidence, molecular cloning data and comparative sequence analysis support the existence of all components of this network in all jawed vertebrates, and strongly suggest that it evolved before the divergence of teleosts over 430 million years ago. Phylogenetic analysis of the amino acid sequences of the Gla–EGF1–EGF2–SP domain serine proteases (FVII, FIX, FX, PC) and the A domain-containing cofactors (FV and FVIII) strongly supports the evolution of the blood coagulation network through two rounds of gene duplication, and supports the hypothesis that vertebrate evolution benefited from two global genome duplications. The jawless vertebrates (hagfish and lamprey) that diverged over 450 million years ago have a blood coagulation network involving TF, PT and fibrinogen. Preliminary evidence indicates that they may have a smaller complement of Gla–EGF1–EGF2–SP domain proteins, suggesting the existence of a 'primitive' coagulation system in jawless vertebrates.

(For the rest go here.)

Somebody watch the goalposts.

(ETA: The article seems to be only inconsistently available).

Let me ask you some questions about this paper Bill:

Are you sure you want to use this paper as an argument against mine?

Did you understand it?  

You do know that it is arguing for evolution that happened 450+ million years ago right?

If you still want to use it we can, but I want you to be sure it's the one you want to discuss.

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"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,14:27   

Quote (Daniel Smith @ Nov. 09 2008,14:06)
Are you sure you want to use this paper as an argument against mine?

What is this, top trumps?

Say something of substance by Jove!

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I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,14:34   

Quote (deadman_932 @ Nov. 08 2008,11:39)
         
Quote (Daniel Smith @ Nov. 08 2008,12:09)
                   
Quote (Daniel Smith @ Nov. 06 2008,17:44)
                 
I have only one question for you:  Where did these enzymes come from?  Aren't enzymes made from amino acids?  So how did we build enzymes before we had the means to synthesize the amino acids from which they are built?  Were they (amino acids) recruited from outside the cell?  How?  Was there even a "cell" yet?  (So many questions!)

I'm assuming that the "enzyme recruitment model" is the key here, but a search of the literature for that term only returns the same general idea expressed in the quoted sentence - that less specific enzymes are "recruited" into pathways, then modified by selection into the highly specific enzymes required today.  It still doesn't explain how the whole protein synthesis process (necessary for the production of enzymes) came about before there was a means of amino acid synthesis.

Do you have any ideas deadman?

Incidentally, many evolutionary papers (including the one you cited) rely quite extensively on sequence comparisons and phylogenetic trees (many of which conflict with other trees based on other criteria).  It may interest you to know that there is an alternate hypothesis for the similarities of genomic sequences - it is the Universal Genome Hypothesis, and it explains these similarities (I'd argue) better than the proposed evolutionary models.

See what I wrote previously, Daniel?

           
Quote
"If you have questions, you should look deeper all on your own -- try to do that without moving the goalposts further -- remember, all you asked for was a viable pathway for a system.

But I bet you'll change that tune real quick in pursuit of any Gap you can stick a God in.


You also moved the goalposts again, Daniel.

This, along with your statements above (previous post to this) indicate that you won't even look at the evolution of enzymes, how some are autocatalytic, others can be catalyzed by processes that don't involve other aminos, Daniel...this is how we find aminos in space and in meteorites. It's also how some of the original experiments in amino acid synthesis formed lots of aminos in the lab.

Louis mentioned giving you cites (which you have not read, clearly) on the topics you then pretend to ALREADY know the answer to.

You operate in bad faith, Daniel. You asked for one viable model from me, and I gave it. Then you shifted the goalposts again. This is not even a discussion -- it's you seeking fallacies to give you comfort while you avoid the knowledge we do have.

You have a preconceived "answer" which involves throwing up your hands and saying " WE CAN NEVER KNOW!!" -- but it's borne out of sheer ignorance, as has been shown several times by me alone (others have shown this as well, though). My response to you is the one I anticipated giving: go read the cites you were already given, then we can talk once you learn to discuss without your constant use of fallacies and illogic.

If you can't do that...well, then too bad, Daniel. The answers to the questions you posed to me are already indicated in  the cites you have already been given.

It's not my fault if you choose to remain ignorant in some fanatical delusion that this "glorifies" your god.

