Archive for May, 2008

CTSA Consortium Expanded

So, last October I had a little fun working out the logic for my office pool picks for the next CTSA sites. Today we learn that 14 new sites have joined the consortium:

Albert Einstein College of Medicine of Yeshiva University (New York City)
Boston University (Boston)
Harvard University (Cambridge, Mass.)
Indiana University School of Medicine (Indianapolis)
Northwestern University (Chicago and Evanston, Ill.)
The Ohio State University (Columbus, Ohio)
The Scripps Research Institute (La Jolla, Calif.)
Stanford University (Palo Alto, Calif.)
Tufts University (Boston)
The University of Alabama at Birmingham (Birmingham, Ala.)
University of Colorado Denver (Aurora, Colo.)
The University of North Carolina at Chapel Hill (Chapel Hill, N.C.)
The University of Texas Health Science Center at San Antonio (San Antonio)
The University of Utah (Salt Lake City)

I only missed Scripps, but they have a heck of a lot of collaborating sites (including, interestingly, the Center for Applied Genomics at CHOP - Children’s Hospital of Philadelphia …)

Only 22 spots remaining in the Consortium. Who’s left?

UCLA, UMd, UMinn, Georgetown, Medical College of Wisconsin, NYU, SUNY Stony Brook, U Cinncinati, U Florida, U South Florida, U Tennessee, Baylor, Penn State, UCSD, U Vermont , U Illinois-Chicago , MUSC , U Missouri, UNM, Dartmouth, LSU, U Arkansas, U Hawaii, U Kansas, U Kentucky, U Louisville, U ND, U Oklahoma, UVa

Plus, I’m sure, at least a dozen or so not named here, such as an Arizona contingent, U Nebraska, a Mountain State rep, (never mind - the KY & TN sites would cover Appalachia), et al. (and then there is VCU with their corporate partner Philip Morris USA)

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Secret Smoke-Filled Agreements

Update: I’ve discussed President Trani’s letter to the NYT above. And perhaps this NYT article explains how this all could have happened.

Update: Outstanding Blog Entry by an VCU Adjunct Professor summarizing the many (& snowballing) unethical activities going on in Richmond (and a great follow-up commentary here as well).

The NYT today reports on an astoundingly unethical and outrageous research agreement between VCU (Virginia Commonwealth University) and Philip Morris USA. The need to deny existence of this agreement if asked by the press … the ability of Philip Morris to remove everything but prepositions from journal manuscripts and any other form of dissemination … the pre-assignment to the company of intellectual property generated. Jiminy Crickets.
Read the rest of this entry »

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CSR Peer Review Notes

Yawn. The May edition of Peer Review Notes includes exciting job opportunities (folks looking to leave the lab: SROs wanted, not to mention a director for the new Translational & Clinical Sciences Division … perhaps a glimmer of hope, Whimple), an asynchronous electronic discussion review anecdote, updates on IRG realignments, and the story of a $10 grant awarded to a 10-year-old in 1957 (project had NO public health significance no less!).

I’m still wondering how the following peer review recommendations (a la Great Zerhouni) - apparently to be phased in via a pilot program in JUNE - represent a significant enhancement of the process:

Restructured Applications: The recommendations also [in addition to shorter R01 application length] call for R01 applications that are structured according to the review criteria with an emphasis on an application’s impact and significance in advancing scientific knowledge. Each application would be rated against individual criteria and also given an overall score. Applications would then be ranked, and any necessary adjustments in scoring made. [okay, the ranking is new - so you would get priority score, percentile, and rank?]

More Focused Reviews: Reviews themselves would be shorter and more specifically address how applications fared in terms of the criteria—impact, investigator, innovation/originality, research plan and environment. This set of changes will emphasize the impact of the application, versus the methodology, allow reviewers to read more applications and give applicants, councils and staff clearer feedback. [hmmm]

Enhanced Training: The recommendations also call for enhanced training for Scientific Review Officers, chairs and members and incentives for reviewers. [don't hold back folks - let them know what might incentivize you!]

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Findings of Scientific Misconduct

Notice is hereby given that the Office of Research Integrity and the Acting Assistant Secretary for Health have taken final action in the following case:

Lois Bartsch, PhD, former postdoctoral research trainee, Department of Genetics, Cell Biology, and Anatomy, University of Nebraska Medical Center, engaged in scientific misconduct in research supported by grants P30 CA36727, R01 CA77876, and P20 RR016469. Specifically, PHS found that Dr. Bartsch:

Falsified DNA sequence files by deleting a nucleotide and changing nucleotide designations and reported the altered file as the ACI rat p16Cdkn2a sequence with a CpG dinucleotide polymorphism in the upstream region to GenBank, in grant application CA118151, and in the poster presented to Cold Spring Harbor Laboratory;

Fabricated the claim in grant application CA118151 that GenBank entries for the human p16Cdkn2a gene had a CpG polymorphism near the transcription start site;

Falsified the differential methylation of CpG dinucleotides near the transcription start site of p16Cdkn2a DNA and reported that tumor tissue was more methylated than normal tissue in ACI rats treated with estrogen and that the ACI allele was more methylated than the BN allele in tumor tissue from (BN x ACI)F1 animals treated with estrogen in grant application CA118151.

