Science Guardian

Truth, beauty and paradigm power in science and society

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News, views and reviews measured against professional literature in peer reviewed journals (adjusted for design flaws and bias), well researched books, authoritative encyclopedias (not the bowdlerized Wiki entries on controversial topics) and the investigative reporting and skeptical studies of courageous original thinkers among academics, philosophers, researchers, scholars, authors, filmmakers and journalists.

Supporting the right of exceptional minds to free speech, publication, media coverage and funding against the crowd prejudice, leadership resistance, monetary influences and internal professional politics of the paradigm wars of cancer, HIV(not)AIDS, evolution, global warming, cosmology, particle physics, macroeconomics, information technology, religions and cults, health, medicine, diet and nutrition.

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I am Albert Einstein, and I heartily approve of this blog, insofar as it seems to believe both in science and the importance of intellectual imagination, uncompromised by out of date emotions such as the impulse toward conventional religious beliefs, national aggression as a part of patriotism, and so on.   As I once remarked, the further the spiritual evolution of mankind advances, the more certain it seems to me that the path to genuine religiosity does not lie through the fear of life, and the fear of death, and blind faith, but through striving after rational knowledge.   Certainly the application of the impulse toward blind faith in science whereby authority is treated as some kind of church is to be deplored.  As I have also said, the only thing that ever interfered with my learning was my education. I am Freeman Dyson, and I approve of this blog, but would warn the author that life as a heretic is a hard one, since the ignorant and the half informed, let alone those who should know better, will automatically trash their betters who try to enlighten them with independent thinking, as I have found to my sorrow in commenting on "global warming" and its cures.
Many people would die rather than think – in fact, they do so. – Bertrand Russell.

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Sleepy gatekeepers: Times’ Larry Altman covers the problems of peer review

But why then is he dozing peacably in HIV?AIDS?

In an extremely alert piece today (May 2, Tues) For Science’s Gatekeepers, a Credibility Gap, Lawrence K. Altman MD sums up the problems in peer review which recent events have exposed.

But if the distinguished medical correspondent is so aware that peer review is not the equivalent of the Good Housekeeping Seal of approval, why does he not recognize that the problems apply to HIV?AIDS papers as much or more than in other fields?

Could it be that he and the Times editors are involved in the very same compromising predicament as the editors of the journals he is reporting on? Is even the Times subject to the power of Anthony Fauci and other mainstream scientists not to return his phone calls?

As far as we are concerned, the answer is not in doubt. So we view this piece as a kind of catharsis for Altman, in which he is speaking his own truth as well as that if the journal field.

Let’s go through his points to see if any of them don’t apply to the Times.

First, Altman emphasizes how much the process is compromised by pressures behind the scenes:

Virtually every major scientific and medical journal has been humbled recently by publishing findings that are later discredited. The flurry of episodes has led many people to ask why authors, editors and independent expert reviewers all failed to detect the problems before publication.

The publication process is complex. Many factors can allow error, even fraud, to slip through. They include economic pressures for journals to avoid investigating suspected errors; the desire to avoid displeasing the authors and the experts who review manuscripts; and the fear that angry scientists will withhold the manuscripts that are the lifeline of the journals, putting them out of business.By promoting the sanctity of peer review and using it to justify a number of their actions in recent years, journals have added to their enormous power.

He also points to the concerns about the authority of science, and the danger of tainting the good people in what is mainly an honorable profession. Moreover, how can they catch fraud, when they are not detectives?:

Journal editors say publicity about corrections and retractions distorts and erodes confidence in science, which is an honorable business. Editors also say they are gatekeepers, not detectives, and that even though peer review is not intended to detect fraud, it catches flawed research and improves the quality of the thousands of published papers.

It’s not our responsibility, the editors cry. We leave it up to the whistleblowers or the lawyers to make a fuss. We don’t want to confront the authors:

Editors also insist that science corrects its errors. But corrections often require whistle-blowers or prodding by lawyers. Editors at The New England Journal of Medicine said they would not have learned about a problem that led them to publish two letters of concern about omission of data concerning the arthritis drug Vioxx unless lawyers for the drug’s manufacturer, Merck, had asked them questions in depositions. Fraud has also slipped through in part because editors have long been loath to question the authors.

Altman finally puts his finger on the key factor nowadays: the huge increase in the money at stake. The amount of money swilling around this particular trough has recently risen from thousands to millions:

The public and many scientists tend to overlook the journals’ economic benefits that stem from linking their embargo policies to peer review. Some journals are owned by private for-profit companies, while others are owned by professional societies that rely on income from the journals. The costs of running journals are low because authors and reviewers are generally not paid.