I didn't "move the goalposts" deadman.  My original challenge was for a detailed pathway for the natural origin of any complex biosystem.  No one here would touch that - so I said I'd be happy with a guess.  I said that to entice discussion.  I was hoping someone would at least propose something, and (to your credit) you stepped up and did that.  A hypothetical pathway, with no details, does not meet my original challenge - but it's a start.  Now let's go further: let's examine it in detail and see if it stands up to scrutiny.  If you are truly willing to fill in the blanks for your hypothetical pathway, we'll get somewhere.  If you are only willing to say "the answer's out there - go look it up", then you're not really proposing anything of value to this discussion.  So, if you have a specific cite that explains how the specific enzymes required for your hypothetical pathway came into being without an amino acid synthesis mechanism in place, that would further the discussion.  If, on the other hand, all you're willing to do is make general statements about meteors and hypothetical mechanisms that may or may not apply, we'll get nowhere.

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"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,14:51   

Quote (Richard Simons @ Nov. 08 2008,14:54)
How exactly could a god move raw materials around to make the first life? Was it done atom by atom to make a single first cell, or what? Arm waving and appeals to unknowable magic will not do.

People are learning how to manipulate molecules and atoms.  Is it really that "far-out" to hypothesize that an infinitely intelligent being could do it?  How do people do it?
 
Quote
This is what many people thought they were doing for the past few centuries, but no progress seems to have been made.

Lots of progress has been made.  Of course if you don't believe in God, you're not really looking at scientific discoveries as a means of understanding God so you wouldn't really know what that progress is.  One of the things we have learned is that God is the master chemist, master programmer and master planner who is able to project deep into the future and see exactly what is necessary to keep life flourishing on this planet through all manner of extreme global climate changes.
 
Quote
What scientific studies do you propose to answer the question "What is God?" Could you give an idea what you would study (variable stars, endogenous retroviruses, gluons, rats in mazes, I've not the slightest idea myself) and the predictions you would make that would differentiate between there being no god, there being a god and between the different possible gods.

I believe examining the details of life and how it works gives a marvelous insight into the workings of the mind of God.
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

--------------
"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
Albatrossity2



Posts: 2780
Joined: Mar. 2007

(Permalink) Posted: Nov. 09 2008,14:54   

Quote (Daniel Smith @ Nov. 09 2008,14:51)
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

That should take about 5 nanoseconds.

Unless, of course, you have more "evidence" than you have divulged thus far...

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Flesh of the sky, child of the sky, the mind
Has been obligated from the beginning
To create an ordered universe
As the only possible proof of its own inheritance.
                        - Pattiann Rogers

   
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,15:17   

Sometimes I have a hard time following you Erasmus, but I'll give it a try:    
Quote (Erasmus @ FCD,Nov. 08 2008,20:48)

         
Quote
My contention is that man cannot explain the origin of complex living systems via natural pathways because such pathways are impossible.


From what empirical facts do you derive this conclusion?
It's actually from a lack of empirical facts in support of natural pathways and from my own belief in God (which offers an alternative explanation) that I derive this conclusion.  

   
Quote
daniel quick question about this complex living system thing, whats the difference between a complex living system and I don't know, say, a complex system?

do you know what the bible says about this?  

do you know that some scientists studying fish have found that individuals make choices, choices that risk death for reward or feeding benefit.  So it seems that these  complex self-replicating machines now must also be self-aware?  Isn't this taking raw materials from the earth and organizing them for function?

Tell me now aint it also true that a horny head nest is also a fine example of taking raw materials from the earth and organizing them for function?  I mean hell.  Wasp nest?  get outta here.  these critters are acting like GODS man.  or acting like man.  is that it?

Beavers, fish, wasps, birds, men, and many other organisms use my proposed mechanism.  They all organize raw materials for specific function.  So my mechanism is observable and testable.

