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Too hot to handle: Update on the PLoS ONE paper

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The retraction of a PLoS ONE paper on the hand that made repeated reference to a Creator shows that biologists are “very hostile to those who invoke the supernatural in their science,” writes Professor Jerry Coyne. But it turns out that the paper’s authors weren’t referring to God, but Nature. One of the paper’s authors, Ming-Jin Liu, explains:

We are sorry for drawing the debates about creationism. Our study has no relationship with creationism. English is not our native language. Our understanding of the word “Creator” was not actually as a native English speaker expected. Now we realized that we had misunderstood the word “Creator.” What we would like to express is that the biomechanical characteristic of tendi[n]ous connective architecture between muscles and articulations is a proper “design” by the Nature (result of evolution) to perform a multitude of daily grasping tasks. We will change the “Creator” to “nature” in the revised manuscript. We apologize for any troubles may have caused by this misunderstanding.
(Spelling of “tendinous” corrected by me. – VJT.)

Another commenter writes:

The phrase ‘the creator’ has nothing to do with a designer god from the two-party-state, the Afro-Eurasian sky deity, or Mr Paley’s writings, but is a well-known ancient Chinese way of saying something alike “nature” or “evolution”, by way of zaohua zhe 造化者 ‘the Creator, creation’ (or, more literally, “the one who forms and transforms”, or “what forms and transforms”).

The commenter then proceeds to quote from The Encyclopedia of Taoism A-Z (edited by Fabrizio Pregadio, 2008, Routledge; article “creation” by Isabelle Robinet, vol. II, p. 1214):

The term zaohua, which means ” to inform (zao) and transform (hua),” derives from the *Zhuangzi and is generally used as a synonym for the cosmos. Zaohua zhe 造化者, lit., “what informs and transforms [the world],” is the Dao itself or its *qi (pneuma), the energy of life that does not create anything, but, like a potter, gives a determinate and transient form to the indeterminate. The analogy ends here, because the zaohua zhe is neither a person nor an entity, and does everything naturally and spontaneously without working. In this sense, zaohua is a synonym of *ziran (natural or spontaneous).

Zao is the coming of something out of nothing (*wu), and hua is the return to emptiness. Zao is movement, and hua is quiescence (see *dong and jing).
(Emphasis mine – VJT.)

The commenter buttresses his case by quoting a passage from the writings of the Greek physician Galen of Pergamon (129-200 or 216), who expresses sentiments similar to those of the paper’s authors:

It was, then, for the sake of these activities [ἕνεκα μὲν δὴ τούτων] that the
convexities at the ends of the ulna and radius came to be; but nature also makes use of
them to secure another advantage [χρῆται δ’ αὐταῖς καὶ πρὸς ἄλλο τι χρηστόν],
just as she is accustomed frequently to make something that has come to be on account
of one thing serve other uses as well [τῷ δι’ ἕτερόν τι γεγονότι συγχρῆσθαι καὶ
πρὸς ἄλλα]. For she located the heads of the tendons moving the fingers in the
concavity between these eminences, thus establishing as if with a wall or tower a safe
refuge for the tendons. (UP 2.11, 1.97.19-98.2 H, 3.133 K)
(Schiefsky, Mark J. 2007. Galen’s teleology and functional explanation. In Oxford Studies in Ancient Philosophy 33, ed. D. Sedley, 369-400. Oxford: Oxford University Press.)

In his paper, Schiefsky acknowledges that Galen “describes the construction of the human body as the result of the effort of a supremely intelligent and powerful divine Craftsman or Demiurge,” but he goes on to argue that this reflects “a highly sophisticated, functional analysis of the organism,” and he suggests that in the foregoing passage, we can think of Galen as referring to “nature’s craftsmanship.”

Skeptical readers might object that in another passage, the authors of the offending article in PLoS ONE also wrote that “Hand coordination should indicate the mystery of the Creator’s invention,” which suggests a theistic interpretation. But a 2005 article in MIT Technology Review refers to “Nature’s inventions,” and similar phrases can be found in textbooks on evolution.

