Cafe Inquiry: Freedom of Speech and the Atheist Bus Campaign

 
Join us on Friday night for a discussion about Freedom of Speech and the Atheist Bus Campaign.

Modeled on the highly popular Cafe Scientifique, Centre for Inquiry presents Cafe Inquiry. Join us for a series of interactive forums exploring contemporary issues in science, reason, philosophy and politics. We bring you 2 or 3 guest experts that open by addressing the issue from a variety of perspectives and responding to moderator questions. Then we open it to the floor for your questions and comments to the panel and each other. This is your chance to interact with a diverse group of people on CFI's broad topics.

I've met some of the people who were involved in the atheist bus campaign. This promises to be a fun evening. If you've never been to an event at the Centre for Inquiry you can get in touch with me. I'll be happy to meet up with you and take you to the location.

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What Fools Those Atheists Be!

 
Read Lord! What Fools Those Atheists Be! in Report Magazine. (Report Magazine is published in Edmonton, Texas Alberta. It bills itself as "Western Canada's Conservative Voice.") The author of the offensive article is Pastor Shafer Parker, a Texas native who is now with the Hawkwood Baptist Church in Calgary.

Before you read the article, answer the poll question in the left-hand sidebar: "Do you believe that there is a 'God'"? So far, the answer "Absolutely!" is leading over "Absolutely Not!" but it's early days.

Heathen Mike of Mike's Weekly Skeptic Rant has dissected most of the article at: Shafer Parker, Answered. You should read what Mike has to say. I'm sure you'll be convinced that it's not the atheists who are the fools.

Most of Pastor Parker's rant is against the bus ads promoting atheism. I want to address one particular point in Parker's article. He says ...

The Christian West's centuries-old tradition of free expression and open debate is unique in that nothing like it exists anywhere else on earth. No such tradition exists in any society dominated by a single non-Christian faith, including the atheistical Communist-materialist nations of China, North Korea and the former Soviet Union. It is not an accident that these ads have deliberately set out to offend the majority Christian theists living in London, Madrid and Washington, D.C. They would not have been allowed in Beijing, New Delhi or Riyadh.

Parker believes that Christianity is associated with free expression and open debate. He claims that no other religion has a similar tradition. This would have been news to the people of Cordova in the Moorish Kingdom from 800-1200 AD. It would also have been news to most Catholics throughout history and to most Protestant sects (e.g. Puritans). They aren't exactly noted for tolerating free expression and open debate. (Were the ancient Greeks Christians?)

But let's put history aside. It's obviously not one of Parker's strong points. Let's just look at Christian nations in the last century or so. Mussolini's Italy and Franco's Spain come to mind. So does Czarist Russia. I'm sure there are plenty of other Christian nations where free expression and open debate were not common—I'm thinking of several nations in Central and South America. I don't think he's making a valid point. I don't think the concept of free expression is in any way a product of Christianity.

What about modern states? Israel, Japan. and India seem to be non-Christian states that have a certain degree of free expression and open debate. Parker says that the atheist signs would not be allowed on buses in New Delhi. I suspect he's wrong about that. In any case, he ignores the fact that the atheist signs will never be allowed in some of the most Christian parts of America. Isn't that strange?

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Monday's Molecule #122: Winner?

 
UPDATE: The molecule is epinephrine or adrenaline. IUPAC name = (R)-4- (1-hydroxy-2- (methylamino)ethyl)benzene-1,2-diol.

The Nobel Laureate is Charles Robert Richet who discovered and described anaphylaxis or anaphylactic shock. Epinephrine, in the form of an EpiPen, is used to treat anaphylactic shock.

Ten people got the molecule but Dima Klenchin was the only person to guess the correct Nobel Laureate. He isn't eligible so there is no winner this week.

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Today's molecule is a drug as well as a biological molecule that's found in some species. You need to supply the common name and the correct IUPAC name for this molecule. The stereochemistry isn't shown in the figure but you have to specify it in your answer.

As a drug, this molecule is used to treat a common but life-threatening condition. Identify that condition and name the Nobel Laureate who first described and characterized it.

The first person to identify the molecule and the Nobel Laureate wins a free lunch at the Faculty Club. Previous winners are ineligible for one month from the time they first won the prize.

There are seven ineligible candidates for this week's reward: Mike Fraser of Toronto, Alex Ling of the University of Toronto, Laura Gerth of the University of Notre Dame, Stefan Tarnawsky of the University of Toronto, Dima Klenchin of the University of Wisconsin, Madison, Adam Santoro of the University of Toronto., and Michael Clarkson of Waltham MA (USA).

The Canadians are still ahead in the competition between Canadians the rest of the world but their recent dominance is coming to an end. I want to thank all those smart Canadians who have been holding back in order to give the rest of the world a chance.

I still have one extra free lunch donated by a previous winner (Michael Clarkson) to a deserving undergraduate so I'm going to continue to award an additional free lunch to the first undergraduate student who can accept it. Please indicate in your email message whether you are an undergraduate and whether you can make it for lunch.

THEME:

Nobel Laureates
Send your guess to Sandwalk (sandwalk (at) bioinfo.med.utoronto.ca) and I'll pick the first email message that correctly identifies the molecule and names the Nobel Laureate(s). Note that I'm not going to repeat Nobel Prizes so you might want to check the list of previous Sandwalk postings by clicking on the link in the theme box.

Correct responses will be posted tomorrow.

Comments will be blocked for 24 hours. Comments are now open.

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Science for Humanity

 
Today's issue of The Toronto Star has an article on Andras Nagy, a colleague who works at one of the hospital research institutes here in Toronto. Apparently Nagy made a list of "Top 10 awards for work in science-related endeavours" in a magazine called Scientific Magazine [Scientist honoured for stem-cell coup].

I tried to find this magazine and the names of the other winners but nothing seemed to work. Google was not my friend today.

Later on, after lunch, I noticed a press release from "Scientific American." That magazine was naming "Ten researchers, politicians, business executives and philanthropists who have recently demonstrated outstanding commitment to assuring that the benefits of new technologies and knowledge will accrue to humanity" [Scientific American 10: Guiding Science for Humanity].