   
Quote
is the idea, that a fish might risk eating a preferred prey item, in the face of a predator, based on the payoff of the prey item, a crazy religious belief for evolutionist biologists who deny God?  i mean if we are all fucking atoms you know man.

is this idea somehow not a crazy belief if one accepts the presupposition of some sort of bible thing?  can i be a fulfilled say fish behaviorist if I can deny evolution and I just say well this is God's Creation and I am going to sit here and a-study on it here.  can i be a happy geologist if I don't really give a shit about say geology and i just think God's Rocks are Cool and Really Good Evidence For His Love (can the world really be evidence of anything about god anyway Daniel, or is it just a blessing once you believe?  what can you prove anyway?)

what does this finding of empirical biology tell you about fish or living things in general?  how does this disprove evolution...  or whatever?  

my cat plays with things before it kills it.  that's kinda hateful.  do you think they did this in teh garden of eden?

Were you drunk when you wrote this?  Because I have no idea what you're getting at here.
   
Quote

     
Quote
 It never happened that way and it could not happen that way.  I believe God built life (defined as "a self-replicating cellular organism") using the same basic mechanism man uses to build things; He took raw materials from the earth and organized them for function.  Man does this on a macro scale all the time.  God did it on a nano scale.  Man makes crude (by comparison) machines that don't self-replicate, God made complex organisms that do.  Man's machines don't evolve (much) and adapt to their environments, God's do.  This is a result of the fact that God is an intelligence of the highest order and man is not.


Is this a testable prediction?  You know I have never seen anything built with earthen raw materials took and organized for function.

You're kidding right?  Everything man makes - if traced back to its ultimate origins - is made from earthen raw materials.
     
Quote
Now, I have however woved a basket out of a honeysuckle vine.
 
See, you've even done it yourself.
   
Quote
But you don't get no basket when you run around saying bullshit like "I'm fixing to take somma these here raw materials from the earth and organize those shits for this function".  the level of obfusculatory abstraction you are premissifying up in here is ridiculous.  but here is the essence of this claim          
Quote
man makes complex machines.  God makes complex self-replicating machines


is self-replicating all the difference?

is there more to a living thing than it's complex self-replicatingnessossity?  say, my cat?  or a shitty little vicious pillow shittin Jack Russel?  if that dog is just a complex self-replicating machine then why is it that you know those shitty little dogs will all bite your ankles and poop in your shoe or hat?  does this disprove the soul, or is it broadly possessed throughout vertebrates or something?  primates? creation day?

I'm going with the drunk thing here.
         
Quote
   
Quote
You want me to tell you then what science can explain under my scenario.  Well, I'd say that science can essentially discover God through the examination of His creation.  It's an opportunity to unravel the greatest mystery of the universe - "What is God?".


Oh, so you ain't ever gonna define living thing,

I did define living thing:      
Quote (Daniel Smith @ Nov. 08 2008,11:12)
I believe God built life (defined as "a self-replicating cellular organism") using the same basic mechanism man uses to build things; He took raw materials from the earth and organized them for function.

   
Quote
so we didn't get to "What is Man", so how you gonna jump to "What is God?"?  That means we skipped angels too.  I must be boring you.  I suggest you talk some more about Javison, Javison.

I'd suggest you lay off the beer (or is it whiskey?).

--------------
"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,15:17   

Quote (Albatrossity2 @ Nov. 09 2008,14:54)
Quote (Daniel Smith @ Nov. 09 2008,14:51)
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

That should take about 5 nanoseconds.

Unless, of course, you have more "evidence" than you have divulged thus far...

He does and I have a good idea of where he's keeping it.

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I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Reciprocating Bill



Posts: 4265
Joined: Oct. 2006

(Permalink) Posted: Nov. 09 2008,15:21   

Quote (Daniel Smith @ Nov. 09 2008,15:06)
Are you sure you want to use this paper as an argument against mine?

An argument against your what? You haven't advanced a single positive assertion other than "The Big Head created everything."
   
Quote
Did you understand it?

Only in the most general terms. As I said, I am not a biologist. But my limited comprehension is not at issue here. Within those limits, I'll argue that this paper reports a proposed evolutionary pathway to a complex biological system, with considerable detail, considerable empirical support, and significant implications for future empirical research. Are you prepared to argue that it does not?
   
Quote
You do know that it is arguing for evolution that happened 450+ million years ago right?

The title of the paper provided clues to that. It doesn't follow from the fact that aspects of these remote historical events may remain unknowable that nothing is known. This paper exemplifies that sorts of things that are knowable using contemporary tools.

