Duplicated data, “careless errors” expire lung cancer paper

A paper about the molecular details of lung cancer is being retracted for repeating datasets and “careless errors” in a pair of figures. According to the note, the editor of Carcinogenesis wouldn’t have known about the problems if he hadn’t been tipped off that the paper by first author, XiaoJuan Sun — a researcher at Shenzhen […]

The post Duplicated data, “careless errors” expire lung cancer paper appeared first on Retraction Watch.

Cancer, processed meat, red meat. Just how bad? Not very.

NO MORE BALONEY The remarkable thing about the latest World Health Organization declaration–that processed meats are definitely carcinogenic and red meat probably is too–is how many media folks responded by trying to save our bacon.

Environmental scientists call for retraction of oil industry-funded paper on benzene exposure

carcinogenesis 13A paper suggesting that scientists may want to rethink what levels of benzene are carcinogenic has led to a sharp exchange in the journal that originally published it.

In 2006, Stephen Rappaport, of UNC-Chapel Hill, and colleagues, published a paper that began by saying that benzene

is an important industrial chemical that is also emitted into the air from gasoline, engine exhausts and combustion of organic materials (including cigarette smoke) (1,2). Occupational exposures to benzene at air levels greater than ∼10 p.p.m., have long been linked to hematotoxicity and to acute myelogenous leukemia (35). A recent report of hematotoxic effects in workers exposed to benzene <1 p.p.m. (6) has raised additional concerns regarding the health consequences of low exposures to this contaminant.

The authors conclude:

If our conjecture that exposures to benzene <1 p.p.m. favor production of HQ and MA is correct, there could be important implications for risk assessment. Certainly, HQ is the precursor of 1,4-benzoquinone, which is generally regarded as most hematotoxic of the benzene metabolites (18,22,24, 36,56), and MA is derived from the extremely reactive and toxic muconaldehydes (14,15,17). We are currently applying various non-linear models to these data to more fully examine the dose-related metabolism of benzene and to estimate effects of physiological and genetic factors upon benzene metabolites.

In other words, we may not really understand how toxic benzene is. Some scientists have paid attention, with the paper earning 49 citations, according to Thomson Scientific’s Web of Knowledge. But last year, Dow Chemical’s Paul Price and colleagues repeated the analysis, and disagreed, writing in a paper in Carcinogenesis that

findings of increased metabolism do not provide a basis for questioning current estimates of the health risks from low level benzene exposures.

Often in the scientific literature, that’s the end of things, or the original authors publish a letter thanking the critics of their work and saying where they agree and disagree, and that’s the end of things. But not this time. In December, Rappaport and colleagues published their response, also in Carcinogenesis:

A series of articles by Kim et al. used air and biomonitoring data from workers in Tianjin, China, to investigate the dose-specific metabolism (DSM) of benzene over a wide range of air concentrations (0.03–88.9 p.p.m.). Kim et al. concluded that DSM of benzene is greatest at air concentrations <1 p.p.m. This provocative finding motivated the American Petroleum Institute to fund a study by Price et al. to reanalyze the original data. Although their formal ‘reanalysis’ reproduced Kim’s finding of enhanced DSM at sub-p.p.m. benzene concentrations, Price et al. argued that Kim’s methods were inappropriate for assigning benzene exposures to low exposed subjects (based on measurements of urinary benzene) and for adjusting background levels of metabolites (based on median values from the 60 lowest exposed subjects). Price et al. then performed uncertainty analyses under alternative approaches, which led them to conclude that ‘… the Tianjin data appear to be too uncertain to support any conclusions …’ regarding the DSM of benzene. They also argued that the apparent low-dose metabolism of benzene could be explained by ‘lung clearance.’ In addressing these criticisms, we show that the methods and arguments presented by Price et al. are scientifically unsound and that their results are unreliable.

Rappaport and colleagues — one of whom, it should be noted, has also received funding from the American Petroleum Institute, a trade group for the oil and gas industry — outline their issues with Price et al’s paper, then conclude:

These shortcomings raise questions whether Price’s reanalysis of Kim’s work was motivated by scientific skepticism or by an effort to obfuscate the low-dose metabolism of benzene. In either case, we regard the above shortcomings as sufficient to justify retraction of Price et al. (34) from Carcinogenesis (http://publicationethics.org/).

Price and colleagues weren’t happy with the tone of that paragraph. In a letter responding to the critique, they conclude:

We support the right of Dr. Rappaport and his coauthors to question the technical merits of our work or any work in the public domain and to defend Kim et al. (2, 3), but we strongly object to the authors’ wording in the title and in the paper’s concluding paragraph. While the analyses in the Price et al. paper may have been complex, they were clearly presented and subject to the peer review process. Furthermore, we published the raw data from the study so that experts could replicate the analyses and come to their own conclusions, which is something Kim et al. (2, 3) did not do. We included factors in our reanalysis that favor a finding of increased metabolism at low doses as well as others that do not. Thus we clarified and made transparent legitimate technical issues with the analyses of Kim et al. (2, 3) and did not “obfuscate” the original findings. It is unfortunate that Rappaport et al. attempted to disparage our analyses with allegations regarding both our motivations and our professional ethics in expressing our concerns with the Kim et al. datasets and analyses.