Sure enough, Andras Nagy was on that list. Here's the complete list. Congratulations to Genie Scott.

1. Todd Brady
   Corporate environmental manager
   Intel, Santa Clara, Calif.
   A chip company makes expansion of its environmental footprint a priority


2. Shai Agassi
   Founder and chief executive
   Better Place, Palo Alto, Calif.
   A wonderfully simple recharging scheme may ensure a future for electric vehicles


3. Wafaa El-Sadr
   Chief
   Infectious Disease Division, Harlem Hospital Center, New York City
   The physician leads a multipronged public health campaign to fight the scourge of HIV


4. Robert J. Lin­hardt
   Professor of Biocatalysis and Metabolic Engineering
   Rensselaer Polytechnic Institute
   A chemical sleuth unravels the cause of deaths from a tainted drug


5. Eugenie Scott
   Executive director
   National Center for Science Education, Oakland, Calif.
   A champion for the teaching of evolution steps up her advocacy


6. Bill Gates/Michael Bloomberg
   Co-chair
   Bill and Melinda Gates Foundation
   Mayor of New York City
   Celebrity heft propels a campaign to limit smoking


7. Bryan Willson
   Professor of mechanical engineering
   Colorado State University
   An engineer facilitates clean energy technology for the developing world


8. Kristian Olson
   Program Leader
   Center for Integration of Medicine and Innovative Technology, Boston
   Simple, low-cost resuscitators and incubators can save newborns in the developing world


9. Andras Nagy
   Senior investigator
   Mount Sinai Hospital, Toronto
   A biologist discovers a practical method of making stem cells from mature cells


10. Barack Obama
    President of the U.S.
    The new chief executive begins his term by initiating a radical shift in science policy

It would be fun to see the top ten scientists—men and women who have contributed the most to our understanding of the natural world.

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Monday's Molecule #122

 
Today's molecule is a drug as well as a biological molecule that's found in some species. You need to supply the common name and the correct IUPAC name for this molecule. The stereochemistry isn't shown in the figure but you have to specify it in your answer.

As a drug, this molecule is used to treat a common but life-threatening condition. Identify that condition and name the Nobel Laureate who first described and characterized it.

The first person to identify the molecule and the Nobel Laureate wins a free lunch at the Faculty Club. Previous winners are ineligible for one month from the time they first won the prize.

There are seven ineligible candidates for this week's reward: Mike Fraser of Toronto, Alex Ling of the University of Toronto, Laura Gerth of the University of Notre Dame, Stefan Tarnawsky of the University of Toronto, Dima Klenchin of the University of Wisconsin, Madison, Adam Santoro of the University of Toronto., and Michael Clarkson of Waltham MA (USA).

The Canadians are still ahead in the competition between Canadians the rest of the world but their recent dominance is coming to an end. I want to thank all those smart Canadians who have been holding back in order to give the rest of the world a chance.

I still have one extra free lunch donated by a previous winner (Michael Clarkson) to a deserving undergraduate so I'm going to continue to award an additional free lunch to the first undergraduate student who can accept it. Please indicate in your email message whether you are an undergraduate and whether you can make it for lunch.

THEME:

Nobel Laureates
Send your guess to Sandwalk (sandwalk (at) bioinfo.med.utoronto.ca) and I'll pick the first email message that correctly identifies the molecule and names the Nobel Laureate(s). Note that I'm not going to repeat Nobel Prizes so you might want to check the list of previous Sandwalk postings by clicking on the link in the theme box.

Correct responses will be posted tomorrow.

Comments will be blocked for 24 hours.

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Who Knew?

 
The misreporting of the evolution issue is one key reason for this site. Unfortunately, much of the news coverage has been sloppy, inaccurate, and in some cases, overtly biased. Evolution News & Views presents analysis of that coverage, as well as original reporting that accurately delivers information about the current state of the debate over Darwinian evolution.

Evolution News & ViewsJonathan Wells has a Ph.D. He can explain why "Darwinism" is false in only two paragraphs [Persisting in Spite of the Evidence: Why Darwinism Is False].

Darwin called The Origin of Species “one long argument” for his theory, but Jerry Coyne has given us one long bluff. Why Evolution Is True tries to defend Darwinian evolution by rearranging the fossil record; by misrepresenting the development of vertebrate embryos; by ignoring evidence for the functionality of allegedly vestigial organs and non-coding DNA, then propping up Darwinism with theological arguments about “bad design;” by attributing some biogeographical patterns to convergence due to the supposedly “well-known” processes of natural selection and speciation; and then exaggerating the evidence for selection and speciation to make it seem as though they could accomplish what Darwinism requires of them.

The actual evidence shows that major features of the fossil record are an embarrassment to Darwinian evolution; that early development in vertebrate embryos is more consistent with separate origins than with common ancestry; that non-coding DNA is fully functional, contrary to neo-Darwinian predictions;¹ and that natural selection can accomplish nothing more than artificial selection — which is to say, minor changes within existing species.

Amazing.

When it comes to evaluating Creationist arguments, we are often faced with a difficult decision. Is the Creationist just ignorant or is he lying? I think it's much easier to answer that question in Wells' case. He has a Ph.D. in biology from a reputable university. It's not possible for him to be that ingnorant about the basic facts of biology.

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1. It's a lie that non-coding DNA is fully functional and it's a lie that "neo-Darwinism" predicts the presence of large amounts of junk DNA in some species.

One Angry Christian

 
Charlotte Allen doesn't like atheists very much. She writes in Los Angeles Times [Atheists: No God, no reason, just whining].

I can't stand atheists -- but it's not because they don't believe in God. It's because they're crashing bores.

She then proceeds to describe all the "boring" things that upset her.

I'd like to comment on one of the points that she makes.

The problem with atheists -- and what makes them such excruciating snoozes -- is that few of them are interested in making serious metaphysical or epistemological arguments against God's existence, or in taking on the serious arguments that theologians have made attempting to reconcile, say, God's omniscience with free will or God's goodness with human suffering.

