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The Origin of Specious Nonsense. Twelve years on. Still going. Answer soon.

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  • Registered Users Posts: 25,236 ✭✭✭✭King Mob


    J C wrote: »
    I haven't lied
    Yes you have. Repeatedly and clearly. Here's another example:
    J C wrote: »
    and I have plagerised nothing ... the list of logical fallacies was clearly shown as a quote ... from a fellow creationist source, that anybody could identify in 5 seconds by googling it.
    That just makes it lazy, blatant plagiarism.
    Also it's dishonest, rube and disrespectful for you to post it and claim it addresses anything posted to you or that it's on the same level as what Oldrnwisr posts.
    Also it's funny, because you clearly do not actually understand the content.
    J C wrote: »
    In relation to Oldrnwisr, I have addressed one of his points when asked to do so by oscarBravo ... but I'm not going to metaphorically 'drown' myself, Oldrnwisr and everybody else in reams of text ... this is not the type of forum for that kind of exchange.
    Short sussinct posts and counter posts (like oscarBravo's question) is the way to go IMO.:)
    Well posting reams of drivel has never stopped you before, so that's not the problem.
    Much like the last time he humiliated you with your lack of biblical knowledge, you are avoiding him because you can't compete.

    Also, by claiming he is wrong without even attempting to demonstrate that, you are again being dishonest and lying.
    Either man up and address his points or admit that you cannot.

    I don't think your God is buying your excuses any more than we are.
    J C wrote: »
    ... and throwing around unfounded allegations of lying is just 'poisoning the well' and adds nothing to the debate.
    That assumes that I'm attempting to engage you in debate. I'm not.
    Also, I pointed out you hypocrisy. Don't forget that.


  • Registered Users Posts: 148 ✭✭Mick_1970


    J C wrote: »
    ... would realise that the diamond Carbon allotrope wouldn't produce the building blocks of life.:)

    Correct, diamond wouldn't form the basis for life as you and I experience it.

    However it is very arrogant to assume that any life outside our perceived universe could not have as it's basis something like carbonados.

    At least you accept that carbon exists and are aware of nucleosynthesis, which is a good thing.


  • Registered Users Posts: 1,236 ✭✭✭jigglypuffstuff


    J C wrote: »
    Ah ... the old 'we are all stardust' canard raises it's illogical head.:)
    The late Carl Segan was a firm believer that he was made from stardust ... but I disagree ... he was a descendent of the first man and woman made by God in His image and likeness, actually.

    JC, I've backed you up earlier in this thread but I'm about to pose a few things to you now

    1. You think that we aren't made from stardust?? You think it's improbable that the garden referred to in the Bible was actually the cosmos and the soil "stardust"... I'm not positing this like as fact I'm just trying to see if you've considered this?

    2. In his image and likeness..now do you really belive that we look exactly like God? Let me propose something to you..perhaps when God created us in his image it isn't referring to our physical appearance.. But rather our consciousness... I'll elaborate if you need me to ?

    It's very easy to fall into an anthromorphic fallacy..again I'm not saying this is correct.. I'm just saying it's worth considering

    Fwiw I have a firm faith we were created... But my suggestion is that you need to dig a lot deeper...start with esoteric and occult knowledge.. Link to other philosophies such as taoist perspectives, look at alchemy etc... Start joining the dots...and I imagine you may come to some interesting conclusions, and form stronger arguments as well


  • Registered Users Posts: 9,348 ✭✭✭nozzferrahhtoo


    pone2012 wrote: »
    definitions of supernatural fall into the following category according to Oxford " attributed to some force beyond scientific understanding or the laws of nature.

    I think I hold a different understanding of that definition to you. I understand "supernatural" to refer to things that are "beyond scientific understanding or the laws of nature" in terms of them being beyond EVER being understood by science or the laws of nature.

    The way you have parsed the definition is to say "supernatural" means anything that is CURRENTLY outside our scientific understanding. So, for example, before we knew the neurological underpinnings of Epilepsy at the level of the brain.... Epilepsy was "supernatural" because it was outside CURRENT scientific understanding.

    And I do not think that is the right way to parse the definition of "supernatural" at all. "Supernatural" is about what is BEYOND EVER being understood using science, not what is CURRENTLY beyond being understood by science. Therefore Epilepsy was never "supernatural" even when we did not understand it.

    So to call the origins of our universe "supernatural" is to make an assumption that I do not think there is currently a basis to make. So I can but advise you do not make it.
    pone2012 wrote: »
    I assume when people begin to let go of such an unwarranted , severely limited perception of the universe, some understanding may be gained

    It is hard to parse what a sentence like that means as quite often when I hear it and I delve further into it's meaning with the speaker..... it turns out what they mean by it is "Stop believing only what you find substantiation for, and open yourself up to believing stuff I have simply made up directly or second hand".

    And while YMMV I see nothing "limited" or "limiting" about only lending credence to claims which are presented to me with SOME modicum of argument, evidence, data or reasoning to lend them credence.
    pone2012 wrote: »
    I want to know his opinion of what happened, what caused the big bang and how the universe came to be... And you are welcome to add yours if you wish

    Well if I am also welcome to add mine, the answer is simply "I do not know, no one else seems to either, and I consider it an open question at this time".

    Certainly however the word "cause" gives me pause because causality is temporal, based on time, and time is an attribute that appears to have come into being "after" the big bang. So when we start talking about "causes" of the big bang or what happened "before" it......... I think we are entering into a realm of discourse outside normal human linguistics because our language is, for good reason, temporal based too.

    But whatever the answer turns out to be, assuming we ever find one, I think it will either not be a causal solution, or it will require a whole new model of causality that is independent of a temporal element. Either that or it is universe all the way down, each with a temporal element containing the next.

    But, as I said: I do not know, and no one else appears to either. We are, alas, entirely ignorant at this time.
    pone2012 wrote: »
    Everyone here seems to be attempting to make jokes / snide comments at JCs expense...

    And many users are past even bothering to reply to him or be trolled by him, which is why it is always welcome to have another like your good self enter the thread to lend some new life to the discussion.

    And I hope not too many users, and I hope you can forgive them, transfer their snidery on to you from him until such time as it is warranted to do so. But alas yes, there are those who will jump on any creationist (or similar) that comes into this thread as if they are just another head of the same snake.

    I trust you will find my own response above that, and you will return the decorum in the spirit it is offered.
    pone2012 wrote: »
    By you stating that nothing can happen "before" time, you are implying that everything that ever existed is bound by time then? Am I correct?

    Well as I said above, we simply do not know if time was an element in the original creation or formation of our universe. It is just not knowledge we have. What we certainly do NOT have at this time is any model of causality without a temporal element, so really at this point we do not even have the LANGUAGE (aside, I suppose, for the language of mathematics) let alone the actual evidence and knowledge, to really talk about it outside the realm of navel gazing and guesswork.

    The only other thing I can say with any certainty after that is that WHATEVER the explanation for our universe is..... we at this time do not appear to have even a shred of a tiny modicum of argument, evidence, data or reasoning to suggest that the explanation lies in the workings of a non-human intelligent or intentional agent. Or a "god" if you will.

    To my knowledge anyway. If you ARE are of any such thing I have missed, you are more than invited to adumbrate it for me now. Clearly you have indicated in your most recent post you have a "faith" in such an intentional creation agent, but I would be interested if that is grounded in anything more substantive than the mere whim of faith?


  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    pone2012 wrote: »
    Fwiw I have a firm faith we were created... But my suggestion is that you need to dig a lot deeper...start with esoteric and occult knowledge.. Link to other philosophies such as taoist perspectives, look at alchemy etc... Start joining the dots...and I imagine you may come to some interesting conclusions, and form stronger arguments as well

    Be interested in hearing how you reconcile the notion of a creator with Taoist philosophy. While Taoism has a fair amount in common with pantheism, in terms of creation the general gist is from nothing (wuji) comes substance (taiji) which divides into two forms (liang yi or yin and yang), the four emblems, eight trigrams (pakua), sixty four hexagrams (as in the i ching), and the ten thousand things. So basically division and subdivision leading to exponentially increasing complexity, which isn't a bad stab at things for 4th century BCE. Certainly no creator and very little in common with Abrahamic creation myths.