Retraction Watch has set up a poll inviting readers to weigh in on the issue: Should “the Creator” paper have been retracted? The results are as follows:

Correct it 42.4% (254 votes)
Retract it 26.54% (159 votes)
Issue an expression of concern while it investigates 22.2% (133 votes)
Nothing 8.85% (53 votes)

However, the main issue in this ongoing saga is not whether the authors actually intended to allude to a “Creator,” or but the clear evidence (manifested in readers’ comments) of a bias against publishing ID-friendly views in the mainstream literature. One commenter writes:

Regretfully I have to withdraw my support for the journal as a reviewer. Also to bring this shameful incident to the attention of my academic colleagues and students who might consider submitting their work for publication at PLOS ONE.

Another scientist who is also a PLoS ONE academic editor writes:

As a scientist, as well as a PLoS ONE academic editor and author I feel outraged by the publication of a ms making explicit reference to creationism. This is an extremely serious issue for which the academic editor who handled the paper as well as the journal, besides the authors themselves, should be blamed.

I feel my scientific reputation to be put at risk by this incredible mistake, so should this paper not be retracted as soon as possible I will be compelled to resign from my position of PLoS ONE academic editor. Moreover, I am determined to avoid taking on any further assignment until this issue is fully solved.

That is the kind of mindset we are up against, folks.

For readers who may be interested, here’s a short article by creationist Brian Thomas M.S., titled, Human Hand Capabilities Impossible to Duplicate. And here’s a copy of The Fourth Bridgewater Treatise on the Power, Wisdom, and Goodness of God as Manifested in the Creation: The Hand; Its Mechanism and Vital Endowments as Evincing Design (1833), by Sir Charles Bell (1770-1842), K.H., F.R.S., F.R.S.E., F.R.C.S.E., M.W.S. This was science as it used to be done.

Comments are welcome.