But before we go further, howabout a response to the following:

It is not enough to point to lacunae - even large lacunae - within an otherwise fertile and productive theoretical framework to reject that framework. Also needed is a competing framework that accounts for all of the facts and data subsumed by the prior framework, fills some of those lacunae, and generates unique, testable empirical hypotheses and predictions that have the potential guide further empirical work.

As you stated above, you have no theory.

No empirical work has been accomplished from the general framework you embrace.

And you have no questions with testable empirical consequences to pose.

--------------
Myth: Something that never was true, and always will be.

"The truth will set you free. But not until it is finished with you."
- David Foster Wallace

"Here’s a clue. Snarky banalities are not a substitute for saying something intelligent. Write that down."
- Barry Arrington

  
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,15:22   

Quote (Albatrossity2 @ Nov. 09 2008,12:54)
 
Quote (Daniel Smith @ Nov. 09 2008,14:51)
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

That should take about 5 nanoseconds.

Unless, of course, you have more "evidence" than you have divulged thus far...

I'm fairly convinced that most atheists would argue that there is "no evidence" for God even if he was standing right in front of them.

--------------
"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,15:28   

Quote (Daniel Smith @ Nov. 09 2008,15:22)
I'm fairly convinced that most atheists would argue that there is "no evidence" for God even if he was standing right in front of them.

A moment ago you said
 
Quote
It's actually from a lack of empirical facts in support of natural pathways

A lack of facts supports your case?
So far there is "no evidence" just as you say.
And correct me if I'm wrong but a lack of evidence could support any number of explanations. So why should this complete lack of evidence support yours?

And Daniel, a simple question. Do you think that the earth is the only planet in the universe capable of supporting life?

--------------
I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Louis



Posts: 6436
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,15:34   

Quote (Daniel Smith @ Nov. 09 2008,20:34)
[SNIP]

So, if you have a specific cite that explains how the specific enzymes required for your hypothetical pathway came into being without an amino acid synthesis mechanism in place, that would further the discussion.

[SNIP]

You're not merely asking the impossible, you're asking for something utterly illogical.

What you are asking is for someone to pick any modern enzymatic system, separate it from its modern biological context and ask how it came about ex nihilo without reference to that modern context. Just pausing to note yet again that creationists don't understand consilience, do you even understand how and why this is a very stupid thing to ask for? It's not merely unanswerable by science, it's literally unanswerable, it is a complete non sequitur. Your "question" is a classic demonstration of how confused you are (and hence why discussing the scientific details with you is futile until you grasp the simple basics of logic).

There is no modern enzymatic system that can be isolated from its context in such a fashion, no modern enzymatic system is claimed to have originated without some ancient amino acid synthesis. Organisms don't have to reinvent the wheel every single time, they are systems with a history.

So if you want to know how complex polypeptides can evolve from simple amino acid precursors, then that's one question we can give you a series of answers to (and indeed if you read the book by Luisi, you'll find a few discussions of exactly that). If you want to know about the specific details of the evolution of a modern complex enzymatic system then there are a series of things you can be pointed to (and there are biochemists and biologists here better qualified to do that than I am). These are two separate questions. Yet another separate question is how we go from simple (probably catalytic) polymeric peptides in abiotic systems to highly specific (definitely and specifically catalytic) enzymes in more "modern" organisms like archaea.

Sorry, but like it or not, you're clearly quite seriously confused.

Louis

Edited to fix Latin!

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Bye.

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,15:34   

Quote (Daniel Smith @ Nov. 09 2008,15:17)
It's actually from a lack of empirical facts in support of natural pathways and from my own belief in God Invisible Golden Unicorn (which offers an alternative explanation) that I derive this conclusion.  

Fixed that for ya. Igu did it.

--------------
I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Louis



Posts: 6436
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,15:34   

Quote (Daniel Smith @ Nov. 09 2008,21:22)
Quote (Albatrossity2 @ Nov. 09 2008,12:54)
 
Quote (Daniel Smith @ Nov. 09 2008,14:51)
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

That should take about 5 nanoseconds.

Unless, of course, you have more "evidence" than you have divulged thus far...

I'm fairly convinced that most atheists would argue that there is "no evidence" for God even if he was standing right in front of them.

Just goes to show how wrong you are on this issue also.

Louis

--------------
Bye.