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  • Registered Users Posts: 1,594 ✭✭✭oldrnwisr


    J C wrote: »
    Both Dembski and Shannon are correct ... but they are talking about totally different things ... Dembski is talking about CFSI (Complex Functional Specified Information) whilst Shannon is talking about the quantification, compression, storage, and communication of all forms of information ... including non-complex, non-functional, non-specified information.

    No, once again you've got this completely wrong.

    Firstly, there's no suggestion here about Shannon being right or wrong. His equations merely provide the mechanism for evaluating information content. It is a tool. What is in question here is Dembski's concept of complex specified information. That is what is wrong. Dembski uses complex specified information to mean genetic information with low Kolmogorov complexity. He then goes on to claim that such information can only be destroyed and not added to by naturalistic processes. He is doubly wrong.

    Firstly, as I outlined in my last post, complex specified information is actually genetic information with high Kolmogorov complexity. Mutation increases this because it increases the variation between specimens. It is this variation which drives natural selection.
    Let's use an analogy to explain this. A lot of modern communications is transmitted via fibre optic cabling. This involves transmitting a signal using light waves. If you transmit a single frequency of light down the cable then it doesn't matter how many different sources for that light there are because there is no difference between them. If instead we use multiple sources with slightly different frequenciess then we get a series of pulses because there will be points at which the different wavelengths cancel each other out. These pulses can then be used to transmit digital information based on whether there is a pulse of light being received or not. By adjusting the number of sources and their frequencies you can maximise the bandwidth (i.e. total transmission rate) of the information you're trying to send (approx. 1.2 petabits/second for fibre optics). For anyone who wants a visual example of this here's a good video from Sixty Symbols:



    Evolution works on the same principlee. Mutations increase the variation and (from my last post) the genetic information in the population. This is what drives natural selection. It is a well studied topic and there are several good papers which explain this in more detail, such as this one:

    Evolution of Biological Complexity

    I mentioned above that Dembski is doubly wrong. Even, if he were correct about CSI and Kolmogorov complexity, which he isn't, his idea about CSI being destroyed by mutation would only hold if the only modes of mutation were indels (insertions or deletions) of single nucleotides or frameshift mutations. However, that's not at all true. Quite often, mutation happens at a level above the nucleotide sequence such as gene duplication, chromosome duplication, chromosomal fusion and whole genome duplication (polyploidy). We have examples of all of these mutations where Dembski's ideas of CSI don't even come into play:

    Chromosomal fusion
    Origin of human chromosome 2: An ancestral telomere-telomere fusion


    Whole genome duplication (polyploidy)

    A model for the establishment of polyploidy in plants


    Chromosomal duplication (aneuploidy)

    Segmental aneuploidy and the genetic gross structure of the drosophila genome

    Gene Duplication

    The Evolution of Functionally Novel Proteins after Gene Duplication

    J C wrote: »
    Says who? ... and how?

    If carbon was indeed created within a star, the temperatures and pressures would have been such that it would have been ejected as the diamond metastable allotrope of Carbon ... and not the biologically useful forms of carbon, found in carbon dioxide, sugars, etc.

    ... and we'd all be eating diamonds ... instead of dinner !!!:)

    Astrophysics, really? It's time consuming enough correcting your mistakes in biology and theology, did you really have to embarrass yourself in another discipline.

    There are so many different things wrong with your statement above that it's difficult to decide which one to start with.

    The first problem is that not all stars are the same. Because of the relationship between solar mass and the eventual death of a star there are many different outcomes once a star's hydrogen level decreases to the point that it moves off the main sequence. This is a long and detailed topic but this picture might help to visualise the problem:

    5VABu.jpg

    Both the dominant energy production process during the main sequence and the triple-alpha process, by which carbon is produced, is highly dependent on temperature, solar mass and density. Because of the variations in these values among stars, we end up with a wide variety of outcomes.

    The triple-alpha process is the process in a star by which carbon is produced. During the main sequence, helium accumulates in the stellar core. Eventually, 3 helium nuclei (hence triple alpha) combine to form a carbon nucleus (with the intermediate step of 2 helium nuclei forming a beryllium nucleus). Depending on the mass of the star and other factors like the radiative pressure and electrodegeneracy pressure this carbon can be changed into other carbon forms or carbon compounds before being ejected from the star. By studying meteorites from stellar ejecta we have found carbon in the form of graphite, carbon and silicon carbide.

    Your claim hinges on all of the carbon in a star being held in that star without being further converted to oxygen or ejected from the star and where the pressure inside the star is sufficient to transform this carbon into diamond. While this is possible, it's very rare compared to other allotropes of carbon.

    Like I said already this is a detailed topic and it's not possible to explain the depths of JC's wrongness without creating a "turgid wall of text" so for anyone interested, here are a few helpful links which explain the subject in more detail:

    Stellar nucleosynthesis

    Triple-alpha process

    Stellar nucleosynthesis and the isotopic composition of presolar grains from primitive meteorites

    Effective pressures in star formation


    Nuclear astrophysics: the unfinished quest for the origin of the elements


    Now, to get back to your previous point:
    J C wrote: »
    Creation Scientists investigate the world and report their findings, like all other scientists.

    No, to say that creation scientists are "like all other scientists" is demonstrably false.

    Let's take the Institute for Creation Research, for example. The ICR describes its mission as:

    "ICR exists to conduct scientific research within the realms of origins and earth history, and then to educate the public both formally and informally through graduate and professional training programs, through conferences and seminars around the country, and through books, magazines, and media presentations."

    This all sounds perfectly reasonable on the surface. However, in their "About us" section, there is a page titled "Core Principles" which outline the basis of the ICR's worldview and shows just how dissimilar they are to conventional scientists. On this page you can find statements which are both demonstrably wrong and unscientific.

    For example:

    "The first human beings did not evolve from an animal ancestry, but were specially created in fully human form from the start."

    "The universe and life have somehow been impaired since the completion of creation, so that imperfections in structure, disease, aging, extinctions, and other such phenomena are the result of "negative" changes in properties and processes occurring in an originally-perfect created order."

    "The Bible, consisting of the thirty-nine canonical books of the Old Testament and the twenty-seven canonical books of the New Testament, is the divinely-inspired revelation of the Creator to man. Its unique, plenary, verbal inspiration guarantees that these writings, as originally and miraculously given, are infallible and completely authoritative on all matters with which they deal, free from error of any sort, scientific and historical as well as moral and theological."

    "The biblical record of primeval earth history in Genesis 1-11 is fully historical and perspicuous, including the creation and Fall of man, the Curse on the Creation and its subjection to the bondage of decay, the promised Redeemer, the worldwide cataclysmic deluge in the days of Noah, the post-diluvian renewal of man's commission to subdue the earth (now augmented by the institution of human government), and the origin of nations and languages at the tower of Babel."

    An actual group of scientists wouldn't hold such preconceived assumptions or biases. There's nothing wrong with having a set of core principles, but if you want to hold yourself up as a paragon of scientific research and be taken seriously as scientists then these principles should include a commitment to publishing all results, eliminating biases where possible, academic integrity, and of course a declaration of interests, all of which are missing from ICR's website. It is these reasons as well as the unscientific behaviour of the more prominent "creation scientists" which I documented previously which isolate "creation scientists" from the larger scientific community.


  • Registered Users Posts: 1,594 ✭✭✭oldrnwisr


    pone2012 wrote: »
    Out of curiosity... What's your input into how the universe as we know it came to be? Let's talk pre big bang now..I'd be very interested to hear that

    This is a complex topic and subject to a number of misconceptions but let's give it a go.

    Before we begin I want to repeat the two major caveats outlined previously by OscarBravo, namely, the only honest answer to what caused/preceded the big bang is that we don't know and that since time is a property of our current universe, talking about what happened before time existed is meaningless.

    However, we can posit possible scenarios for the cause of the big bang. In fact, the eventual fate of our current universe might give us a clue. The neatest possibility IMHO is the cyclical universe hypothesis outlined by Roger Penrose. It goes something like this.