This is becoming a mantra for Christian apologists and it's about time we put an end to it.

The reason why atheists aren't interested in making serious arguments against God's existence is that it's impossible to prove the non-existence of something. On the other hand, we can easily show that the arguments in favor of supernatural beings are nonsensical. There are no "serious mtaphysical or epistemological arguments" for God and that's what we point out to anyone who takes the time to listen.

I suppose that makes us boring.

Furthermore, atheists are not interested in "taking on" the "serious" (sic) arguments of theologians when they attempt to reconcile their God with free will and evil. Why should we be interested in such arguments? The premise behind these arguments is that God exists. Atheists reject the premise. If they want to be taken seriously, "serious" theologians have to first prove that God exists before they begin their apologetics.

Christians like Charlotte Allen make me angry. It's not because they're Christians, it's because they are so irrational.

What atheists don't seem to realize is that even for believers, faith is never easy in this world of injustice, pain and delusion. Even for believers, God exists just beyond the scrim of the senses. So, atheists, how about losing the tired sarcasm and boring self-pity and engaging believers seriously?

OK. Here's an attempt to engage believers seriously.

If believing is so hard in the face of the real world, and if your belief is "just beyond the ... senses," then why do you continue to believe?

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[Hat Tip: RichardDawkins.net]

Happy Victoria Day!

 
Today's the day we celebrate Queen Victoria's birthday (Victoria Day) in most Canadian provinces. Queen Victoria was actually born on May 24th but the modern holiday is the first Monday before or on May 24th.

Since the death of Queen Victoria, the holiday does double duty as a celebration of the birthday of the current monarch. Queen Elizabeth II was actually born on April 21st—it must be nice to have two birthday parties every year!

Although Queen Elizabeth II is officially Canada's head of state, the duties are actually carried out by her representative, the Governor General. Governors General are appointed every few years and their duties are largely ceremonial. I really like a system where the head of state is not the same person as the head of government. It avoids a lot of problems.

Officially, Canada's form of government is called a Constitutional Monarchy with a Parliamentary System of government.

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[The painting of Queen Victoria's Family in 1846 is by Franz Xaver Winterhalter.]

Michael Bliss - Anti-Science Conservative

 
Michael Bliss is a Professor Emeritus at the University of Toronto. He has written some excellent books on the history of science, notably a book about the discovery of insulin.

Bliss has always been a small-c conservative and many of his opinion pieces have supported conservative policies.

On Thursday, May 14th, Michael Bliss entered the debate on Canadian science funding [Michael Bliss: Anti-Harper campaign politicizes research to the detriment of science]. His main point is that Canadian scientists are whiners and complainers who should keep their mouths shut because they are damaging the reputation of science in Canada.

It’s time that responsible leaders of the Canadian science and research communities began thinking of ways to cool down their more hot-headed colleagues. The strategy of declaring war on a government because some of its policies are temporarily inconvenient and vexatious can generate cheap short-term applause and support in some quarters, but in the long run tags its adherents as unreliable and unworthy, or worse. Eventually doors get shut in their faces, and/or they’re left to wither on the vine.

It’s a sad way to tarnish what often has been and still could be one of the success stories of Canadian public policy.

I've never been a fan of Michael Bliss but this diatribe goes way over the line. Scientists are justifiably criticizing a science policy that they feel is doing great damage to Canada's ability to be competitive in the 21st century. Michael Bliss is saying that scientists should not speak out when they disagree with government policy. That's a strange position for someone who has made a reputation of speaking out on controversial topics.

But it's at least consistent with conservative thinking.

Michael Bliss thinks it's OK for governments to direct scientific research. He thinks the only important kind of research is that which directly benefits business and consumers. Applied research and technology is "accountable."

By and large, Canadian researchers have not had a bad inning in recent years. Some observers think that the research community has actually had an easy ride, never having been forced to show exactly what benefits are being generated for the Canadian people by the money given researchers. If the government of Canada ever decided, for example, that this country should lead the world in demanding hard accountability from researchers who live off taxpayers’ largesse, today’s discontents would seem like extremely small beer.

I suppose that's why Bliss admires Banting and Best and the others who discovered and produced insulin. I suppose he hates those scientists who discovered recombinant DNA technology to help with their curiosity motivated research even though it led directly to the production of human insulin—a far more effective form than the old insulin from pigs.

The main product of research is knowledge and knowledge is always of more benefit to the Canadian people than ignorance. During his many decades at the University of Toronto, Michael Bliss and his students contributed to that knowledge base in many ways. Some of the work in history that he published was paid for by research grants. I wonder if he can meet the demand of "hard accountability" that he demands of others? With respect to his own scholarly work, I wonder if he can explain "exactly what benefits are being generated for the Canadian people"?

(Read Commentary strives to politicize science funding debate on Researcher Forum for a similar perspective on Michael Bliss.)

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Stephen Harper: Just Leaving

 

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Godless Radio

 
Yesterday I was interviewed on Godless Radio by Godless Dave and Godless Rob. It was a fun time. We spent an hour talking about the conflict between science and religion. I think we pretty much solved all the problems.

There will be a podcast version for those of who missed the live broadcast.

Godless is an internet radio show designed to give atheists at the University of Toronto, Scarborough Campus, a voice. We aim to reach out to non-believers, whether they call themselves atheists, agnostics, secular humanists or anything else, and provide a platform for the promotion of reality-based thinking.

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Metabolism First and the Origin of Life

There are several competing hypotheses about the origin of life. Most people know about the Primordial Soup scenario; that's the one where complex organic molecules are created by spontaneous chemical reactions. Over time these complex molecules, such as amino acids and nucleotides, accumulate in a warm little pond and eventually they come together to form proteins and nucleic acids.

The RNA World scenario is similar except that nucleic acids (RNA) are thought to form before proteins. For a while, RNA molecules are the main catalysts in the primordial soup. Later on, proteins take over some of the catalytic roles. One of the problems with the RNA world hypothesis is that you have to have a reasonable concentration of nucleotides before the process can begin.