  
Louis



Posts: 6436
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,15:35   

Quote (oldmanintheskydidntdoit @ Nov. 09 2008,21:34)
Quote (Daniel Smith @ Nov. 09 2008,15:17)
It's actually from a lack of empirical facts in support of natural pathways and from my own belief in God Invisible Golden Unicorn (which offers an alternative explanation) that I derive this conclusion.  

Fixed that for ya. Igu did it.

SHE IS PINK!!!!!!!!!! (MHHNBS)

Louis

--------------
Bye.

  
Reciprocating Bill



Posts: 4265
Joined: Oct. 2006

(Permalink) Posted: Nov. 09 2008,15:37   

Quote (Daniel Smith @ Nov. 09 2008,16:17)
It's actually from a lack of empirical facts in support of natural pathways and from my own belief in God (which offers an alternative explanation) that I derive this conclusion.

This is helpful, Daniel, Because, vis the Davidson paper, it indicates that your burden is to argue that the evidence presented therein does not include empirical facts in support of a natural evolutionary pathway to a complex biological system.

--------------
Myth: Something that never was true, and always will be.

"The truth will set you free. But not until it is finished with you."
- David Foster Wallace

"Here’s a clue. Snarky banalities are not a substitute for saying something intelligent. Write that down."
- Barry Arrington

  
Albatrossity2



Posts: 2780
Joined: Mar. 2007

(Permalink) Posted: Nov. 09 2008,16:07   

Quote (Daniel Smith @ Nov. 09 2008,15:22)
I'm fairly convinced that most atheists would argue that there is "no evidence" for God even if he was standing right in front of them.

I'm not "arguing" for or against anything. I'm merely pointing out that you have not provided any such objective evidence.

Unless I missed it somewhere. Where was it? And when did God stand right in front of you? Did you filch some of that moonshine that you accuse Erasmus of abusing?

--------------
Flesh of the sky, child of the sky, the mind
Has been obligated from the beginning
To create an ordered universe
As the only possible proof of its own inheritance.
                        - Pattiann Rogers

   
Daniel Smith



Posts: 970
Joined: Sep. 2007

(Permalink) Posted: Nov. 09 2008,16:28   

Quote (Reciprocating Bill @ Nov. 09 2008,13:21)
         
Quote (Daniel Smith @ Nov. 09 2008,15:06)
Are you sure you want to use this paper as an argument against mine?

An argument against your what? You haven't advanced a single positive assertion other than "The Big Head created everything."
               
Quote
Did you understand it?

Only in the most general terms. As I said, I am not a biologist. But my limited comprehension is not at issue here. Within those limits, I'll argue that this paper reports a proposed evolutionary pathway to a complex biological system, with considerable detail, considerable empirical support, and significant implications for future empirical research. Are you prepared to argue that it does not?
               
Quote
You do know that it is arguing for evolution that happened 450+ million years ago right?

The title of the paper provided clues to that. It doesn't follow from the fact that aspects of these remote historical events may remain unknowable that nothing is known. This paper exemplifies that sorts of things that are knowable using contemporary tools.

But before we go further, howabout a response to the following:

It is not enough to point to lacunae - even large lacunae - within an otherwise fertile and productive theoretical framework to wring down that framework. Also needed is a competing framework that accounts for all of the facts and data subsumed by the prior framework, fills some of those lacunae, and generates unique, testable empirical hypotheses and predictions that have the potential guide further empirical work.

As you stated above, you have no theory.

No empirical work has been accomplished from the general framework you embrace.

And you have no questions with testable empirical consequences to pose.

How about we discuss the paper then?

They propose that the mammalian blood coagulation system was in place 450mya and has remained essentially unchanged since then.   The current system is shown in Fig. 1 - which is described in the text of the article.  It is a complex, highly regulated system with positive and negative feedback.  

Fig. 5 illustrates their proposed evolutionary pathway.  Fig. 5A is a hypothetical ancestral coagulation system, 5B is a hypothetical intermediate coagulation system, and 5C is the modern system shown in Fig. 1.  (Interesting note: In the description of Fig 5C we are told the following: "For simplicity, the FXI positive-feedback loop has been omitted.".  This would also apply to Fig 1)

They don't really explain how we got 5A in the first place.