    Right now we are in the stelliferous era of the universe, the age of stars. Once stars such as our sun begin to burn out, the universe will eventually only consist of white dwarfs, brown dwarfs and black holes. At this point we will enter the degenerate era. During this time white dwarfs will assimilate dark matter and proton decay will begin leaving only black holes. Then we enter the black hole era. Over time, the black holes themselves, due to Hawking radiation, will evaporate. At this point the universe will only consist of massless particles travelling at the speed of light. This dark era will stretch on for eternity, as the temperature of the universe cools to zero, and the density approaches zero. But if you are travelling at the speed of light, an eternity is no different from an instant. Time, as a scale of duration, becomes meaningless. This is the heat death of the universe. At this point, the infinite eternity of one universe is no different, scientifically speaking, from the singularity beginning of the next universe. It is possible, and plausible, that the universe may exist in an infinite series of cycles with the death of each universe being the big bang of the next.
    This isn't just a nice story. It is a coherent physical framework which fits within our current understanding of cosmology and quantum physics. Moreover, there has even been some preliminary experimental support for it:

    Concentric circles in WMAP data may provide evidence of violent pre-Big Bang activity

    On CCC-predicted concentric low-variance circles in the CMB sky

    Data gathered from the Wilkinson Microwave Anisotropy Probe (WMAP) suggests that there are variances in the cosmic background radiation (CMB) consistent with a cyclic conformal rescaling.

    For more basic explanations of this hypothesis you can read more here:

    The Five Ages of the Universe

    Heat death of the Universe

    Conformal cyclic cosmology

    There are also books on the subject, one dealing specifically with the hypothesis above:

    Cycles of Time: An Extraordinary New View of the Universe


    Like I said, at the beginning I like this hypothesis because it is a neat explanation. It covers all points while requiring few assumptions. It also has the benefit of some preliminary, very preliminary I hasten to add, experimental evidence.


    This is a huge topic and I think a primer on it might help your understanding immensely.

    The Hidden Reality: Parallel Universes and the Deep Laws of the Cosmos


    However, there are several important points to take away from all this.

    1. It is possible that the answer to the origin of the universe may be outside of our capacity to test, just like abiogenesis. We can propose theories and frameworks which fit our understanding of science but until we can go back in time and (in this case) outside our spacetime, we can't know which theory, if any, is correct. It's like discovering a murder victim after he's been cremated. You can hypothesise that he was stabbed or shot or smothered but there's no way to discern from the available evidence which theory is correct.

    2. The answer "I don't know" is perfectly valid in this, or any other context. The fact that person A has their claim utterly refuted by person B doesn't require person B to offer an alternate explanation to replace A's broken idea.

    3. God is a possible answer to the problem but one with no supporting evidence. Our current understanding of physics is such that we don't need to invoke a god to complete the theory or balance the equation if you will. You can still invoke God to answer all the things that science doesn't understand but that's not a very sound strategy.


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    Actually what you did is the epitome of plagiarism

    http://www.plagiarism.org/plagiarism-101/what-is-plagiarism/
    ... except I didn't do so ... I clearly indicated it was a quote ... and as it could be identified where the quote came from in 5 secs on google it I haven't presented the list as new and original and not derived from an existing source.


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    Delirium wrote: »
    Hold on, you've been cited Dembski and CFSI as 'proof' that evolution is all nonsense for ages. I.e. that information degrades over generations rather than mutates with beneficial properties for a species.

    Why are you rolling back on that now?
    Where am I rolling back on this?


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    Mick_1970 wrote: »
    Correct, diamond wouldn't form the basis for life as you and I experience it.

    However it is very arrogant to assume that any life outside our perceived universe could not have as it's basis something like carbonados.
    It's much more arrogant to assume that life outside our perceived Universe doesn't include God ... when we have actual infallible evidence for His actions in this Universe.


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  • Registered Users Posts: 14,615 ✭✭✭✭J C


    pone2012 wrote: »
    JC, I've backed you up earlier in this thread but I'm about to pose a few things to you now

    1. You think that we aren't made from stardust?? You think it's improbable that the garden referred to in the Bible was actually the cosmos and the soil "stardust"... I'm not positing this like as fact I'm just trying to see if you've considered this?
    Thanks for the support. I see no reason on a plain reading of Genesis to think that the Garden of Eden was anything but what it says on the tin ... a paradise on Earth.
    pone2012 wrote: »
    2. In his image and likeness..now do you really belive that we look exactly like God? Let me propose something to you..perhaps when God created us in his image it isn't referring to our physical appearance.. But rather our consciousness... I'll elaborate if you need me to ?
    It is both ... we are primarily made in the spiritual / intellectual image of God ... but He also took on our physical image when He incarnated on Earth, as Jesus Christ.
    pone2012 wrote: »
    It's very easy to fall into an anthromorphic fallacy..again I'm not saying this is correct.. I'm just saying it's worth considering.
    It often happens in relation to animals and inanimate objects.
    pone2012 wrote: »
    Fwiw I have a firm faith we were created... But my suggestion is that you need to dig a lot deeper...start with esoteric and occult knowledge.. Link to other philosophies such as taoist perspectives, look at alchemy etc... Start joining the dots...and I imagine you may come to some interesting conclusions, and form stronger arguments as well
    I know all about this stuff ... but it always comes up short of its initial promise ... because it is not of God.


  • Registered Users Posts: 148 ✭✭Mick_1970


    J C wrote: »
    It's much more arrogant to assume that life outside our perceived Universe doesn't include God ... when we have actual infallible evidence for His actions in this Universe.

    Well isn't that dandy, show me this "infallible evidence" for your chosen deity.


  • Registered Users Posts: 25,580 ✭✭✭✭Timberrrrrrrr


    J C wrote: »
    ... except I didn't do so ... I clearly indicated it was a quote ... and as it could be identified where the quote came from in 5 secs on google it I haven't presented the list as new and original and not derived from an existing source.

    Wow!

    Not only are you a liar you are a delusional liar!


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    oldrnwisr wrote: »
    No, once again you've got this completely wrong.

    Firstly, there's no suggestion here about Shannon being right or wrong.
    I never said he was wrong ... in fact I said he was right.
    oldrnwisr wrote: »
    His equations merely provide the mechanism for evaluating information content. It is a tool.
    Its a tool for quantifying information and its storage, and communication limits ... without any reference to the quality of the information (which is a derivative of functionality and not its quantity).
    oldrnwisr wrote: »
    What is in question here is Dembski's concept of complex specified information. That is what is wrong. Dembski uses complex specified information to mean genetic information with low Kolmogorov complexity.
    In general, living CFSI has relatively low Kolmogorov complexity due to the limited combinatorial space for useful biomolecules and the genetic CFSI that produces them.
    Mutagenesis will certainly increase its Kolmogorov complexity but at a very high cost in functionality and specificity ... rapidly reaching the point of complete disfunctionality and death.

    oldrnwisr wrote: »
    He then goes on to claim that such information can only be destroyed and not added to by naturalistic processes. He is doubly wrong.
    Firstly, as I outlined in my last post, complex specified information is actually genetic information with high Kolmogorov complexity.
    It isn't actually ... Kolmogorov complexity can be vastly increased when there is no requirement for functionality ... which would otherwise strictly limit the combinatorial space due to the specificity requirements needed to retain functionality.
    i agree that fully functional Genetic information has lower Kolmogorov complexity than genetic information degraded by mutagenesis. The mistake you're making is thinking that Kolmogorov complexity is some kind of measure of the functional quality of genetic information ... when the reverse is actually true.
    Just like a page of typed English language has a much lower level of Kolmogorov complexity than a page of random letters and symbols from every language on earth. However, it's increase in Kolmogorov complexity comes at the cost of functionality in that it is meaningless ... while the page of English language is meaningful.
    oldrnwisr wrote: »
    Mutation increases this because it increases the variation between specimens. It is this variation which drives natural selection.
    Mutagenesis increases the variation between specimens allright ... but it is deleterious variation ... where the more of it an oganism has the less fit it makes the individual ... and it becomes rapidly lethal, in the absence of active 'repair' mechanisms that restore the genome to its pristine / semi-pristine condition. Indeed inherited mutations in DNA-repair genes such as BRCA2 are associated with increased risks of agressive cancers, such is the importance of avoiding compromising these auto-repair mechanisms ... which reverse mutations ... thereby reducing it's Kolmogorov complexity.