Comments
Origens @ 111
In both these examples it is absurd to refer to an additional “mereological sum” and thus arrive at a total of 7 items. If so, in both cases the mereological sum can be said not to exist — all that exists are 6 items.......And “is” there — similar to the six beer bottles — no “mereological sum”? “Is” there in fact no organism? “Are” there only parts?
Just curious - what is the 'mereological sum' of a human being?Me_Think
March 10, 2016
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Naturalism holds that everything arises from natural forces, including the clumping of matter called life.
They don't have any support for the claim about life. And there isn't any way to test the claim.Virgil Cain
March 10, 2016
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Origenes: The cashier is an adherent of ‘unrestricted composition’, ... That doesn't follow. A typical cashier, in the 12-items or less line, will count the six-pack as an item, and a bunch of bananas as an item, but not both together as an item. Origenes: who are often, but not necessarily, of the naive naturalistic persuasion. So at least some naturalists understand that a single object may be formed of constituent parts. Aleta: What if I show up to buy one bottle of beer, and the clerk says. “Sorry, that is actually 10^30 elementary particles. You’ll have to get in the other line”? Heh. Origenes: Naturalism holds that there is nothing over and beyond the level of elementary particles. Naturalism holds that everything arises from natural forces, including the clumping of matter called life. Naturalism doesn't take an explicit position on mereology, and there are naturalists who take a pragmatic approach, and others who take a formal approach. For instance, most everyone agrees we can group items arbitrarily, but a naturalist mereologist might claim that only some sets represent the so-called real world. In any case, there is nothing about naturalism that prevents the recognition of objects in the world.Zachriel
March 10, 2016
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Aleta:
What if I show up to buy one bottle of beer, and the clerk says. “Sorry, that is actually 10^30 elementary particles. You’ll have to get in the other line”?
Then you are obviously on a different planet. :cool:Virgil Cain
March 10, 2016
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A naturalist can't even explain his/ her own existence...Virgil Cain
March 10, 2016
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To be clearer, why does the theist see the bike, or six-pack, or rock, differently than the naturalist? I'd like some explanation of that.Aleta
March 10, 2016
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Aleta,
What if I show up to buy one bottle of beer, and the clerk says. “Sorry, that is actually 10^30 elementary particles. You’ll have to get in the other line”?
I haven't been following this thread closely, but that's a great line. Your rock example leads me to wonder if some would claim that naturalism holds that there are no triangles, just sets of points (or perhaps, just points).daveS
March 10, 2016
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Hi Origenes - just a small amount of time: What if I show up to buy one bottle of beer, and the clerk says. "Sorry, that is actually 10^30 elementary particles. You'll have to get in the other line"? And, when I said "That doesn't make sense to me", I meant it doesn't make sense that you think a naturalist would have to deny the existence of the organism. It seems to be that we always see the parts of things from different perspectives: the wheel is part of the bike, the spoke is part of the wheel, the nut connecting the spoke to the rim is part of the spoke, the jillions of molecules of steel are part of the nut. And yet there is also a bike. Parts and wholes are products of our perception, cognition, and symbolic abstraction. So, can I, as a naturalist, see the bike, or am I obligated to say that that we don't have a bike, we just have jillions of elementary particles?Aleta
March 10, 2016
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Greetings Aleta, I hold that naturalists and theists can agree on that 6 bottles of beer are 6 items total — and not 7. The same with 3 bottles of milk and 3 bottles of beer: 6 items total and not 7. In both these examples it is absurd to refer to an additional "mereological sum" and thus arrive at a total of 7 items. If so, in both cases the mereological sum can be said not to exist — all that exists are 6 items. I hope we are in agreement so far — see also my question to Zachriel in post #98. Now the question arises if the same is true for an organism (e.g. a human being). IOWs: is an organism nothing over and beyond its parts? If we count all the parts of an organism do we arrive at the correct number of all things that exist? And "is" there — similar to the six beer bottles — no "mereological sum"? "Is" there in fact no organism? "Are" there only parts? Naturalism holds that there is nothing over and beyond the level of elementary particles. The logical consequence of this position is that there "is" in fact no organism.
Aleta: That makes no sense to me.
Same here.Origenes
March 10, 2016
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Suppose I consider a rock - think baseball size. Modern physics, which I accept, tells me that at the smallest, most basic level it's made of elementary particles interacting in quantum ways. However, I don't experience it that way at all. I experience it as a distinct object, with a clear boundary between it the rest of the world, I see it has color and other visual features, has weight, etc. How does the experience of this rock to a naturalist differ from that of a non-naturalist? Why, as Origenes says at 15, can there by, for the naturalist, "no entities over and beyond the level of elementary particles?' That makes no sense to me.Aleta
March 9, 2016
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Jumping in here on this issue, I think this insistence on reductionism sort of odd. Things are made of parts, but they also cohere in ways we recognize, and we're capable of looking at things from different points of view and at different scales. That a tree is made, ultimately, of quantum particles doesn't negate my human experience of it as a tree - as a separate object in relationship to its environment, nor of me abstracting that and similar experience to that of "tree". I don't see how this has anything to do with whether one is a "naturalist" or not. My apologies if there are points I've missed in the first 100 posts.Aleta
March 9, 2016
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Zachriel, If the total amount of things is 1 to my question in post #87, then explain why. Don't leave out what happened to 30 Lego blocks. Again, in my other question in #98 there is NO six-pack. There are 6 bottles of beer. If that's confusing to you, replace them with 6 bottles of milk or even better: 3 bottles of milk and 3 bottles of beer. The cashier is an adherent of 'unrestricted composition', who are often, but not necessarily, of the naive naturalistic persuasion. ------ Dear onlooker, if you are still there, you must have noticed that Zachriel dodges my questions.Origenes
March 9, 2016
