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The NSF and the DMP… or, the National Science Foundation’s Soon to Be Implemented Data Management Plan: How It Will Affect You & Where You Can Turn for Help

September 30th, 2010 by

In May 2010, the NSF announced that beginning on or around October 2010, a change to the current data sharing policy will be implemented.  With this change, all funding proposals must include a data management plan, in the form of a 2 page supplementary document.

I have been hard-pressed to track down any follow up information from the NSF since this announcement during the May 5th meeting of the National Science Board, until recently.  At the recent Annual External Funding Conference of the American Association of State Colleges & Universities, a representative from the NSF shared an update on the DMP (presentation can be found here:

As the existing policy currently stands, “it expects investigators to share with other researchers, at no more than incremental costs and within a reasonable amount of time, the data […] gathered in the course of the work”.1 Following the implementation of the new DMP, the (maximum) 2 page supplementary document at the end of all funding proposals:

  • Should describe how the proposal will conform to the NSF policy on the dissemination and sharing of research results.
  • May include the statement that no detailed plan is needed, provided that this statement is accompanied by a clear justification.
  • Will be reviewed as an integral part of the proposal, coming under Intellectual Merit or Broader Impacts or both, as appropriate for the scientific community of relevance.
  • Will be automatically checked by NSF’s FastLane for compliance with the DMP requirement.

The NSF plans to release an updated edition of the NSF Proposal & Award Policies & Procedures Guide in October 2010.  Of the various updates to this guide, the new DMP will be included.

So, what can you do to prepare?  Resources are available; this includes DMP templates that may assist you in creating a DMP of your own.  The Digital Curation Centre of the United Kingdom has created a template that may prove especially useful; it can be found here:

Alright…but what if your DMP is nearly complete, but you aren’t exactly sure what resources will assist you in managing your data?  The California Digital Library offers two new services that will help you with managing, sharing, preserving, and identifying your data and research content.  These services complement each other in the data and digital object management process.

  • Merritt ( is a repository service that enables users to manage, archive, and share their digital content.
  • EZID ( is a service that helps users obtain and manage long-term identifiers for their digital content.

For questions pertaining to the NSF’s new DMP, or for questions regarding creation of your data management plan, and using resources such as Merritt and EZID, please contact either the Blaisdell Medical Library (Sacramento Campus) or the Carlson Health Sciences Library (Davis Campus).  You may locate the libraries’ contact information from this link:

1.            National Science Board. Long-Lived Digital Data Collections: Enabling Research and Education in the 21st Century. Arlington; 2005. Report No.: NSB-05-40.

Faculty of 1000 changes

September 21st, 2010 by Bruce Abbott

We have had a subscription to the Faculty of 1000 Biology for several years.  They have recently made substantive changes and have added modules that previously were unavailable to us.

Off-campus access via VPN:,

See this info from the publisher:

The core service of Faculty of 1000 (F1000) identifies and evaluates the most important articles in biology and medical research publications. The selection process comprises a peer-nominated global ‘Faculty’ of the world’s leading scientists and clinicians who rate the best of the articles they read and explain their importance.

The entire content from Faculty of 1000 Biology, Medicine and The Scientist is now available to all subscribers, regardless of which product(s) you subscribed to in the past.

Visit – and then check out three of the many features and design improvements:

Main Evaluations page
F1000 Biology and F1000 Medicine have been combined and all disciplines can be searched together. You’ll notice our new rating system with the FFa (Faculty Factor – article) logo.  Coming soon: FF ratings for journals.

Evaluations with Comments functionality
Now authors, subscribers and Faculty members can comment on an article and the evaluations that have been made. In this example on jet lag and cancer, see the evaluation, a dissenting opinion, and the authors’ responding comment.

F1000 Posters prototype
We’re thrilled to present our prototype, open access repository for posters. We’ve already had hundreds of posters deposited; this page shows cell biology posters from various conferences. Click topics on the left to see more.

The site also features links to science reporting from our life-science magazine  The Scientist, alongside feature articles by and about scientists on the latest big ideas in biology and medicine. It’s the new F1000 magazine ( – which will continue to evolve!

Database for Sharing Aging Research Models D-SARM

September 20th, 2010 by Mary Wood

Research related to aging : Share or find research models

In the interest of sharing information about models used in aging research, in order to promote the sharing of resources, facilitate new research on aging in model systems, and increase the return on the investment in research models, the National Institute on Aging (NIA) recently developed D-SARM.