  • Registered Users Posts: 28,569 ✭✭✭✭looksee


    Mod: Less of the calling people liars please!


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    Wow!

    Not only are you a liar you are a delusional liar!
    I'm not going to dignify your crass ad hominem with a reply.:(


  • Registered Users Posts: 28,569 ✭✭✭✭looksee


    J C wrote: »
    I'm not going to dignify your crass ad hominem with a reply.:(

    (non-mod hat) well that's one way out I suppose :D


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    looksee wrote: »
    (non-mod hat) well that's one way out I suppose :D
    ... a way out of what?

    ... answering posts calling me unfounded names??


  • Registered Users Posts: 1,594 ✭✭✭oldrnwisr


    J C wrote: »
    In general, living CFSI has relatively low Kolmogorov complexity due to the limited combinatorial space for useful biomolecules and the genetic CFSI that produces them.
    Mutagenesis will certainly increase its Kolmogorov complexity but at a very high cost in functionality and specificity ... rapidly reaching the point of complete disfunctionality and death.

    OK, before we begin let's clear something up. There's no such thing as "complex functional specified information". The concept originally outlined by Dembski is based on the idea of specified complexity which existed in biology before Dembski ever put pen to paper, as it were. Dembski's work is often quoted as complex specified information but adding the word functional into the mix doesn't help your case any, it's just a meaningless term. Apart from two references on a blog and a single forum post the only references on the internet to "complex functional specified information" come from you. Not even other "creation scientists" use the term CFSI. Your problem is that CSI has been so comprehensively torn apart not just on this thread but by a number of actual scientists that you feel that tossing the word functional into the mix is somehow going to negate the fatal flaws in CSI. It isn't.

    Now, let's talk specified complexity, Kolmogorov complexity and functionality.

    We've already seen that Dembski uses low Kolmogorov complexity as the basis for his idea of complex specified information. However, his total ignorance of biology undermines the concept from the get go. As I've already described low Kolmogorov complexity allows for the information content of a message to be transmitted in an abbreviated form. So if you want to send the following 32 bit string:

    ABABABABABABABABABABABABABABABAB

    you can just send "AB 16 times" which can take up just 9 bits of information. Dembski's idea is that information with specified complexity i.e. something that is functionally useful for an organism would have a DNA sequence which has low Kolmogorov complexity. He further argues, just as you have done above that mutation increases Kolmogorov complexity at the cost of function. He, and you, are fractally wrong.

    Firstly, let's consider a single mutation in the above sequence:

    ABABABCBABABABABABABABABABABABAB

    Now, we have changed the sequence by just a single letter but we have significantly increased the Kolmogorov complexity. But what does this do to the function of the sequence? Well, in this hypothetical example, nothing because it's just a simplified example, but next let's look at a real example.

    On the short arm of chromosome 4 there exists a gene with the following structure:

    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAG

    Now, using Dembski's argument this gene is an example of complex specified information since a) it has low Kolmogorov complexity and b) it has a specific function, i.e. it codes for the protein huntingtin. Dembski's idea is that a mutation in this gene would lead to increased Kolmogorov complexity. Does it? Well, as it turns out no. The structure above is an example of the gene sequence in a healthy adult. Now let's look at two mutated sequences:

    1.
    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGACAGCAGCAGCAGCAG

    2.
    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGACAGCAGCAGCAGCAGCAGCAGCAGCAG

    The healthy version of the gene contains repeats of the codon CAG with normally between 6 and 35 repeats. The first mutated example above contains 36 repeats while the second example contains 40 repeats. In the first example, the 36 repeats cause the huntingtin protein to stop working normally and it no longer interacts with other proteins as it normally would. In the second mutated example, a modified huntingtin protein is produced which fragments itself and draws other proteins into lumps forming neuronal intranuclear inclusions which causes the person with the mutated gene to develop Huntington's disease. So we have three examples above of DNA sequences with normal function, no function and harmful function. What about the Kolmogorov complexity. Well, since the sequence is composed of repeats of the same codon, the Kolmogorov complexity for all three sequences is exactly the same, contrary to what Dembski predicts.

    There are two more problems with Dembski's CSI idea, one of which we've already touched on and one we haven't.

    Firstly, mutation types. In post 2617 I explained why Dembski's CSI idea fails because he believes that mutation happens only through indels (insertions or deletions) of nucleotides or frameshift mutations. It doesn't and mutations like gene duplication or aneuploidy completely obviate Dembski's argument about increasing complexity destroying functionality. Furthermore, we have evidence of novel functionality being acquired through mutation contrary to what Dembski claims.

    Emergence of nylon oligomer degradation enzymes in Pseudomonas aeruginosa PAO through experimental evolution.

    Evolution of a regulated operon in the laboratory


    Evolution of a new enzymatic function by recombination within a gene

    These are just 3 examples out of over 3000 papers which detail the acquisition of novel function through gene duplication or mutation types other than those considered by Dembski.

    Now, secondly, for the big elephant in the room, redundancy. Dembski (and other creationists) argue the idea that a protein sequence needs to be a certain way, that if you change one letter out of a 100 amino acid sequence then you're going to **** everything up and nothing's going to work anymore. Trouble is he's dead wrong. Just to underscore this problem here's an excerpt of a creationist trying to prove design using Shannon information:

    "Complex specified information is a specified subset of Shannon information. That means that complex specified information is Shannon information of a specified nature, ie with meaning and/ or function, and with a specified complexity.

    Shannon's tells us that since there are 4 possible nucleotides, 4 = 2^2 = 2 bits of information per nucleotide. Also there are 64 different coding codons, 64 = 2^6 = 6 bits of information per amino acid, which, is the same as the three nucleotides it was translated from.

    Take that and for example a 100 amino acid long functioning protein- a protein that cannot tolerate any variation, which means it is tightly specified and just do the math 100 x 6 + 6 (stop) = 606 bits of specified information- minimum, to get that protein. That means CSI is present and design is strongly supported.


    Now if any sequence of those 100 amino acids can produce that protein then it isn't specified. IOW if every possible combo produced the same resulting protein, I would say that would put a hurt on the design inference."


    I have highlighted the portion of the post where the creationist argument unravels. He fails to take into account redundancy.

    Firstly, he mentions that there are 64 possible codons which, irrelevantly, is equal to 2^6. However, what he fails to mention is that these 64 codons produce just 20 amino acids as shown in the table below:

    image_preview


    There is a high degree of structural redundancy among codons such that, for example, arginine can be produced by any of the following combinations: CGT, CGC, CGA, CGG, AGA, AGG. This has significant consequences for Dembski's claim about the fragility of protein sequences. Of course, structural redundancy is not just observed at the amino acid level.

    Proteins also have a high degree of structural or functional redundancy. Take cytochrome c, for example. Cytochrome c is a hemeprotein which is 100 amino acids long just like in the creationist example above. However, it has a massive degree of structural redundancy as seen in the species comparison below:

    Cyto-Seq.jpg

    As you can see in the image above, you have widely varying amino acid sequences yet each of these sequences result in cytochrome c. In fact, for all 100 unit amino acid sequences (approx. 10^130 possible combinations) 10^67 result in cytochrome c. So Dembski's claim that mutation destroys complex specified information is demonstrably false.

    Another example of this phenomenon is haemoglobin. There are over 250 different mutations in the haemoglobin protein which have been documented and yet the function of the protein is unaffected. That's 250 variations of a protein which is only 287 amino acids long in the first place.

    This idea is well-documented in the literature being featured even in some textbooks. Some references for those interested:

    Cytochromes c: Evolutionary, Structural and Physicochemical Aspects

    Protein folding and protein evolution: common folding nucleus in different subfamilies of c-type cytochromes?