The third hypothesis is called Metabolism First. In this scheme, the first reactions involve spontaneous formation of simple molecules such as acetate, a two-carbon compound formed from carbon dioxide and water. Pathways leading to the synthesis of simple organic molecules might be promoted by natural catalysts such as minerals and porous surfaces in rocks. The point is that the origin of life is triggered by the accumulation of very simple organic molecules in thermodynamically favorable circumstances.

Simple organic molecules can then be combined in various ways that result in simple amino acids, lipids, etc. These, in turn, could act as catalysts for the formation of more organic molecules. This is the beginning of metabolism.

Eventually simple peptides will be formed and this could lead to better catalysts. Nucleic acids and complex amino acids will only form near the end of this process.

One of the advantages of the metabolism first scenario is that it offers a simple "solution" to the chirality/racemization problem by explaining why all naturally occurring amino acids are left-handed [see Can watery asteroids explain why life is 'left-handed'?]. Another advantage is that it doesn't require spontaneous formation of nucleotides—a major limitation of the RNA world scenario since spontaneous formation of such molecules is very improbable.¹

James Trefil, Harold Morowitz, and Eric Smith have written up a very nice summary of the Metabolism First hypothesis for American Scientist: The Origin of Life. The subtitle, "A case is made for the descent of electrons," is a clever play on words. It illustrates the point that synthesis of simple organic molecules such as acetate are thermodynamically favorable. This is science writing at its best.²

The authors have reconstructed the simplest, most fundamental, biochemical pathways concluding that a reductive citric acid cycle is probably the best example of the first metabolic pathway. In this pathway, the two-carbon acetate molecule is made from carbon dioxide and water in the reverse of the common citric acid pathway found in eukaryotes.

In fact, the reductive pathway occurs in many bacteria. They can still use it to fix carbon. The authors use the figure on the left to illustrate the basic pathway.

Almost all of the common molecules of life are synthesized from acetate or the molecules of the citric acid cycle. The simple amino acids, for example, are formed in one step. More complex amino acids are derived from the simple amino acids, etc. Similarly, simple fatty acids can be formed from acetate and more complex ones come later; once the simple ones accumulate.

The central role of citric acid cycle metabolism in biochemistry has been known for decades. It's involvement in biosynthesis pathways is often ignored in introductory biochemistry courses because they are heavily focused on fuel metabolism in mammals and biosynthetic pathways get short shrift in such courses.



The essence of Metabolism First is that the various complex molecules of life came after the spontaneous formation of very simple molecules. Pathways leading to the complex molecules evolved and their evolution was assisted by the evolution of various catalysts, some of which were biological in nature.

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1. In spite of the claims surrounding a recent paper in Nature: RNA world easier to make.

2. Probably good science editing as well. My friend Morgan Ryan is managing editor and he is very good.

[Photo Credit: American Scientist, courtesy of Scripps Institution of Oceanography, University of California, San Diego.]

Get a Job in Waterloo

 

Biology - Assistant Professor (Invertebrate Developmental Biology)

University of Waterloo
Location: Ontario
Date posted: 2009-04-06

Invertebrate Developmental Biologist.

The Department of Biology of the University of Waterloo invites applications for a tenure track position at the assistant professor level in invertebrate developmental biology. Applicants must have a PhD and be prepared to establish an active research program; evidence of the ability to attract independent research funding and/or teaching experience would be an asset. We are particularly interested in applicants using genetic approaches to model invertebrate systems in conjunction with modern imaging techniques. Duties include research, management of departmental imaging facility, teaching at the undergraduate and graduate levels, as well as graduate student supervision.

Applicants should send their curriculum vitae, the names of three references and an outline (one to two pages) of their proposed research program, by electronic means if possible, to: D.R. Rose, Chair, Department of Biology, University of Waterloo, Waterloo, Ontario, N2L 3G1 Canada, or via email to givan@sciborg.uwaterloo.ca.

The closing date for applications is May 15, 2009 with a start date no later than September 1, 2009.

All qualified candidates are encouraged to apply; however Canadian and permanent residents will be given priority. The University of Waterloo encourages applications from all qualified individuals, including women, members of visible minorities, native peoples, and persons with disabilities. This appointment is subject to availability of funds. Additional information on the Department is available at http://www.biology.uwaterloo.ca/.

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The Problems with Research Funding in Canada

 
Jim Turk is Executive Director of the Canadian Association of University Teachers (CAUT). He is a staunch defender of university research, especially curiosity motivated research.

In Tuesday's Globe and Mail, Turk explains why current government policy is wrong. It puts too much emphasis on research that directly helps business and not enough on fundamental research [Get the state out of the labs of the nation].

He also makes a point that needs emphasis. The Presidents of Canada's granting agencies are getting into bed with the government. They increasingly see themselves as obedient pawns of the government and not as independent agents who will stand up for what they believe in regardless of the consequences.

Our federal government has acknowledged that politicians should not try to pick winners and losers in the economic marketplace, but persists in trying to do so in the marketplace of ideas. In the 2007 and 2008 budgets, the federal government dictated where new money for granting councils could be spent - ruling out the vast majority of researchers' work. In the 2009 budget, it restricted new social science humanities graduate scholarships to students "focused on business-related degrees."

That research funding has become politicized was also evident when the presidents of the three granting councils - the Natural Sciences and Engineering Research Council, the Social Sciences and Humanities Research Council and the Canadian Institutes of Health Research - failed to object when their budgets were cut, and when Genome Canada's president expressed concerns, then quickly retracted them. Canada's research funding agencies should be made arms' length from government.

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[Hat Tip: T. Ryan Gregory: Genomicron]

Is Your Irony Meter Working?

 
Back in the days of newsgroups (last century) the howlers in talk.origins developed a running joke about irony meters. They were always being fried by outrageous comments from the anti-science creationists. New, more powerful, irony meters were needed every few months.

Here's a chance to calibrate your new irony meter.

The National Center for Science Education (NCSE) has just published a brief they submitted to the US Federal Government on the issue of scientific integrity [NCSE encourages federal scientific integrity].