A few journals that not long ago measured profits in the tens of thousands of dollars a year now make millions, according to at least three editors who agreed to discuss finances only if granted anonymity, because they were not authorized to speak about finances.

Furthermore, even the editors themselves have financial interests, which may conflict with doing their job properly:

Although editors of some journals say they demand statements from their editing staff members that they have no financial conflicts of interest, there is no way to be sure. At least one editor of a leading American journal had to resign because of conflicts of interest with industry.

Journals have devolved into information-laundering operations for the pharmaceutical industry, say Dr. Richard Smith, the former editor of BMJ, the British medical journal, and Dr. Richard Horton, the editor of The Lancet, also based in Britain.

Where is the money coming from? No one wants to offend the drug companies these days:

The journals rely on revenues from industry advertisements. But because journals also profit handsomely by selling drug companies reprints of articles reporting findings from large clinical trials involving their products, editors may “face a frighteningly stark conflict of interest” in deciding whether to publish such a study, Dr. Smith said.

So which of these factors doesn’t apply to the Times? Supposedly their science coverage is less directly tied to drug company ads, but has anyone noticed they are any more critical of the pharmaceutical industry than need be?

Sadly, one must conclude that judging from the performance of the Times in neglecting the questions surrounding the science of HIV?AIDS for two decades, it has failed to keep its own house in order.

Thanks, Larry, for making this sad tale clear.

May 2, 2006

The Doctor’s World

For Science’s Gatekeepers, a Credibility Gap

By LAWRENCE K. ALTMAN, M.D.

Recent disclosures of fraudulent or flawed studies in medical and scientific journals have called into question as never before the merits of their peer-review system.

The system is based on journals inviting independent experts to critique submitted manuscripts. The stated aim is to weed out sloppy and bad research, ensuring the integrity of the what it has published.

Because findings published in peer-reviewed journals affect patient care, public policy and the authors’ academic promotions, journal editors contend that new scientific information should be published in a peer-reviewed journal before it is presented to doctors and the public.

That message, however, has created a widespread misimpression that passing peer review is the scientific equivalent of the Good Housekeeping seal of approval.

Virtually every major scientific and medical journal has been humbled recently by publishing findings that are later discredited. The flurry of episodes has led many people to ask why authors, editors and independent expert reviewers all failed to detect the problems before publication.

The publication process is complex. Many factors can allow error, even fraud, to slip through. They include economic pressures for journals to avoid investigating suspected errors; the desire to avoid displeasing the authors and the experts who review manuscripts; and the fear that angry scientists will withhold the manuscripts that are the lifeline of the journals, putting them out of business.By promoting the sanctity of peer review and using it to justify a number of their actions in recent years, journals have added to their enormous power.

The release of news about scientific and medical findings is among the most tightly managed in country. Journals control when the public learns about findings from taxpayer-supported research by setting dates when the research can be published. They also impose severe restrictions on what authors can say publicly, even before they submit a manuscript, and they have penalized authors for infractions by refusing to publish their papers. Exceptions are made for scientific meetings and health emergencies.

But many authors have still withheld information for fear that journals would pull their papers for an infraction. Increasingly, journals and authors’ institutions also send out news releases ahead of time about a peer-reviewed discovery so that reports from news organizations coincide with a journal’s date of issue.

A barrage of news reports can follow. But often the news release is sent without the full paper, so reports may be based only on the spin created by a journal or an institution.

Journal editors say publicity about corrections and retractions distorts and erodes confidence in science, which is an honorable business. Editors also say they are gatekeepers, not detectives, and that even though peer review is not intended to detect fraud, it catches flawed research and improves the quality of the thousands of published papers.

However, even the system’s most ardent supporters acknowledge that peer review does not eliminate mediocre and inferior papers and has never passed the very test for which it is used. Studies have found that journals publish findings based on sloppy statistics. If peer review were a drug, it would never be marketed, say critics, including journal editors.

None of the recent flawed studies have been as humiliating as an article in 1972 in the journal Pediatrics that labeled sudden infant death syndrome a hereditary disorder, when, in the case examined, the real cause was murder.

Twenty-three years later, the mother was convicted of smothering her five children. Scientific naïveté surely contributed to the false conclusion, but a forensic pathologist was not one of the reviewers. The faulty research in part prompted the National Institutes of Health to spend millions of dollars on a wrong line of research.

Fraud, flawed articles and corrections have haunted general interest news organizations. But such problems are far more embarrassing for scientific journals because of their claims for the superiority of their system of editing.

A widespread belief among nonscientists is that journal editors and their reviewers check authors’ research firsthand and even repeat the research. In fact, journal editors do not routinely examine authors’ scientific notebooks. Instead, they rely on peer reviewers’ criticisms, which are based on the information submitted by the authors.