    Structural and genetic analysis of the folding and function of T4 lysozyme

    OK, I think I've taken up enough of everyone's time, time to summarize:

    • Although Dembski's use of Kolmogorov complexity is the opposite of it's use in mainstream biology, the point is moot since functional and non-functional sequences can and do have the same Kolmogorov complexity.
    • Complex specified information only becomes relevant, even theoretically, if we restrict mutation types to indels and frameshift mutations. Since there are other types of mutation which do not operate in this way, the idea of CSI is fatally undermined.
    • Even if we consider point mutations, they have little impact on the functionality of proteins owing to the structural redundancy of both amino acids and proteins.
    • Mutations can create new CSI/CFSI through the acquisition of novel features such as the development of nylonase


    CSI is a house of cards argument that its own author doesn't even bother to defend anymore. It looks all science-y from a distance but once you start to prod it a little the entire argument crumbles and it does so completely.


  • Registered Users Posts: 1,236 ✭✭✭jigglypuffstuff


    I think I hold a different understanding of that definition to you. I understand "supernatural" to refer to things that are "beyond scientific understanding or the laws of nature" in terms of them being beyond EVER being understood by science or the laws of nature.

    The way you have parsed the definition is to say "supernatural" means anything that is CURRENTLY outside our scientific understanding. So, for example, before we knew the neurological underpinnings of Epilepsy at the level of the brain.... Epilepsy was "supernatural" because it was outside CURRENT scientific understanding.

    And I do not think that is the right way to parse the definition of "supernatural" at all. "Supernatural" is about what is BEYOND EVER being understood using science, not what is CURRENTLY beyond being understood by science. Therefore Epilepsy was never "supernatural" even when we did not understand it.

    So to call the origins of our universe "supernatural" is to make an assumption that I do not think there is currently a basis to make. So I can but advise you do not make it.

    But is it? if we examine actual definitions of what supernatural is, versus what you posit it is, we can equally lend credence to what ive stated ....lets investigate

    Merriam Webster definition : of or relating to an order of existence beyond the visible observable universe; especially : of or relating to God or a god, demigod, spirit, or devil
    2
    a : departing from what is usual or normal especially so as to appear to transcend the laws of nature
    b : attributed to an invisible agent (such as a ghost or spirit)

    Cambridge : caused by forces that cannot be explained by science

    Now, I know that we have no explanation for these things first off, which you don't seem to agree is enough to consider it..but also remember that examining the phenomena in question that could possibly involve moving outside the boundaries of space & time, and with that let us consider Kuhn's words

    the reception of a new paradigm often necessitates a redefinition of the corresponding science. Some old problems may be relegated to another science or declared entirely "unscientific." [e.g. alchemy] Others that were previously non-existent or trivial may, with a new paradigm, become the very archetypes of significant scientific achievement. [e.g., tidology, the study of the tides] The normal-scientific tradition that emerges from a scientific revolution is not only incompatible but often actually in-commensurable with that which has gone before



    In the above sense, its somewhat plausible to see how the origins of the universe could be viewed as supernatural, as no existing paradigm can account for it, therefore we are left with no natural explanation. Considering the aforementioned its certainly possible that a scientific revolution may occur, which could possibly rewrite much of scientific consensus, thus redefining the supernatural as natural, however we will have to wait and see if that happens..in any event I do see the discrepancy and take what you've mentioned, so imo, you could interpret it whatever way you wish, depending on how you take the definition I guess


    It is hard to parse what a sentence like that means as quite often when I hear it and I delve further into it's meaning with the speaker..... it turns out what they mean by it is "Stop believing only what you find substantiation for, and open yourself up to believing stuff I have simply made up directly or second hand".

    And while YMMV I see nothing "limited" or "limiting" about only lending credence to claims which are presented to me with SOME modicum of argument, evidence, data or reasoning to lend them credence.

    I will reframe it to make it easier to understand then. My opinion is dont close yourself off to outside ideas because they dont match up to your beliefs (or lack of), rather take the "I dont know attitude".

    So are you saying there's nothing to suggest the actual existence of supernatural phenomena? I'm not accusing here I'm asking
    Well if I am also welcome to add mine, the answer is simply "I do not know, no one else seems to either, and I consider it an open question at this time".

    Certainly however the word "cause" gives me pause because causality is temporal, based on time, and time is an attribute that appears to have come into being "after" the big bang. So when we start talking about "causes" of the big bang or what happened "before" it......... I think we are entering into a realm of discourse outside normal human linguistics because our language is, for good reason, temporal based too.

    But whatever the answer turns out to be, assuming we ever find one, I think it will either not be a causal solution, or it will require a whole new model of causality that is independent of a temporal element. Either that or it is universe all the way down, each with a temporal element containing the next.

    But, as I said: I do not know, and no one else appears to either. We are, alas, entirely ignorant at this time.

    Correct me if I am wrong here, but are you saying that we will need to utilise a method that involves transcending the boundaries of time in order to get these answers?? again I'm asking not presuming
    And many users are past even bothering to reply to him or be trolled by him, which is why it is always welcome to have another like your good self enter the thread to lend some new life to the discussion.

    And I hope not too many users, and I hope you can forgive them, transfer their snidery on to you from him until such time as it is warranted to do so. But alas yes, there are those who will jump on any creationist (or similar) that comes into this thread as if they are just another head of the same snake.

    I trust you will find my own response above that, and you will return the decorum in the spirit it is offered.

    Indeed I do


    Well as I said above, we simply do not know if time was an element in the original creation or formation of our universe. It is just not knowledge we have. What we certainly do NOT have at this time is any model of causality without a temporal element, so really at this point we do not even have the LANGUAGE (aside, I suppose, for the language of mathematics) let alone the actual evidence and knowledge, to really talk about it outside the realm of navel gazing and guesswork.

    The only other thing I can say with any certainty after that is that WHATEVER the explanation for our universe is..... we at this time do not appear to have even a shred of a tiny modicum of argument, evidence, data or reasoning to suggest that the explanation lies in the workings of a non-human intelligent or intentional agent. Or a "god" if you will.

    To my knowledge anyway. If you ARE are of any such thing I have missed, you are more than invited to adumbrate it for me now. Clearly you have indicated in your most recent post you have a "faith" in such an intentional creation agent, but I would be interested if that is grounded in anything more substantive than the mere whim of faith?


    Well yes, I do have faith, or belief,. of that I can say you are correct, however it is a personal thing rather than affiliated with social structures. Also, as a person who actively strives to find answers, I am most open to new material from all walks of life...I read around various schools of thought, scientific, theological, philosophical etc, so I don't claim to have any answers, rather im just a person searching for them like anyone else...I can tell someone what I believe, and why I believe it, however I cannot provide scientific evidence.
    smacl wrote: »
    Be interested in hearing how you reconcile the notion of a creator with Taoist philosophy. While Taoism has a fair amount in common with pantheism, in terms of creation the general gist is from nothing (wuji) comes substance (taiji) which divides into two forms (liang yi or yin and yang), the four emblems, eight trigrams (pakua), sixty four hexagrams (as in the i ching), and the ten thousand things. So basically division and subdivision leading to exponentially increasing complexity, which isn't a bad stab at things for 4th century BCE. Certainly no creator and very little in common with Abrahamic creation myths.

    Now before we delve into any discussion about, Taoism, Tesla, electromagnetic frequencies, string theory, Taoist Philosophy, Neidan (Jing, Qi, Shen practives) Carl Jung, Vibrational frequencies, the esoteric, occult and all the other wondrous things we can speculate on...I do want to ask you...at what point did I mention anything about Abrahamic religions ?
    oldrnwisr wrote: »
    This is a complex topic and subject to a number of misconceptions but let's give it a go.

    Before we begin I want to repeat the two major caveats outlined previously by OscarBravo, namely, the only honest answer to what caused/preceded the big bang is that we don't know and that since time is a property of our current universe, talking about what happened before time existed is meaningless.

    However, we can posit possible scenarios for the cause of the big bang. In fact, the eventual fate of our current universe might give us a clue. The neatest possibility IMHO is the cyclical universe hypothesis outlined by Roger Penrose. It goes something like this.