Part of it reads ...

There is a long-running conflict over a creationist book being sold in the science section of bookstores at Grand Canyon National Park, creating a conflict between the scientifically-oriented presentations of Park Service staff and an implied Park Service endorsement of erroneous scientific views. The federal government should not lend its credibility to material which falsely claims scientific support for a 6000 year-old Earth or other attempts to masquerade religious apologetics as science. It is appropriate to discuss religious views in publications, presentations, and other educational settings, but the integrity of the scientific process is compromised when descriptions of religious views are not clearly distinguished from empirically tested scientific results.

Re-read that last sentence; "the integrity of the scientific process is compromised when descriptions of religious views are not clearly distinguished from empirically tested scientific results." I agree 100%; "The federal government should not lend its credibility to ... attempts to masquerade religious apologetics as science."

So how does that rule about integrity play out when leading scientific organizations like AAAS and NAS promote the compatibility of science and religion by endorsing and publicizing religious scientists in their official publications? Or how about the evolution display at the American Museum of Natural History?

What value registered on your irony meter?

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[Image Credit: Wikipedia: Irony Meter]

Denyse O'Leary and Harun Yahya

 
Adnan Oktar is a Turkish creationist whose anti-evolution diatribes are usually published under the name Harun Yahya. Denyse O'Leary is a Canadian creationist who publishes anti-evolution diatribes under her own name.

I suppose it was only a matter of time before those two were attracted to one another. Denyse interviews Adnan Oktar on Uncommon Descent [Interview with Turkish Darwin doubter Adnan Oktar].

O’LEARY: How did you become interested in the evolution controversies? The conventional wisdom offered by many media sources in North America is that doubts about Darwin are a product of American evangelical Christianity in the deep rural South, and can only be understood with reference to that culture. Unless I have lost the plot, your doubts could not stem from that culture. From what, then, did they stem?

ADNAN OKTAR: I realized while I was still in high school that there was something odd about World War I, World War II and revolutions. Because people do not suddenly wake up one day and decide to start slaughtering their neighbors or ruining and devastating a country. I did some investigation and saw that the Darwinist materialist mindset lies behind all wars, revolutions and anarchy. I was terribly distressed by the way people were suffering so much, by the oppression and injustice they were being subjected to, and decided to wage an intellectual campaign against Darwinism to the utmost of my powers.

Amazing. It's really hard to decide which one is more wrong, although I must say I'm tilting toward Adnan Oktar. The idea that all wars were due to Darwinism—especially those fought during the expansion of the Ottoman Empire— is mind-boggling.

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[Image Credit: Guide Martine]

Canadian Invasion

 
The Canadian invasion is proceeding as planned.

Most of the rest stops along the New York State Thruway have a Timmy's and you can find lots of them in the bigger cities. It won't be long before Starbucks is in trouble.

Note to my American friends ... be afraid ... be very afraid. Civilization is coming to America. You will be assimilated.

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New York: Central Park

 

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Nobel Laureate: Richard Ernst

 

The Nobel Prize in Chemistry 1991.

"for his contributions to the development of the methodology of high resolution nuclear magnetic resonance (NMR) spectroscopy"




Richard R. Ernst (1933 - ) won the Nobel Prize in Chemistry for important contributions to the technology of nuclear magnetic resonance (NMR) as a tool to understanding the three-dimensional structure of molecules.

The press release describes his work in some detail.
THEME:
Nobel Laureates

Revolutionary developments make a spectroscopic technique indispensable for chemistry

The 1991 Nobel Prize in Chemistry has been awarded to Professor Richard R. Ernst of the ETH, Zurich, for important methodological developments within nuclear magnetic resonance (NMR) spectroscopy. NMR spectroscopy has during the last twenty years developed into perhaps the most important instrumental measuring technique within chemistry. This has occurred because of a dramatic increase in both the sensitivity and the resolution of the instruments, two areas in which Ernst has contributed more than anybody else.

NMR spectroscopy is today used within practically all branches of chemistry, at universities as well as industrial laboratories. The method has its most important applications as a tool for the determination of molecular structure in solution. It can today be applied to a wide variety of chemical systems, from small molecules (e.g. drugs) to proteins and nucleic acids. Further, chemists use NMR to study interactions between different molecules (e.g. enzyme - substrate, soap - water), to investigate molecular motion, to get information on the rate of chemical reactions and for many other problems. The NMR technique is today also important in related sciences, such as physics, biology and medicine.

Background

The first successful NMR experiments were reported in 1945, by two independent groups in the USA (Bloch and co-workers at Stanford and Purcell with his group at Harvard). Their discovery was awarded a Nobel Prize in Physics in 1952. The NMR phenomenon can be explained in the following way. When matter is placed in a magnetic field, some of the atomic nuclei (e.g. nuclei of hydrogen atoms, called protons) behave like microscopic compass needles. These tiny compass needles (called nuclear spins) can, according to the laws of quantum mechanics, orient themselves with respect to the magnetic field in only a few ways. These orientations are characterized by different energy levels. The nuclear spins can be forced to jump between levels if the sample is exposed to radio waves of exactly specified frequency. The frequency is varied during the course of the experiment and, when it exactly matches the characteristic frequency of the nuclei (the resonance frequency), an electric signal is induced in the detector. The strength of the signal is plotted as a function of frequency in a diagram called the NMR spectrum. Around 1950, it was discovered that nuclear resonance frequencies depended not only on the nature of the atomic nuclei, but also on their chemical environment. The possibility of using NMR as a tool for chemical analysis soon became obvious and was mentioned by, among others, Professor Purcell in his 1952 Nobel lecture. A fundamental difficulty in the early days was the relatively low sensitivity of the NMR method.

A major breakthrough occurred in 1966 when Ernst (together with Weston A. Anderson, USA) discovered that the sensitivity of NMR spectra could be increased dramatically if the slow radiofrequency sweep that the sample was exposed to was replaced by short and intense radiofrequency pulses. The signal was then measured as a function of time after the pulse. The next pulse and signal acquisition were started after a few seconds, and the signals after each pulse were summed in a computer. The NMR signal measured as a function of time is not amenable to a simple interpretation (see Figure la). It is however possible to analyze what resonance frequencies are present in such a signal - and to convert it to an NMR spectrum - by a mathematical operation (Fourier transformation, FT) performed rapidly in the computer. The result of the Fourier transformation of Figure la is shown in Figure lb.