To get from 5A to 5B requires a whole genome duplication event and a subsequent local gene duplication event.  How and why the various pieces come into being after that, how they are regulated, and how they happen to fall into the correct place in the intermediate pathway is never explained.

To get from 5B to 5C requires another whole genome duplication event, another local gene duplication event and possibly some gene loss.  Again we are not told how the various pieces come into being after all of that, how they are regulated, and how they happen to fall into the correct place in the final pathway.

So essentially, all they tell you is that the raw materials could have been in place for these other pieces of the puzzle.  They don't provide any details beyond that.

Their main evidence for these evolutionary events is sequence analysis.  They essentially line up the genomes of different animals, see how close they are to each other, and make hypothetical evolutionary trees.  These are inexact comparisons and there are a number of problems mentioned with each one in the article.  

They also don't tell us how the initial system worked - or if it could work.  If you notice, there are no controls or feedback (dashed lines) in the proposed initial system (5A).  What stopped it from coagulating once it started?  What started coagulation in the first place?  Why would such a system be selected?  Many, many more questions could be raised about the rest of the proposed pathways, and the workings of whole genome duplications, but I think you get the idea.

A lot remains unexplained here Bill.  It is basically an initial step towards a natural pathway, but unless a lot of questions are answered as to how and why, it will always be nothing more than that.  This is why I asked if you really wanted to propose this paper.  I'm sure you'll argue that all the blanks will eventually be filled in and that "that's how science works", etc.  I've got no problem with that.  You're making the opposite prediction from mine.  We've got to the end of history to see whose prediction pans out - don't we?

--------------
"If we all worked on the assumption that what is accepted as true is really true, there would be little hope of advance."  Orville Wright

"The presence or absence of a creative super-intelligence is unequivocally a scientific question."  Richard Dawkins

  
Reciprocating Bill



Posts: 4265
Joined: Oct. 2006

(Permalink) Posted: Nov. 09 2008,16:59   

Quote (Daniel Smith @ Nov. 09 2008,17:28)
A lot remains unexplained here Bill.  It is basically an initial step towards a natural pathway, but unless a lot of questions are answered as to how and why, it will always be nothing more than that.  This is why I asked if you really wanted to propose this paper.  I'm sure you'll argue that all the blanks will eventually be filled in and that "that's how science works", etc.  I've got no problem with that.  You're making the opposite prediction from mine.  We've got to the end of history to see whose prediction pans out - don't we?

Actually, I don't recall making any predictions, much less one that is "opposite of yours." Moreover, you haven't made anything resembling a testable prediction yourself.
 
Quote
A lot remains unexplained here Bill.

But your assertion is that nothing has been nor will ever be explained. The fact that a lot remains unexplained provides zero support for that assertion.

Are you arguing that you've met your burden, and successfully established that the Davidson paper presents no empirical facts in support of a natural evolutionary pathway to a complex biological system?

Because I don't think any fair observer would agree.

In any event, it is not enough to point to lacunae - even large lacunae - within an otherwise fertile and productive theoretical framework to reject that framework. Also needed is a competing framework that accounts for all of the facts and data subsumed by the prior framework, fills some of those lacunae, and generates unique, testable empirical hypotheses and predictions that have the potential guide further empirical work.

As you stated above, you have no theory.

No empirical work has been accomplished from the general framework you embrace.

And you have no questions with testable empirical consequences to pose.

--------------
Myth: Something that never was true, and always will be.

"The truth will set you free. But not until it is finished with you."
- David Foster Wallace

"Here’s a clue. Snarky banalities are not a substitute for saying something intelligent. Write that down."
- Barry Arrington

  
deadman_932



Posts: 3094
Joined: May 2006

(Permalink) Posted: Nov. 09 2008,17:00   

Quote (Daniel Smith @ Nov. 09 2008,14:34)
2008,12:09]                    
I didn't "move the goalposts" deadman.  My original challenge was for a detailed pathway for the natural origin of any complex biosystem.  No one here would touch that - so I said I'd be happy with a guess.  I said that to entice discussion.  I was hoping someone would at least propose something, and (to your credit) you stepped up and did that.  