    Right now we are in the stelliferous era of the universe, the age of stars. Once stars such as our sun begin to burn out, the universe will eventually only consist of white dwarfs, brown dwarfs and black holes. At this point we will enter the degenerate era. During this time white dwarfs will assimilate dark matter and proton decay will begin leaving only black holes. Then we enter the black hole era. Over time, the black holes themselves, due to Hawking radiation, will evaporate. At this point the universe will only consist of massless particles travelling at the speed of light. This dark era will stretch on for eternity, as the temperature of the universe cools to zero, and the density approaches zero. But if you are travelling at the speed of light, an eternity is no different from an instant. Time, as a scale of duration, becomes meaningless. This is the heat death of the universe. At this point, the infinite eternity of one universe is no different, scientifically speaking, from the singularity beginning of the next universe. It is possible, and plausible, that the universe may exist in an infinite series of cycles with the death of each universe being the big bang of the next.
    This isn't just a nice story. It is a coherent physical framework which fits within our current understanding of cosmology and quantum physics. Moreover, there has even been some preliminary experimental support for it:

    Concentric circles in WMAP data may provide evidence of violent pre-Big Bang activity

    On CCC-predicted concentric low-variance circles in the CMB sky

    Data gathered from the Wilkinson Microwave Anisotropy Probe (WMAP) suggests that there are variances in the cosmic background radiation (CMB) consistent with a cyclic conformal rescaling.

    For more basic explanations of this hypothesis you can read more here:

    The Five Ages of the Universe

    Heat death of the Universe

    Conformal cyclic cosmology

    There are also books on the subject, one dealing specifically with the hypothesis above:

    Cycles of Time: An Extraordinary New View of the Universe


    Like I said, at the beginning I like this hypothesis because it is a neat explanation. It covers all points while requiring few assumptions. It also has the benefit of some preliminary, very preliminary I hasten to add, experimental evidence.


    This is a huge topic and I think a primer on it might help your understanding immensely.

    The Hidden Reality: Parallel Universes and the Deep Laws of the Cosmos


    However, there are several important points to take away from all this.

    1. It is possible that the answer to the origin of the universe may be outside of our capacity to test, just like abiogenesis. We can propose theories and frameworks which fit our understanding of science but until we can go back in time and (in this case) outside our spacetime, we can't know which theory, if any, is correct. It's like discovering a murder victim after he's been cremated. You can hypothesise that he was stabbed or shot or smothered but there's no way to discern from the available evidence which theory is correct.

    2. The answer "I don't know" is perfectly valid in this, or any other context. The fact that person A has their claim utterly refuted by person B doesn't require person B to offer an alternate explanation to replace A's broken idea.

    3. God is a possible answer to the problem but one with no supporting evidence. Our current understanding of physics is such that we don't need to invoke a god to complete the theory or balance the equation if you will. You can still invoke God to answer all the things that science doesn't understand but that's not a very sound strategy.

    Ill be the first to admit im not well versed in the realm of quantum physics, multiple universes and such, rather ive only begun to scratch the surface of such topics, so I will review the links, and continue wading my way through the vast body of literature..Thanks for the links :)

    As you can see above, im of the opinion that understanding such phenomena to the point that we can form a valid explanation is far beyond our grasp at present, and will require a scientific revolution of sorts
    J C wrote: »
    Thanks for the support. I see no reason on a plain reading of Genesis to think that the Garden of Eden was anything but what it says on the tin ... a paradise on Earth.

    It is both ... we are primarily made in the spiritual / intellectual image of God ... but He also took on our physical image when He incarnated on Earth, as Jesus Christ.

    It often happens in relation to animals and inanimate objects.

    I know all about this stuff ... but it always comes up short of its initial promise ... because it is not of God.

    I could give you one..., Biblical literacy is a phenomenon that is little more than a century old

    Bur JC, you've said he took on our image, that contradicts the point you tried to make doesnt it?

    In what sense? I have yet to understand how these things fall short?


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  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    pone2012 wrote: »
    Now before we delve into any discussion about, Taoism, Tesla, electromagnetic frequencies, string theory, Taoist Philosophy, Neidan (Jing, Qi, Shen practives) Carl Jung, Vibrational frequencies, the esoteric, occult and all the other wondrous things we can speculate on...I do want to ask you...at what point did I mention anything about Abrahamic religions ?

    In your previous post you say;
    pone2012 wrote: »
    Let me propose something to you..perhaps when God created us in his image it isn't referring to our physical appearance.. But rather our consciousness... I'll elaborate if you need me to ?

    Fwiw I have a firm faith we were created

    Once you say when God created us as opposed to if god created us and follow this with the statement relating to your faith, this implies a belief in God (singular). In the context of this thread, I would take God (as opposed to a god or gods) to be the once favoured by the Abrahamic traditions. This is in stark contrast to Taoist beliefs which vary from non-theistic to polytheistic, but in no cases suggest that we were created by God (or anyone else for that matter).


  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    oldrnwisr wrote: »
    He, and you, are fractally wrong.

    :)


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    oldrnwisr wrote: »
    OK, before we begin let's clear something up. There's no such thing as "complex functional specified information". The concept originally outlined by Dembski is based on the idea of specified complexity which existed in biology before Dembski ever put pen to paper, as it were.
    Glad you accept that there is specified complexity in living organisms ... and, of course, it existed there before Dembski identified and described it.
    ... and the specified complexity of the genetic information in living organisms is also functional in that it produces functional systems and abilities that are functional for the organism concerned.
    oldrnwisr wrote: »
    Dembski's work is often quoted as complex specified information but adding the word functional into the mix doesn't help your case any, it's just a meaningless term.
    How is the word functional 'meaningless'? ... functional means that it has a useful function or induces/provides functionality.
    oldrnwisr wrote: »
    Apart from two references on a blog and a single forum post the only references on the internet to "complex functional specified information" come from you. Not even other "creation scientists" use the term CFSI. Your problem is that CSI has been so comprehensively torn apart not just on this thread but by a number of actual scientists that you feel that tossing the word functional into the mix is somehow going to negate the fatal flaws in CSI. It isn't.
    As complex specified information has no fatal flaws, the addition of the word functional is merely a refinement of the concept.:)
    oldrnwisr wrote: »
    Now, let's talk specified complexity, Kolmogorov complexity and functionality.

    We've already seen that Dembski uses low Kolmogorov complexity as the basis for his idea of complex specified information. However, his total ignorance of biology undermines the concept from the get go. As I've already described low Kolmogorov complexity allows for the information content of a message to be transmitted in an abbreviated form. So if you want to send the following 32 bit string:

    ABABABABABABABABABABABABABABABAB

    you can just send "AB 16 times" which can take up just 9 bits of information. Dembski's idea is that information with specified complexity i.e. something that is functionally useful for an organism would have a DNA sequence which has low Kolmogorov complexity. He further argues, just as you have done above that mutation increases Kolmogorov complexity at the cost of function. He, and you, are fractally wrong.

    Firstly, let's consider a single mutation in the above sequence:

    ABABABCBABABABABABABABABABABABAB

    Now, we have changed the sequence by just a single letter but we have significantly increased the Kolmogorov complexity. But what does this do to the function of the sequence? Well, in this hypothetical example, nothing because it's just a simplified example, but next let's look at a real example.