This discovery is the basis of modern NMR spectroscopy. The ten-fold, and sometimes hundred-fold, increase in sensitivity has made it possible to study small amounts of material as well as chemically interesting isotopes of low natural occurrence, e.g. carbon- 13. The enormous potential of the new technique - called FT NMR - quickly became obvious to NMR spectroscopists. The chemical research community got access to it in the early seventies through commercial FT NMR instruments. Nowadays, practically no other types of NMR spectrometer are manufactured.

By the end of the sixties, NMR spectroscopists had begun to use new magnet designs, based on superconducting materials, and the quality of spectra - expressed both in terms of sensitivity and resolution - improved quickly during the seventies. Consequently, more complex systems could be studied and more sophishcated questions answered. To move to very large molecules, macromolecules, another breakthrough was necessary, and this again carried the signature of Ernst. Inspired by a lecture of Jean Jeener, Belgium, at a summer school at the beginning of the seventies, Ernst and co-workers showed in 1975-76 how "two-dimensional" (2D) NMR experiments could be performed and demonstrated that 2D FT NMR opened entirely new possibilities for chemical research.

This 2D methods functions in the following way. Nuclear spins in a magnetic field are now subjected to sequences of radio-frequency pulses rather than to single pulses. The time course of the experiment is divided into four intervals. During the "preparation period", the equilibrium of the nuclear spin system is distorted by one or several pulses. This non-equilibrium is allowed to evolve for a certain time (the "evolution period"), after which the next series of pulses (the "mixing period") leads to the "detection period". Here the NMR signal is detected as a function of time in the same way as in ordinary, one-dimensional FT NMR. After this, one moves to the next preparation period and repeats the experiment with different evolution period. The change in the evolution period causes the signal measured during the detection period to change. One might say that the history of spins during the evolution period becomes encoded in the variation of the signal measured during the detection period. This gives a two-dimensional table with signal intensity as a function of both the point in time during the detection period and the length of the evolution period. Finally, the Fourier transformation is performed twice - with respect to both these time parameters - to obtain a two-dimensional frequency spectrum in the form of a map of the dependence of the signal intensity on two frequency parameters (denoted f1 and f2 in Figure 2).

Introduction of the second frequency dimension allows the spectral information to attain much higher resolution - like looking at the skyline of a mountain range and then looking at the whole range from an aircraft above. Depending on the design of the preparation and the mixing periods, one obtains a variety of 2D NMR experiments. Some are used to spread the information over two dimensions rather than one (separation of interactions) while others are designed to find which nuclei have some form of contact with each other (correlation of signals).

In the mid-seventies, Ernst also proposed a method of obtaining NMR-tomographic images which became one of the most common (the NMR tomography method as such was earlier realized by Lauterbur in the USA, Mansfield in England and others).

Since the mid-seventies, Ernst and co-workers have continuously and decisively contributed to the development of NMR spectroscopy, and in particular its two-, and more recently three- and multi-dimensional varieties. Applications of his methods were soon to come. For example, it has become possible over the past ten years to use NMR to determine the three-dimensional structure of organic and inorganic compounds as well as proteins and other biological macromolecules in solution with an accuracy comparable to what can be attained in crystals using X-ray diffraction. Interactions between biological molecules and other substances (metal ions, water, drugs) have also been studied in detail. Other important chemical applications are identification of chemical species (where NMR spectra act as the fingerprint of a molecule), studies of rates of certain chemical reactions and of molecular motions in the liquid state. In the border area between chemistry and biology, NMR is being used to study how metabolic processes are influenced by drugs, ischaemia etc. Ernst's own work often falls in the border area between chemistry and physics and can, if one so wishes, be treated as extremely elegant experimental verification of the correctness of quantum mechanics.

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[Photo Credit: Science Festival]

The images of the Nobel Prize medals are registered trademarks of the Nobel Foundation (© The Nobel Foundation). They are used here, with permission, for educational purposes only.

Nobel Laureate: Harald zur Hausen

 

The Nobel Prize in Physiology or Medicine 2008

"for his discovery of human papilloma viruses causing cervical cancer"

Harald zur Hausen (1936 - ) won the Noble Prize in 2008 for discovering that a virus, human papilloma virus, causes cervical cancer. He also won a Gairdner Award in 2008.

Zur Hausen's discovery led eventually to the development of an HPV vaccine. Gardasil is the best known of the two vaccines on the market. Most doctors recommend that young girls be vaccinated.

Here's the 2008 press release on Zur Hausen.
THEME:
Nobel Laureates

Discovery of human papilloma virus causing cervical cancer

Against the prevailing view during the 1970s, Harald zur Hausen postulated a role for human papilloma virus (HPV) in cervical cancer. He assumed that the tumour cells, if they contained an oncogenic virus, should harbour viral DNA integrated into their genomes. The HPV genes promoting cell proliferation should therefore be detectable by specifically searching tumour cells for such viral DNA. Harald zur Hausen pursued this idea for over 10 years by searching for different HPV types, a search made difficult by the fact that only parts of the viral DNA were integrated into the host genome. He found novel HPV-DNA in cervix cancer biopsies, and thus discovered the new, tumourigenic HPV16 type in 1983. In 1984, he cloned HPV16 and 18 from patients with cervical cancer. The HPV types 16 and 18 were consistently found in about 70% of cervical cancer biopsies throughout the world.

Importance of the HPV discovery

The global public health burden attributable to human papilloma viruses is considerable. More than 5% of all cancers worldwide are caused by persistent infection with this virus. Infection by the human papilloma virus is the most common sexually transmitted agent, afflicting 50-80% of the population. Of the more than 100 HPV types known, about 40 infect the genital tract, and 15 of these put women at high risk for cervical cancer. In addition, HPV is found in some vulval, penile, oral and other cancers. Human papilloma virus can be detected in 99.7% of women with histologically confirmed cervical cancer, affecting some 500,000 women per year.