That didn’t convince Rappaport et al, whose letter in response was titled “Ignoring and adding errors do not improve the science“:

In closing, we reiterate that Price et al. have not clarified their use of spline and uncertainty models so as to counter obvious errors and permit independent confirmation of their results (2). Here we have identified additional errors in Price et al.’s Letter-to-the-Editor that further diminish the validity of their arguments. As for the tone of our discourse, it is fair to say that Price et al. questioned the integrity of our workmanship and we responded in turn. Perhaps the most important message from this exchange is that investigators should carefully examine competing results derived from complex data under different analytical approaches and assumptions. We will rely upon the discerning reader to judge the strengths and weaknesses of arguments presented in these letters and the publications that preceded them.

Price tells Retraction Watch:

While I have great admiration for much of Dr. Rappaport’s other works particularly on the issue of the Exposome, I believe that he and his research group simply made an honest mistake in their original analysis of the benzene worker data (Kim et al 2006 a,b). Our 2012 publication (A reanalysis of the evidence for increased efficiency in benzene metabolism at airborne exposure levels below 3 ppm, Carcinogenesis doi: 10.1093/carcin/bgs257) pointed to evidence of this mistake (inconsistencies with other published findings on benzene) and offered a possible alternative explanation for the worker data. It was very unfortunate that Dr. Rappaport interpreted our reanalysis as an attempt to obfuscate science and we were unaware of his concerns until his paper appeared in Carcinogenesis.

In our letter to the editor, I and my coauthors confirm that we have no intention of withdrawing our 2012 publication and that we stand on our findings. We further show that despite the title and concluding language, the findings in Dr. Rappaport’s publication actually support our concerns over the original conclusions reached in the Kim et al. 2006a,b.

Neither Rappaport nor the editor of Carcinogenesis responded to our requests for comment. As Price notes:

This debate on the interpretation of this set of worker data will undoubtedly go on for some time. It is my hope that the tone of the discussion will improve in the future.

Hat tip: David Egilman


Authors retract prostate cancer-grape seed compound paper for figure presentation error

University of Alabama researchers have retracted a paper claiming that a grape skin seed compound might have anti-prostate cancer effects.

Here’s the notice for “Proanthocyanidins from grape seeds inhibit expression of matrix metalloproteinases in human prostate carcinoma cells, which is associated with the inhibition of activation of MAPK and NFκB”:

Due to an error of the presentation of data in figure 2 of this article, the authors have requested it be retracted from the journal.

The abstract, as originally published online, read: Prostate cancer (PCA) is the second most frequently diagnosed and leading cause of cancer-related deaths in men in the USA. The recognition that matrix metalloproteinases (MMPs) facilitate tumor cell invasion and metastasis of PCA has led to the development of MMP inhibitors as cancer therapeutic agents. As part of our efforts to develop newer and effective chemopreventive agents for PCA, we evaluated the effect of proanthocyanidins from grape seeds (GSP) on metastasis-specific MMP-2 and -9 in human prostate carcinoma DU145 cells by employing western blot and gelatinolytic zymography. Treatment of GSP dose-dependently inhibited cell proliferation (15–100% by 5–80 mg/ml of GSP), viability (30–80% by 20–80 mg/ml of GSP) and fibroblast conditioned medium (FCM)-induced expression of MMP-2 and -9 in DU145 cells. Since the signaling cascade of mitogen-activated protein kinases (MAPK) have been shown to regulate the expression of MMPs in tumor cells, we found that the treatment of DU145 cells with GSP (20–80 mg/ml) resulted in marked inhibition of FCM-induced phosphorylation of extracellular signal regulated kinase (ERK)1/2 and p38 but had little effect on c-Jun N-terminal kinase under similar experimental conditions. GSP treatment (20–80 mg/ml) to DU145 cells also dose-dependently inhibited FCM-induced activation of NFkB concomitantly with inhibition of MMP-2 and -9 expression in the same system. Additionally, the treatment of inhibitors of MEK (PD98059) and p38 (SB203580) to DU145 cells resulted in the reduction of FCM-induced phosphorylation of ERK1/2 and p38 concomitantly marked reduction in MMP-2 and -9 expressions. In further studies, treatment of androgen-sensitive LNCaP cells with a synthetic androgen R1881, resulted in an increase of MMP-2 and -9, which were completely abrogated in the presence of GSP (20–60 mg/ml). These data suggest that inhibition of metastasis-specific MMPs in tumor cells by GSP is associated with the inhibition of activation of MAPK and NFkB pathways, and thus provides the molecular basis for the development of GSP as a novel chemopreventive agent for both androgen-sensitive and -insensitive prostate cancer therapies.

Curtis C. Harris

Editor-in-Chief

The paper has been cited 69 times, according to Thomson Scientific’s Web of Knowledge.

Oxford University Press (OUP), the publishers of Carcinogenesis, tells Retraction Watch that a reader alerted Harris to potential issues with Figure 2 of the paper. Harris and two other scientists looked at the evidence, and decided there was enough to ask the authors to explain what looked like potential image manipulation. The journal then followed Committee on Publication Ethics (COPE) recommendations and contacted the corresponding author, Santosh Katiyar of the University of Alabama.

Katiyar

…responded in reasonable detail agreeing that there had been ‘an error in presentation of data [in figure 2]’ and requested that the paper be retracted. Carcinogenesis retracted the paper.

The publisher

felt the answer was satisfactory and the Journal did not contact the author’s institution to request any further investigation.

OUP said it is not aware of any investigation by the University of Alabama. We’ve contacted Katiyar for comment, and will update with anything we hear back.