    On the short arm of chromosome 4 there exists a gene with the following structure:

    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAG

    Now, using Dembski's argument this gene is an example of complex specified information since a) it has low Kolmogorov complexity and b) it has a specific function, i.e. it codes for the protein huntingtin. Dembski's idea is that a mutation in this gene would lead to increased Kolmogorov complexity. Does it? Well, as it turns out no. The structure above is an example of the gene sequence in a healthy adult. Now let's look at two mutated sequences:

    1.
    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGACAGCAGCAGCAGCAG

    2.
    CAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGCAGACAGCAGCAGCAGCAGCAGCAGCAGCAG

    The healthy version of the gene contains repeats of the codon CAG with normally between 6 and 35 repeats. The first mutated example above contains 36 repeats while the second example contains 40 repeats. In the first example, the 36 repeats cause the huntingtin protein to stop working normally and it no longer interacts with other proteins as it normally would. In the second mutated example, a modified huntingtin protein is produced which fragments itself and draws other proteins into lumps forming neuronal intranuclear inclusions which causes the person with the mutated gene to develop Huntington's disease. So we have three examples above of DNA sequences with normal function, no function and harmful function. What about the Kolmogorov complexity. Well, since the sequence is composed of repeats of the same codon, the Kolmogorov complexity for all three sequences is exactly the same, contrary to what Dembski predicts.
    Your chosen example of a repeat mutation doesn't increase Kolmogorov complexity ... but had it been a point mutation it would. However, it really is a moot point how complex the gene is ... what really matters is it's specificity ... and how rapidly it loses functionality with changes to its specificity ... in the example you quote above, even though its Kolmogorov complexity didn't increase ... crucially its specificity declined ... and this parallelled its decline in functionalty ... to the point where its host developed clinical disease.
    It is even possible that a deleterious deletion will reduce the Kolmogorov complexity ... but either way, it's the specificity that is the issue ... and with it, the functionality.
    oldrnwisr wrote: »
    There are two more problems with Dembski's CSI idea, one of which we've already touched on and one we haven't.

    Firstly, mutation types. In post 2617 I explained why Dembski's CSI idea fails because he believes that mutation happens only through indels (insertions or deletions) of nucleotides or frameshift mutations. It doesn't and mutations like gene duplication or aneuploidy completely obviate Dembski's argument about increasing complexity destroying functionality. Furthermore, we have evidence of novel functionality being acquired through mutation contrary to what Dembski claims.
    Relative complexity isn't the point at issue at all ... non-living things like snowflakes have amazing levels of complexity ... but they lack specificity and functionality. The critical phenomenon that is the signature of intelligent input in the CFSI in living organisms (and anywhere else it is found) is the specificity (and not the complexity). Like I have said, it is even possible that a deleterious deletion will reduce the Kolmogorov complexity ... but either way it's the specificity that is affected ... and with it, the functionality.
    oldrnwisr wrote: »
    Emergence of nylon oligomer degradation enzymes in Pseudomonas aeruginosa PAO through experimental evolution.

    Evolution of a regulated operon in the laboratory


    Evolution of a new enzymatic function by recombination within a gene

    These are just 3 examples out of over 3000 papers which detail the acquisition of novel function through gene duplication or mutation types other than those considered by Dembski.
    These are examples of the quality of the pre-exsiting CFSI present within living organisms that they are able to intelligently produce novel abilities themselves ... its akin to a very sophisticated robot that can learn to produce novel things (an example of intelligent programming of intelligence into the robot) ... and not something spontaneously inherent in the physical/electrical systems in the robot.
    Human Beings are always doing novel things that vastly exceed the examples you cite ... and these are a product of their inherent intelligence ... which, in turn, is ultimately a product of the very sophisticated CFSI present in their genomes. In the case of Humans their intelligence is a step change above other organisms ... due to their spiritual natures ... but this exception is not germaine to the subject under discussion (their CFSI which is a physical and virtual phenomenon) is directly linked to their physical DNA programming.

    oldrnwisr wrote: »
    Now, secondly, for the big elephant in the room, redundancy. Dembski (and other creationists) argue the idea that a protein sequence needs to be a certain way, that if you change one letter out of a 100 amino acid sequence then you're going to **** everything up and nothing's going to work anymore. Trouble is he's dead wrong. Just to underscore this problem here's an excerpt of a creationist trying to prove design using Shannon information:

    "Complex specified information is a specified subset of Shannon information. That means that complex specified information is Shannon information of a specified nature, ie with meaning and/ or function, and with a specified complexity.

    Shannon's tells us that since there are 4 possible nucleotides, 4 = 2^2 = 2 bits of information per nucleotide. Also there are 64 different coding codons, 64 = 2^6 = 6 bits of information per amino acid, which, is the same as the three nucleotides it was translated from.

    Take that and for example a 100 amino acid long functioning protein- a protein that cannot tolerate any variation, which means it is tightly specified and just do the math 100 x 6 + 6 (stop) = 606 bits of specified information- minimum, to get that protein. That means CSI is present and design is strongly supported.

    Now if any sequence of those 100 amino acids can produce that protein then it isn't specified. IOW if every possible combo produced the same resulting protein, I would say that would put a hurt on the design inference."

    I have highlighted the portion of the post where the creationist argument unravels. He fails to take into account redundancy.
    Redundancy is an added feature of intelligent design (it wouldn't be a great design, if there wasn't some redundancy built in to cope with the inevitable damage that occurs from simply living). The redundancy is itself complex and specified and can be made dis-functional as changes are made to it as well. Of course there also has to be limits to redundancy, otherwise endless redundancy would become an efficiency issue ... and this is what we find ... we have two eyes ... not 22 eyes, for example!!
    oldrnwisr wrote: »
    Firstly, he mentions that there are 64 possible codons which, irrelevantly, is equal to 2^6. However, what he fails to mention is that these 64 codons produce just 20 amino acids as shown in the table below:




    There is a high degree of structural redundancy among codons such that, for example, arginine can be produced by any of the following combinations: CGT, CGC, CGA, CGG, AGA, AGG. This has significant consequences for Dembski's claim about the fragility of protein sequences. Of course, structural redundancy is not just observed at the amino acid level.

    Proteins also have a high degree of structural or functional redundancy. Take cytochrome c, for example. Cytochrome c is a hemeprotein which is 100 amino acids long just like in the creationist example above. However, it has a massive degree of structural redundancy as seen in the species comparison below:



    As you can see in the image above, you have widely varying amino acid sequences yet each of these sequences result in cytochrome c. In fact, for all 100 unit amino acid sequences (approx. 10^130 possible combinations) 10^67 result in cytochrome c. So Dembski's claim that mutation destroys complex specified information is demonstrably false.
    I think that you may be confusing redundancy, with critical amino acid sequences. Redundancy is a good thing and an example of further levels of intelligent design in organisms ... as such redundancy systems are themselves intelligently designed (i.e. have complex specificity) and integrate perfectly with the systems they are designed to replace, in the event of failure/mutation of the primary system.
    What Dembski was talking about are critical amino acid sequences within proteins and other biomolecules where any change in the sequence is observed to make the protein disfunctional.
    Equally, redundancy in codons for amino acids per se doesn't affect the fact that specificity is still vital, for example, take the codons for Leucine and Valine.
    The codons for Leucine are CTT, CTC, CTA, CTG, TTA, TTG
    while the codons for Valine are GTT, GTC, GTA, GTG
    As can be seen, just one change in the first nucleobase changes the codon from one for Leucine to one for Valine ... which, if it were in a critical aa sequence, could destroy the functionality of the protein, thereby possible leading to a lethal or semi-lethal issue for the organism concerned.

    So, even though there is considerable redundancy (as one would expect with an intelligently designed system) ... that redundancy is itself highly specified (and specificity is the hallmark of intelligent action/design).
    oldrnwisr wrote: »
    Another example of this phenomenon is haemoglobin. There are over 250 different mutations in the haemoglobin protein which have been documented and yet the function of the protein is unaffected. That's 250 variations of a protein which is only 287 amino acids long in the first place.

    This idea is well-documented in the literature being featured even in some textbooks. Some references for those interested:

    Cytochromes c: Evolutionary, Structural and Physicochemical Aspects

    Protein folding and protein evolution: common folding nucleus in different subfamilies of c-type cytochromes?