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Origenes: You remain unresponsive to both questions. We answered the question several times. There is one Lego horse. Now, can you determine whether the cashier is a naturalist based on their treating a six-pack as a single item?Zachriel
March 9, 2016
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Origines, what's your thinking about body and soul? Two items at checkout, or one? Please show your calculations.Daniel King
March 8, 2016
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Zachriel, You remain unresponsive to both questions. I take it that this is your way of conceding the argument. Thank you for your timeOrigenes
March 8, 2016
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Origenes: However we are discussing “six bottles of beer”. http://rkta.com.au/media/Image/cache/R10241024-183-26_1.jpg To move us forward, try to answer this question. Can you determine whether the cashier is a naturalist based on their treating a six-pack as a single item?Zachriel
March 8, 2016
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Zachriel, @101. Can you provide me with a number? Perhaps "30" or "31"? Please, kindly ignore the atom-level.
Zachriel: A six-pack is normally one item at the checkout.
That may be so. However we are discussing "six bottles of beer". In post 98 is no mention of a six-pack.Origenes
March 8, 2016
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Z: A six-pack is normally one item at the checkout. Can you determine the philosophical vantage of the cashier based on their treating a six-pack as a single item?Zachriel
March 8, 2016
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Origenes: Now tell me, how many things are there in total? Asked and answered. There is one Lego horse, thirty Lego pieces, and about 2*10^23 atoms. Origenes: The attendant protests your use of the line on the ground that you have seven items: six bottles of beer plus one mereological sum. A six-pack is normally one item at the checkout.Zachriel
March 8, 2016
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J-mac says in response to my pointing out that I, and atheists in general, are not angry at God, by writing,
This is your personal view, which is fine but who cares about it besides you?
OK. I won't say any more about it, then.Aleta
March 8, 2016
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Aleta wrote in response to my post that atheists can't prove that God doesn't exit by explaining that origins of universe and life on earth: Hmmmm. You are changing the subject. I'm not. Those are good reasons to make claims either way but your way has no evidence so far. So, how could it be better than mine? I have what I consider good reasons for being an atheist (and especially in not believing in any of the gods invented by mankind), and I’ve been in discussions here at UD about that. This claim would not pass among teenagers 13 and up. My sons would laugh and send you home packing... But the original statement was that atheists were angry at God, and that was what I was replying to. I’m not an atheist (of the form that I am) because of any anger, any more than I think you are a believer out of fear of there not be an imposed purpose in your life. It’s not appropriate or constructive to ascribe beliefs to people based on your thoughts of what their motivations ought to be, rather then being willing to learn what they themselves see as the foundation of their beliefs. This is your personal view, which is fine but who cares about it besides you? Leading new atheists like Dawkins are agnostic. So is Larry Moran and many others.... Being an atheists requires more than just saying: I don't believe in God/gods. One has the right to ask; why do you believe that the universe didn't require an external, transcendent agent. Give me only 3 pieces of evidence why you believe that the universe and life on earth came to be on their own and I will leave you alone....J-Mac
March 8, 2016
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Zachriel, Maybe it's helpful if I present you with a simple, straightforward 'Yes or No' question: Suppose that you proceed with six bottles of beer to the supermarket's 'six items or fewer' checkout line. The attendant protests your use of the line on the ground that you have seven items: six bottles of beer plus one mereological sum. Question: is the attendant correct? Yes or no?Origenes
March 8, 2016
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Zachriel: There is one Lego horse. There are thirty Lego blocks.
Slowly but surely we are making progress! Now tell me, how many things are there in total?Origenes
March 8, 2016
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Origenes: So, according to you, the total amount of things is 1? If so, why are there no 30 Lego blocks? There is one Lego horse. There are thirty Lego blocks. There are about 2*10^23 atoms. There is a beach at Porto-Vecchio. There are many grains of sand that make up that beach, and many atoms that make up each grain of sand. Knowing the beach is made up of grains of sands doesn't mean there isn't a beach at Porto-Vecchi.Zachriel
March 8, 2016
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velikovskys:
I accepted your answer and provided my assessment of its informational value
LoL! The informational value followed directly from your question. Perhaps you should learn how to ask questions in order to get informational value from the answers.
So intelligent design detection in a living organism is different than with an inanimate object like Stonehenge or a computer code?
Not necessarily. It's just that living organisms have something else, something that inanimate objects do not. And again if your position had something you wouldn't have to needle IDists...Virgil Cain
March 8, 2016
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Zachriel #92, So, according to you, the total amount of things is 1? If so, why are there no 30 Lego blocks?Origenes
March 8, 2016
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Virgil: Earth to velikovskys- I answered your question. So why are you acting like an infant? I accepted your answer and provided my assessment of its informational value or would you have preferred a gratuitous insult instead? Yes ID and all scientists can tell a living organism from an inanimate object. That is what biology is all about. Or do you think that biologists do not know what to study and they spend their days with archaeologists going over artifacts? So intelligent design detection in a living organism is different than with an inanimate object like Stonehenge or a computer code?velikovskys
March 8, 2016
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Origenes: So, what is your answer to my question? There is one Lego horse — as most naturalists would agree.Zachriel
March 8, 2016
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Zachriel @88, So, what is your answer to my question (see post 87)? How many things do we have? 30, 31 or other? p.s. please ignore the atom-level for now.Origenes
March 8, 2016
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Earth to velikovskys- I answered your question. So why are you acting like an infant? Yes ID and all scientists can tell a living organism from an inanimate object. That is what biology is all about. Or do you think that biologists do not know what to study and they spend their days with archaeologists going over artifacts?Virgil Cain
March 8, 2016
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