A hypothetical pathway, with no details, does not meet my original challenge - but it's a start.  Now let's go further: let's examine it in detail and see if it stands up to scrutiny.  If you are truly willing to fill in the blanks for your hypothetical pathway, we'll get somewhere.  If you are only willing to say "the answer's out there - go look it up", then you're not really proposing anything of value to this discussion.  So, if you have a specific cite that explains how the specific enzymes required for your hypothetical pathway came into being without an amino acid synthesis mechanism in place, that would further the discussion.  If, on the other hand, all you're willing to do is make general statements about meteors and hypothetical mechanisms that may or may not apply, we'll get nowhere.

Logically, I fail to see how you can say you didn't change the goalposts -- when you just admitted you NOW want the goalposts back to your "original" challenge, Daniel.

1. No, you didn't get the response you wanted to your original challenge, Daniel. That's because you didn't just ask about how an amino acid bio-synthesis pathway could come about -- you wanted also the origins of all enzymes and all amino acids involved, each step for each component, from Origin of Life to amino acid synthesis, in an existing critter (E.coli). As I stated earlier in my posts, NO ONE can provide that presently, Daniel.

Just for the edification of others, this is what you ORIGINALLY asked for concerning amino acid bio-synthesis, Daniel:
 
     
Quote
Daniel_Smith wrote:
1. Explain how this amino acid synthesis system in E. coli originated via natural mechanisms.
2. Explain how and why each of the twenty unique enzymes came to be. To further complicate matters let me add here that enzymes are proteins, and proteins are made from (you guessed it) amino acids! So enzymes are required to make amino acids and amino acids are required to make enzymes. A divine catch-22!
3. Explain how each of the twenty steps in the biochemical pathway came together in the correct order to form these essential amino acids.
4. Tell us what the immediate precursor to the current system was.
5. What were all the intermediate steps? Remember that this explanation must account for each enzyme and each step.
6. Explain how each enzyme came to be regulated. These enzymes are only produced as needed. If enzymes were unregulated you could either have too many of them, causing a chemical imbalance or even cell rupture; or too few, which would stop amino acid synthesis. How did this regulation come about?


Now, as you admitted in your last post to me, you changed that, after I CLEARLY STATED that no one can presently provide the detail you WERE asking for.

Got that, Daniel? YOU admitted in your last post to me that you DID change your criteria (goals) to "show me a viable pathway of ANY system" This is what you asked for at that time:

     
Quote
Daniel_Smith wrote:
"why don't you give me your best guess as to how the system evolved?  Just a quick sketch will do (but preferably something that goes beyond the 'one sentence scenarios' offered here so far).  It obviously can't be too complicated - it happened by accident after all!


But when you are given a viable pathway for amino acid biosynthesis from archaeons to modern E.coli...you now switch the goals back to your "original " (and as I admitted) impossible-to-currently-obtain "goal"

But you NOW claim that you DIDN'T change the height of the metaphorical tennis net from 60 feet down to 4 feet then back to 60?

Sure you did, you're just not honest enough to even deal with that, Daniel. This is why I said clearly that you are operating in bad faith, Daniel -- You moved from asking me to provide that which I admitted I cannot provide

(1) to "give me a viable pathway" (my paraphrase) THEN back to your "original"
(2) "provide me that which is not curently known"

Again, as I said previously, you are specifically acting in bad faith for a reason: you are looking for any gap to stick your God in, heedless of my admission that your ORIGINAL "challenge" is impossible to currently attain.

Now, Daniel, I'd like to question you on the "Universal Genome" you claimed you would argue for. Unlike you, I won't change my goalposts, Daniel, mainly because I don't have any deep emotional investment in any of this, merely curiousity -- plus I prefer honest tactics above the type that you are employing, Daniel. Remember, Daniel, when YOU asked for a viable pathway of ANY system of aminosynthesis, I gave you one from an ATP-production "pump" (as in mitochondria) to primitive Archaeons (thermophiles) to modern E. coli. It's not my problem that you are moving your goalposts, but I'd like to see you do what YOU claimed you could, Daniel.  

So, are YOU ready to "argue for" a Universal Genome Hypothesis,"  Daniel? YOU SAID you would...and YOU SAID this purported "Universal Genome"


Quote
"explains these similarities (I'd argue) better than the proposed evolutionary models. "


concerning Amino Acid Synthesis. Were you being honest there, Daniel, or were you also acting in bad faith in that as well? Inquiring minds want to know, Daniel.