    Structural and genetic analysis of the folding and function of T4 lysozyme
    Again what you are doing is conflating (intelligently designed) redundancy with specificity and complexity. Like I have said, it is to be expected that an intelligently designed system will have built in redundancy ... but unfortunately for your argument, the redundancy is also highly specified (and thus also intelligently designed).
    oldrnwisr wrote: »
    OK, I think I've taken up enough of everyone's time, time to summarize:

    Although Dembski's use of Kolmogorov complexity is the opposite of it's use in mainstream biology, the point is moot since functional and non-functional sequences can and do have the same Kolmogorov complexity.
    Complex specified information only becomes relevant, even theoretically, if we restrict mutation types to indels and frameshift mutations. Since there are other types of mutation which do not operate in this way, the idea of CSI is fatally undermined.
    Only the 'strawman' argument that Kolmogorov complexity has any link to the functionality of biological systems is undermined. It is the 'S' (Specified) in CSI ... and not the 'C' (Complex) that is the critical hallmark of intelligent design. Many spontaneous designs (like fractals and snowflakes, are complex (sometimes highly complex) ... but because they lack specificity and functionaity they aren't products of intelligence.
    oldrnwisr wrote: »
    Even if we consider point mutations, they have little impact on the functionality of proteins owing to the structural redundancy of both amino acids and proteins.
    It all depends on where the point mutation is ... and if it affects down-stream systems to the point of impairing their functionality (and whether or not redundancy systems can neutralise the effects of the mutation).

    oldrnwisr wrote: »
    Mutations can create new CSI/CFSI through the acquisition of novel features such as the development of nylonase.
    You're confusing the intelligently designed capacity for intelligent action inherent in biological systems and organisms, with mutagenesis, which always degrades CFSI ... sometimes to the point of having lethal/semi-lethal results.
    If mutagenesis is such a wonderful source of new CSI/CFSI why do you think that all the scientific advice to people is to avoid mutagenesis and mutagenic agents?

    oldrnwisr wrote: »
    CSI is a house of cards argument that its own author doesn't even bother to defend anymore. It looks all science-y from a distance but once you start to prod it a little the entire argument crumbles and it does so completely.
    The identification and scientific description of CSI/CFSI is a major breakthrough in our understanding of the origins of life (on a par with the breakthough in our scientific understanding, that the identification and description of DNA itself was).
    The materialists within the scientific establishment will only countenance mechanisms that support the view that life was produced without God by natural processes.
    The fact that these materialistic processes have never been found, doesn't stop them rejecting evidence that lead to the opposite conclusion ... that the emergence of life was intelligently directed.:D


  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    J C wrote: »
    These are examples of the quality of the pre-exsiting CFSI present within living organisms that they are able to intelligently produce novel abilities themselves ... its akin to a very sophisticated robot that can learn to produce novel things (an example of intelligent programming of intelligence into the robot) ... and not something spontaneously inherent in the physical/electrical systems in the robot.

    Not sure how aware you are of cellular automata and self replicating automata, but we can observe some apparently complex problem solving behaviour without the need for complex programming, as illustrated in this article from Nature on slime mold solving a maze. Even in a system as simple as Conway's game of Life we see a vast array of forms appearing, evolving and stabilising or dying out all from about 100-150 lines of pretty simple code.



    And for self replicating automata you need neither computers nor life, as can be seen by this rather old video (but IMHO excellent) video;



  • Registered Users Posts: 1,236 ✭✭✭jigglypuffstuff


    smacl wrote: »
    In your previous post you say;



    Once you say when God created us as opposed to if god created us and follow this with the statement relating to your faith, this implies a belief in God (singular). In the context of this thread, I would take God (as opposed to a god or gods) to be the once favoured by the Abrahamic traditions. This is in stark contrast to Taoist beliefs which vary from non-theistic to polytheistic, but in no cases suggest that we were created by God (or anyone else for that matter[/B]

    But smacl, that was a response to a statement JC made, not one that I came up with.. apologies for the when vs if...I was speaking in the context of the post being replied too...for the sake of simplicity lets keep it to created/designed (yes/no) and avoid the polytheistic, monotheistic, non theistic terminology...because that is in itself a huge field of discussion (Elohim, is it singular or plural? and so forth)

    Now in terms of Taoist Beliefs..The jade emperor, Pangu, Nuwa etc...these are amongst them (although not exclusively them), you are familiar yes?


  • Registered Users Posts: 14,615 ✭✭✭✭J C


    smacl wrote: »
    Not sure how aware you are of cellular automata and self replicating automata, but we can observe some apparently complex problem solving behaviour without the need for complex programming, as illustrated in this article from Nature on slime mold solving a maze. Even in a system as simple as Conway's game of Life we see a vast array of forms appearing, evolving and stabilising or dying out all from about 100-150 lines of pretty simple code.



    And for self replicating automata you need neither computers nor life, as can be seen by this rather old video (but IMHO excellent) video;

    Yes indeed, when there is an intelligent input all these examples of complex specificity (and much more) are possible ... without an intelligent input they are all impossible.


  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    pone2012 wrote: »
    The jade emperor, Pangu, Nuwa etc...these are amongst them (although not exclusively them), you are familiar yes?

    Yep, but certainly not as creators, and as gods among a rather extensive pantheon. The gods in Taoism got assimilated into it from folk mythology and are in no way central to it in the way they would be to religion like Christianity. Very many Taoists don't worship them at all, being philosophical rather than religious Taoists, and if you read Laozi you won't find references to the supernatural dealing as it does primarily with the natural order of things.


  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    J C wrote: »
    Yes indeed, when there is an intelligent input all these examples of complex specificity (and much more) are possible ... without an intelligent input they are all impossible.

    Not really. If you take Conway's came of life for example and throw in random input it will regularly evolve to complex output with repeating patterns. Most of the time it will either arrive at a static state or die out entirely, but regularly this is not the case and we get artefacts such as gliders. If you allow the masses of random input and time span that a growing universe has to offer, this type of evolved complexity is inevitable for such as system. The notion that complexity can't evolve from chaos seems specious on that basis. If you take the actual observed behaviour of very simple organisms, such as the slime linked in my previous post, when placed in a constrained environment you see similarly complex behaviour ensuing with no high level input / programming involved.


  • Registered Users Posts: 1,236 ✭✭✭jigglypuffstuff


    smacl wrote: »
    Yep, but certainly not as creators, and as gods among a rather extensive pantheon. The gods in Taoism got assimilated into it from folk mythology and are in no way central to it in the way they would be to religion like Christianity. Very many Taoists don't worship them at all, being philosophical rather than religious Taoists, and if you read Laozi you won't find references to the supernatural dealing as it does primarily with the natural order of things.

    Thats not entirley true smacl, very many dont yes, but also very many do...and as I can see you have familiarity with the concepts, you of all people should know that the practices (neidan etc) that have Taoist underpinnings are steeped in shamanic, spiritual, esoteric, occult and all sorts..... to say taosim doesnt deal with the supernatural isnt a fair lens to cast over it.....

    The Valley Spirit never dies
    It is named the Mysterious Female.
    And the doorway of the Mysterious Female
    Is the base from which Heaven and Earth sprang.
    It is there within us all the while;
    Draw upon it as you will; it never runs dry.

    That doesnt sound supernatural to you? not even a little bit?


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  • Moderators, Society & Culture Moderators Posts: 15,754 Mod ✭✭✭✭smacl


    pone2012 wrote: »
    Thats not entirley true smacl, very many dont yes, but also very many do...and as I can see you have familiarity with the concepts, you of all people should know that the practices (neidan etc) that have Taoist underpinnings are steeped in shamanic, spiritual, esoteric, occult and all sorts..... to say taosim doesnt deal with the supernatural isnt a fair lens to cast over it.....

    The Valley Spirit never dies
    It is named the Mysterious Female.
    And the doorway of the Mysterious Female
    Is the base from which Heaven and Earth sprang.
    It is there within us all the while;
    Draw upon it as you will; it never runs dry.

    That doesnt sound supernatural to you? not even a little bit?

    No shortage of woo (as well as wu) in Taoism for sure, but still nothing comparable to creationism. Much of Chinese internal alchemy is dubious in the extreme, and best filed alongside homeopathy, rubbing crystals, and pretending that there are angels watching over you. At the same time, some of it can have significant health benefits (e.g. certain qigong sets, taijiquan, etc..) particularly as a regime in preventative health. You also have to be wary of how you translate things, e.g. the qi referred to in qigong and underpinning neidan has no less than 23 definitions in the great dictionary of chinese characters. See A brief history of qi for more on this. The mysterious female in the above verse is a reference to yin, or essential femaleness, darkness, softness and fluidity. It is not a reference to any given female person or deity, though that is how it would read to many.


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