Harald zur Hausen demonstrated novel properties of HPV that have led to an understanding of mechanisms for papilloma virus-induced carcinogenesis and the predisposing factors for viral persistence and cellular transformation. He made HPV16 and 18 available to the scientific community. Vaccines were ultimately developed that provide ≥95 % protection from infection by the high risk HPV16 and 18 types. The vaccines may also reduce the need for surgery and the global burden of cervical cancer.

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[Photo Credit: IBMLive]

The images of the Nobel Prize medals are registered trademarks of the Nobel Foundation (© The Nobel Foundation). They are used here, with permission, for educational purposes only.

New York City

 

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New York: American Museum of Natural History

 
Guess who I saw in the American Museum of Natural History in New York?

No, I'm not thinking of a family of stuffed elephants or a giant blue whale. I'm not even thinking of the butterflies in the butterfly conservatory. The people who I'm thinking about are much more exciting.

My friend and I visited the evolution display. It was really excellent. The dioramas and descriptions described a no-holds-barred version of evolution complete with supporting evidence from fossils, DNA sequences, and biogeography. The statements were factual (mostly) and scientific. No dumbing down and no pulling punches.

I remarked to my friend that this was unusual and I would be surprised if there weren't some "disclaimers" at the end of the display.

Sure enough, just before reaching the end we saw some familiar faces. There were Ken Miller, Francis Collins, and Genie Scott in full length videos explaining why evolution and religion are compatible. I waited to see if PZ Myers or Richard Dawkins would put in an appearance—no such luck.

We didn't even see Neil deGrasee Tyson in the video in spite of the fact he's the director of the Hayden Planetarium at the museum. Niles Eldredge famous evolutionary biologist and curator of paleontology at the museum wasn't there either. I wonder why?

Add the American Museum of Natural History to the list of accommodationists. There was no compelling reason to interrupt an otherwise excellent scientific display with a sop to religion.

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Britich Columbia Rejects Electoral Reform

 
In yesterday's election the people of British Columbia were asked to choose between the old first-past-the post electoral system and a new single transferable vote system. The referendum question was ...

Which electoral system should British Columbia use to elect members to the provincial Legislative Assembly? The existing electoral system (First-Past-the-Post) or the single transferable vote electoral system (BC-STV) proposed by the Citizen's Assembly on Electoral Reform.

Up until the beginning of May, it was widely anticipated that more than 60% would vote for STV, thus ensuring that a fair electoral system would become law in British Columbia.

The actual result was a disaster for electoral reform. Only 39% of the voters favored STV while 61% voted to retain the old unfair first-past-the-post system [Elections BC].

This is a major defeat. It will make it much more difficult to get electoral reform passed in Ontario or any other province. As usual, North Americans are much more conservative than the civilized world.

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Is Acupuncture Better than Toothpicks?

 
Orac is at it again. He describes a pretty good study of the possible effects of acupuncture on lower back pain [Another acupuncture study misinterpreted]. The study showed that patients who got a sham procedure using toothpicks instead of needles reported the same "cure" as those who got two different versions of acupuncture.

In other words, acupuncture doesn't work. The scientific evidence is conclusive. Acupuncture is associated with a potent placebo effect but that's all. Patients can't tell the difference between needles and toothpicks. As long as they think they're getting the full-blown acupuncture treatment they'll report an improvement in lower back pain.

Here's the description of the toothpick technique that "cures" back pain.

Simulated acupuncture. We developed a simulated acupuncture technique using a toothpick in a needle guide tube, which was found to be a credible acupuncture treatment by acupuncture-naïve patients with back pain.Simulating insertion involved holding the skin taut around each acupuncture point and placing a standard acupuncture needle guide tube containing a toothpick against the skin. The acupuncturist tapped the toothpick gently, twisting it slightly to simulate an acupuncture needle grabbing the skin, and then quickly withdrew the toothpick and guide tube while keeping his or her fingers against the skin for a few additional seconds to imitate the process of inserting the needle to the proper depth. All acupuncture points were stimulated with toothpicks at 10 minutes (ie, the acupuncturist touched each acupuncture point with the tip of a toothpick without the guide tube and rotated the toothpick clockwise and then counterclockwise less than 30°) and again at 20 minutes just before they were "removed." To simulate withdrawal of the needle, the acupuncturist tightly stretched the skin around each acupuncture point, pressed a cotton ball firmly on the stretched skin, then momentarily touched the skin with a toothpick (without the guide tube) and quickly pulled the toothpick away using the same hand movements as in regular needle withdrawal. The acupuncturists simulated insertion and removal of needles at the 8 acupuncture points used in the standardized treatment.

Just about anyone could be trained to do this. Think of how much unnecessary back pain could be eliminated if spouses and friends would just poke each other with toothpicks!

I think I'll ask Ms. Sandwalk to try it next time my back hurts.

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Monday's Molecule #121: Winner

 
UPDATE:The image is a 2D Nuclear magnetic resonance spectrum of cane sugar from the Nobel website. This kid of image can only be produced by mathematically transforming the primary data to create a multidimensional representation. Richard Ernst discovered the Fourier transform method that led to solving three dimensional structures by NMR. He won a Nobel Prize in 1991.

This week's winner is Michael Clarkson of Waltham MA (USA). The dominance of Canadians is coming to an end.

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This is a true representation of the structure of a biological molecule but I don't expect you you to guess the molecule. Instead, you have to explain what this image is depicting and how it relates to a Nobel Laureate.

There is one Nobel Laureate who is most closely identified with this particular type of image. You have to identify the Nobel Laureate and what the prize was for. Be careful, because I'm looking for the pioneer in this field and not for other Nobel Prize winners who may have come later. Be sure to check the list of previous Nobel Laureates on Sandwalk.

The first person to identify the molecule and the Nobel Laureate wins a free lunch at the Faculty Club. Previous winners are ineligible for one month from the time they first won the prize.