While editors and reviewers may ask authors for more information, journals and their invited experts examine raw data only under the most unusual circumstances.

In that respect, journal editors are like newspaper editors, who check the content of reporters’ copy for facts and internal inconsistencies but generally not their notes. Still, journal editors have refused to call peer review what many others say it is — a form of vetting or technical editing.

In spot checks, many scientists and nonscientists said they believed that editors decided what to publish by counting reviewers’ votes. But journal editors say that they are not tally clerks and that decisions to publish are theirs, not the reviewers’.

Editors say they have accepted a number of papers that reviewers have harshly criticized as unworthy of publication and have rejected many that received high plaudits.

Many nonscientists perceive reviewers to be impartial. But the reviewers, called independent experts, in fact are often competitors of the authors of the papers they scrutinize, raising potential conflicts of interest.

Except when gaffes are publicized, there is little scrutiny of the quality of what journals publish.

Journals have rejected calls to make the process scientific by conducting random audits like those used to monitor quality control in medicine. The costs and the potential for creating distrust are the most commonly cited reasons for not auditing.

In defending themselves, journal editors often shift blame to the authors and excuse themselves and their peer reviewers.

Journals seldom investigate frauds that they have published, contending that they are not investigative bodies and that they could not afford the costs. Instead, the journals say that the investigations are up to the accused authors’ employers and agencies that financed the research.

Editors also insist that science corrects its errors. But corrections often require whistle-blowers or prodding by lawyers. Editors at The New England Journal of Medicine said they would not have learned about a problem that led them to publish two letters of concern about omission of data concerning the arthritis drug Vioxx unless lawyers for the drug’s manufacturer, Merck, had asked them questions in depositions. Fraud has also slipped through in part because editors have long been loath to question the authors.

“A request from an editor for primary data to support the honesty of an author’s findings in a manuscript under review would probably poison the air and make civil discourse between authors and editors even more difficult than it is now,” Dr. Arnold S. Relman wrote in 1983. At the time, he was editor of The New England Journal of Medicine, and it had published a fraudulent paper.

Fraud is a substantial problem, and the attitude toward it has changed little over the years, other editors say. Some journals fail to retract known cases of fraud for fear of lawsuits.

Journals have no widely accepted way to retract papers, said Donald Kennedy, editor in chief of Science, after the it retracted two papers by the South Korean researcher Dr. Hwang Woo Suk, who fabricated evidence that he had cloned human cells.

In the April 18 issue of Annals of Internal Medicine, its editor, Dr. Harold C. Sox, wrote about lessons learned after the journal retracted an article on menopause by Dr. Eric Poehlman of the University of Vermont.

When an author is found to have fabricated data in one paper, scientists rarely examine all of that author’s publications, so the scientific literature may be more polluted than believed, Dr. Sox said.

Dr. Sox and other scientists have documented that invalid work is not effectively purged from the scientific literature because the authors of new papers continue to cite retracted ones.

When journals try to retract discredited papers, Dr. Sox said, the process is slow, and the system used to inform readers faulty. Authors often use euphemisms instead of the words “fabrication” or “research misconduct,” and finding published retractions can be costly because some affected journals charge readers a fee to visit their Web sites to learn about them, Dr. Sox said.

Despite its flaws, scientists favor the system in part because they need to publish or perish. The institutions where the scientists work and the private and government agencies that pay for their grants seek publicity in their eagerness to show financial backers results for their efforts.

The public and many scientists tend to overlook the journals’ economic benefits that stem from linking their embargo policies to peer review. Some journals are owned by private for-profit companies, while others are owned by professional societies that rely on income from the journals. The costs of running journals are low because authors and reviewers are generally not paid.

A few journals that not long ago measured profits in the tens of thousands of dollars a year now make millions, according to at least three editors who agreed to discuss finances only if granted anonymity, because they were not authorized to speak about finances.

Any influential system that profits from taxpayer-financed research should be held publicly accountable for how the revenues are spent. Journals generally decline to disclose such data.

Although editors of some journals say they demand statements from their editing staff members that they have no financial conflicts of interest, there is no way to be sure. At least one editor of a leading American journal had to resign because of conflicts of interest with industry.

Journals have devolved into information-laundering operations for the pharmaceutical industry, say Dr. Richard Smith, the former editor of BMJ, the British medical journal, and Dr. Richard Horton, the editor of The Lancet, also based in Britain.

The journals rely on revenues from industry advertisements. But because journals also profit handsomely by selling drug companies reprints of articles reporting findings from large clinical trials involving their products, editors may “face a frighteningly stark conflict of interest” in deciding whether to publish such a study, Dr. Smith said.

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