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Cont’d Hellinga Fall-Out (May 2008)

Ugh. Nature summarizes the continued (& spreading) negative repercussions of the retracted Dwyer et al. papers discussed here and throughout the scientific community. An excellent Nature feature article by Erika Check Hayden covers the entire saga in detail.

Earlier, our man-on-the-spot David added a nice summary of an article in the May 5, 2008 issue of Chemical & Engineering News, including a bit more insight from John Richard in Buffalo and Hellinga’s dismissive reply (thanks so much, David, for all your contributions).

Nature notes that Richard and his group “wasted seven months and tens of thousands of dollars failing to reproduce the results from Hellinga’s lab” and that Mary Dwyer’s scientific career is over before it started. The editors also observe the questionable rationale in Hellinga’s accusing her of scientific misconduct: “As Dwyer’s adviser, Hellinga was responsible for training her. If she made mistakes, they are ultimately his responsibility.”

And, Nature spreads the wealth by noting that Duke itself owes something to the scientific community, and indeed, one hopes they are not holding their breath and hoping this will blow over so Hellinga can get back to the business at hand: bringing in research dollars to the University.

Earlier discussion can be read first here (initial Science retraction and detailed comments on problems with the science involved) and then here (The Scientist blog coverage, Chemical & Engineering News synopsis, et al.).

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Bridge Over Troubled Waters

The Scientist discusses a case study of a budget-crunch-induced lab closure, the personal and professional fall-out, and the concept of intramural bridge funding. In this case study, the PI (at Man’s Greatest Hospital) received a couple of Type 1 R01s during the NIH budget doubling that were not scored (article refers to them being returned without review - I assume she means without discussion/score) as Type 2s, resulting in funding loss … personnel loss … job changes … the works. Very interesting & engaging series of comments in response as well.

Historically, Type 2 R01s (competing renewals) enjoy roughly twice the success rate of Type 1s: 49.1% vs 24.5% in 2002 … 42.1% vs 20.0% in 2004 … 33.5% vs 16.3% in 2006. Hence the encouragement to pursue R01 vs R21 or R03 funding if possible (since the latter non-renewable mechanisms cannot take advantage of this higher success rate for Type 2s). In 2007, the gap narrowed a tad, with 36.1% success rate for Type 2 vs 19.2% for Type 1. As The Scientist points out, this meant 4,108 Type 2 applicants ended FY07 with out an award in hand.

I was pleased to see The Scientist feature institutional bridge funds. I strongly feel no research institution with a shred of integrity can get by operating without such a mechanism in place and transparent criteria for evaluating requests and distributing funds (distributive & procedural justice). These institutions gladly take the indirect costs their investigators bring in (70% at Dana Farber! and when I left another HMS teaching hospital in the late 80s, it was at … 92.3%!!! compared with a paltry 49% here at Baby It’s Cold Outside). In a cut-throat climate, they also dangle the damnedest recruitment packages to lure/buy funded researchers from other institutions. They better be ready to step up to the plate when the loyal productive PIs need help weathering the storm.

Apparently the Dana Farber will help those with scores within the 15th percentile that still weren’t funded. Baby It’s Cold Outside gives some weight to the percentile but just as much to the summary statement (some scores are outliers due to easily fixable application weaknesses rather than lack of productivity or scientific significance), the PI’s response to the critiques, and other funding sources. Budget requests must be prioritized, with students who need support in that particular lab for that particular project to finish up experiments for their thesis or dissertation receiving the highest priority. Maintaining a specialized animal model/pedigree or ensuring data collection continuity for a clinical cohort rank up there as well. Explicit reviewer requests for specific data to include in the amended application can qualify as bridge worthy. So, some strategies to consider for those of you trying to make a case for internal bridging monies at your home institution.

As discussed here last spring, NIH R56 bridge awards are also available, not via direct application by the affected PI but by recommendation of program directors and ICs. Last January, the Great Zerhouni reissued official notice of the NIH Director’s Bridge Awards. Usually program officers nominate their best & most worthy PIs without saying anything to said PI (so as not to get hopes up, especially when people’s careers are at stake in many cases) … but they shouldn’t mind if you send a quick e-mail reminding them that your A0 was really close and you could sure use a funding safety net until the A1 or A2 is awarded. Now, if your application was more than 10 percentile points above the current payline, probably not much they can do (don’t even think about asking about R56 support for an unscored application).

As I type this, it occurs to me that the case study in The Scientist was unscored but still received $50K a year for 2 years from the MGH as bridge fund grants, so clearly they have more liberal standards than the Dana Farber … or the NIGMS … as well.

Next week, I check out Life on Mars. Maybe it will look better on the red planet.

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