There are seven ineligible candidates for this week's reward: Maria Altshuler of the University of Toronto, Mike Fraser of Toronto, Alex Ling of the University of Toronto, Laura Gerth of the University of Notre Dame, Stefan Tarnawsky of the University of Toronto, Dima Klenchin of the University of Wisconsin, Madison and Adam Santoro of the University of Toronto.

The Canadians are still ahead in the competition between Canadians the rest of the world but Dima and Laura are at least keeping it from being a total rout.

I still have one extra free lunch donated by a previous winner to a deserving undergraduate so I'm going to continue to award an additional free lunch to the first undergraduate student who can accept it. Please indicate in your email message whether you are an undergraduate and whether you can make it for lunch.

THEME:

Nobel Laureates
Send your guess to Sandwalk (sandwalk (at) bioinfo.med.utoronto.ca) and I'll pick the first email message that correctly identifies the molecule and names the Nobel Laureate(s). Note that I'm not going to repeat Nobel Prizes so you might want to check the list of previous Sandwalk postings by clicking on the link in the theme box.

Correct responses will be posted tomorrow.

Comments will be blocked for 24 hours. Comments are now open.

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Monday's Molecule #121

 
This is a true representation of the structure of a biological molecule but I don't expect you you to guess the molecule. Instead, you have to explain what this image is depicting and how it relates to a Nobel Laureate.

There is one Nobel Laureate who is most closely identified with this particular type of image. You have to identify the Nobel Laureate and what the prize was for. Be careful, because I'm looking for the pioneer in this field and not for other Nobel Prize winners who may have come later. Be sure to check the list of previous Nobel Laureates on Sandwalk.

The first person to identify the molecule and the Nobel Laureate wins a free lunch at the Faculty Club. Previous winners are ineligible for one month from the time they first won the prize.

There are seven ineligible candidates for this week's reward: Maria Altshuler of the University of Toronto, Mike Fraser of Toronto, Alex Ling of the University of Toronto, Laura Gerth of the University of Notre Dame, Stefan Tarnawsky of the University of Toronto, Dima Klenchin of the University of Wisconsin, Madison and Adam Santoro of the University of Toronto.

The Canadians are still ahead in the competition between Canadians the rest of the world but Dima and Laura are at least keeping it from being a total rout.

I still have one extra free lunch donated by a previous winner to a deserving undergraduate so I'm going to continue to award an additional free lunch to the first undergraduate student who can accept it. Please indicate in your email message whether you are an undergraduate and whether you can make it for lunch.

THEME:

Nobel Laureates
Send your guess to Sandwalk (sandwalk (at) bioinfo.med.utoronto.ca) and I'll pick the first email message that correctly identifies the molecule and names the Nobel Laureate(s). Note that I'm not going to repeat Nobel Prizes so you might want to check the list of previous Sandwalk postings by clicking on the link in the theme box.

Correct responses will be posted tomorrow.

Comments will be blocked for 24 hours.

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E.O. Wilson in New York

It was Saturday morning and I was in the offices of the New York Academy of Sciences on the 40th floor of 7 World Trade Center. The view to the East was spectacular. We could see the Brooklyn bridge and the 59th Street bridge with Brooklyn and Queen's in the background.

I love cities, I love the tall buildings and the hustle and bustle of the street life.

E.O. Wilson was about to kick off the opening session of The Two Cultures in the 21st Century. I had never heard him in person so I grabbed a good seat and settled down.

Most of his talk was about imaging the brain, behaviorial psychology, and evolutionary psychology. His main point was that scientists are learning a lot about how the brain works and this brings together the humanities and science. E.O. Wilson favors consilience.

Let me give you one example from his talk to illustrate the concept. Wilson talked about a study that was done to determine the ideal environment for humans. People were asked to identify their favorite scenes and the results were used to derive a composite view of what the ideal human environment would look like.

Wilson illustrated it with a slide taken from the third or fourth floor of the John Deere headquarters in Illinois. The view showed extensive grasslands with some water in the foreground. The trees had large branches that were almost parallel to the ground. Massive abstract sculptures evoked an image of large animals.

According to Wilson, this idealized environment is an ancient memory of the environment where we evolved. Our ancestors lived in caves on a cliff side overlooking a savanna full of large animals. The trees of the savanna have branches that are almost parallel to the ground. We like to have water nearby. This is why the typical modern human prefers that type of environment. Science and beauty come together.

Here's how Wilson describes it in The Creation: An Appeal to Save Life on Earth pp. 66-67.

…Researchers have found that when people of different cultures, including those of North America, Europe, Asia and Africa, are given freedom to select the setting of their homes and work places, they prefer an environment that combines three features. They wish to live on a height looking down and out, to scan a parkland with scattered trees and copses spread before them, closer in appearance to a savanna than either a grassland or a closed forest, and to be near a body of water, such as a lake, river, or sea. Even if all these elements are purely aesthetic and not functional, as in vacation homes, people who have the means will pay a very high price to obtain them.

There is more. Subjects in choice tests prefer their habitation to be a retreat, with a wall, cliff, or something else solid to the rear. They want a view of fruitful terrain in front of the retreat. They like large animals scattered thereabout, either wild or domestic. Finally, they favour trees with low horizontal branches and divided leaves. It is probably not a coincidence that some people, I among them, consider the Japanese Maple the world’s most beautiful tree.

These quirks of human nature do not prove but are at least consistent with the savanna hypothesis of human evolution. Supported by considerable evidence from fossil record, this interpretation holds that human beings today still choose the habitats resembling those in which our species evolved in Africa during millions of years of prehistory.

I realized then and there that I was a strange sort of human. My love of cities must be some kind of aberration. I also realized in an instant that all of my mother's ancestors from the past 2000 years must have been desperately unhappy. They all come from Northern Europe where they lived in clusters of small farms in rolling hills covered in dense forest. The only thing they had going for them was the presence of large animals in the barns. How sad.

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[Photo Credit: ©John Deere (John Deere Attractions)]

New York City: Theater and Dinner

 

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