--------------
AtBC Award for Thoroughness in the Face of Creationism

  
oldmanintheskydidntdoit



Posts: 4999
Joined: July 2006

(Permalink) Posted: Nov. 09 2008,17:02   

Quote (Daniel Smith @ Nov. 09 2008,16:28)
To get from 5A to 5B requires a whole genome duplication event

http://en.wikipedia.org/wiki/Triangle_of_U

These "genome duplication events" appear to be more complex then I realised. Not that I had decided that my current understanding was complete or even partially so.  Do you know a sufficient amount about it to be able to proclaim it unlikely via italics then?

--------------
I also mentioned that He'd have to give me a thorough explanation as to *why* I must "eat human babies".
FTK

if there are even critical flaws in Gauger’s work, the evo mat narrative cannot stand
Gordon Mullings

  
Richard Simons



Posts: 425
Joined: Oct. 2006

(Permalink) Posted: Nov. 09 2008,17:14   

Quote (Daniel Smith @ Nov. 09 2008,14:51)
     
Quote (Richard Simons @ Nov. 08 2008,14:54)
How exactly could a god move raw materials around to make the first life? Was it done atom by atom to make a single first cell, or what? Arm waving and appeals to unknowable magic will not do.

People are learning how to manipulate molecules and atoms.  Is it really that "far-out" to hypothesize that an infinitely intelligent being could do it?  How do people do it?

Yes, it really is far out. Having super-intelligence would not help to actually move atoms. People do it by using an atomic force microscope. Was one available to the god(s)? How was it made?
   
Quote
       
Quote
This is what many people thought they were doing for the past few centuries, but no progress seems to have been made.

Lots of progress has been made.  Of course if you don't believe in God, you're not really looking at scientific discoveries as a means of understanding God so you wouldn't really know what that progress is.  One of the things we have learned is that God is the master chemist, master programmer and master planner who is able to project deep into the future and see exactly what is necessary to keep life flourishing on this planet through all manner of extreme global climate changes.

No. You have realized that if everything was made by a god, these are some of the attributes that would be useful, although I am not sure you know what you mean by a programmer. Besides, there is plenty of evidence that any master planner that was involved nodded off on occasion (hernias and appendicitis, anyone?). Also, I am puzzled as to why God could not have simplified things by avoiding extreme global climate changes.
   
Quote
       
Quote
What scientific studies do you propose to answer the question "What is God?" Could you give an idea what you would study (variable stars, endogenous retroviruses, gluons, rats in mazes, I've not the slightest idea myself) and the predictions you would make that would differentiate between there being no god, there being a god and between the different possible gods.

I believe examining the details of life and how it works gives a marvelous insight into the workings of the mind of God.

This did not address the question, but raises another. What conclusions have you come to as to how the mind of God works?
   
Quote
As for differentiating between the world's religions and discovering which (if any) of them provides the most accurate description of God - that'd be a matter of comparing the various theologies to the evidence.

To do this you need an independent description of god (or the gods). How far have you got in drawing up this description?

--------------
All sweeping statements are wrong.

  
Louis



Posts: 6436
Joined: Jan. 2006

(Permalink) Posted: Nov. 09 2008,17:22   

Quote (Richard Simons @ Nov. 09 2008,23:14)
Quote (Daniel Smith @ Nov. 09 2008,14:51)
     
Quote (Richard Simons @ Nov. 08 2008,14:54)
How exactly could a god move raw materials around to make the first life? Was it done atom by atom to make a single first cell, or what? Arm waving and appeals to unknowable magic will not do.

People are learning how to manipulate molecules and atoms.  Is it really that "far-out" to hypothesize that an infinitely intelligent being could do it?  How do people do it?

Yes, it really is far out. Having super-intelligence would not help to actually move atoms. People do it by using an atomic force microscope. Was one available to the god(s)? How was it made?
     

[SNIP]

I neglected to comment on this piece of Danny's hilarity. We've been manipulating atoms and molecules very effectively for centuries without atomic force microscopes.

We cognoscenti call it "chemistry". Shhhh, keep it under your hat, it's clearly a secret from Danny et al.

Louis

--------------
Bye.

  
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