The Database for Sharing Aging Research Models (D-SARM) is designed to help researchers connect with one another to find research models, tissue, and data.

“If you have tissue or data from animal models relevant to aging research that you are willing to share with other investigators, this database allows you to identify the model and provides a secure, blinded email contact for investigators who would like to contact you about acquiring tissue or related resources. Investigators looking for resources from a particular model enter search terms describing the model of interest and then use the provided link to send emails to the contacts listed in the search results to initiate dialog about tissue or resources available for sharing.”

Notice Number: NOT-AG-10-009
NIA Announces Research Model Sharing Website

Affiliation Search in Scopus – School of Veterinary Medicine

September 15th, 2010 by Mary Wood

The following is a list of the 25 most recent publications from the UC Davis School of Veterinary Medicine faculty as found through SCOPUS, a large abstract and citation database of research literature. This list is generated through a SCOPUS affiliation search query.logo_Scopus

SCOPUS also offers journal analytics and author citation analytics.

For information about constructing a custom listing generated by SCOPUS, please contact us: or


Jafarzadeh, S. R., Johnson, W. O., Utts, J. M., & Gardner, I. A. (2010). Bayesian estimation of the receiver operating characteristic curve for a diagnostic test with a limit of detection in theabsence of a gold standard. Statistics in Medicine, 29(20), 2092-2106.

Textor, J. (2010). Platelets in laminitis. Journal of Equine Veterinary Science, 30(9), 506-509.

Gasiorowski, J. Z., Liliensiek, S. J., Russell, P., Stephan, D. A., Nealey, P. F., & Murphy, C. J. (2010). Alterations in gene expression of human vascular endothelial cells associated with nanotopographic cues. Biomaterials.

Ashwood, P., Krakowiak, P., Hertz-Picciotto, I., Hansen, R., Pessah, I., & Van de Water, J. (2010). Elevated plasma cytokines in autism spectrum disorders provide evidence of immune dysfunction and are associated with impaired behavioral outcome. Brain, Behavior, and Immunity,

Xavier, M. N., Silva, T. M. A., Costa, É A., Paixão, T. A., Moustacas, V. S., Carvalho Júnior, C. A., et al. (2010). Development and evaluation of a species-specific PCR assay for the detection of brucella ovis infection in rams. Veterinary Microbiology, 145(1-2), 158-164.

Sitt, T., Bowen, L., Blanchard, M. T., Gershwin, L. J., Byrne, B. A., Dold, C., et al. (2010). Cellular immune responses in cetaceans immunized with a porcine erysipelas vaccine. Veterinary Immunology and Immunopathology, 137(3-4), 181-189

Chaignat, V., Schwermer, H., Casati, S., Planzer, J., Worwa, G., Vanzetti, T., et al. (2010). Occurrence and spatial distribution of toggenburg orbivirus in switzerland. Small Ruminant Research, 93(2-3), 157-164.

Restrepo, C., Ihrke, P. J., White, S. D., Spiegel, I. B., & Affolter, V. K. (2010). Evaluation of the clinical efficacy of pradofloxacin tablets for the treatment of canine pyoderma. Journal of the American Animal Hospital Association, 46(5), 301-311.

Balhorn, R. L., Skorupski, K. A., Hok, S., Balhorn, M. C., Guerrero, T., & Rebhun, R. B. (2010). A selective high affinity ligand (SHAL) designed to bind to an over-expressed human antigen on non-hodgkin’s lymphoma also binds to canine B-cell lymphomas. Veterinary Immunology and Immunopathology, 137(3-4), 235-242.

Montiel, N. A. (2010). An updated review of simian betaretrovirus (SRV) in macaque hosts. Journal of Medical Primatology, 39(5), 303-314.

Gilman, R. T., Mathews, N. E., Skinner, B. G., Julis, V. L., Frank, E. S., & Paul-Murphy, J. (2010). Effects of maternal status on the movement and mortality of sterilized female white-tailed deer. Journal of Wildlife Management, 74(7), 1484-1491.

Eltit, J. M., Perez, C., Pessah, I. N., Allen, P. D., & Lopez, J. R. (2010). Reply to ríos: Cell boundary theorem and Ca2+ fluxes in skeletal muscle. Journal of Biological Chemistry, 285(34)

Evans, K. D., Hewett, T. A., Clayton, C. J., Krubitzer, L. A., & Griffey, S. M. (2010). Normal organ weights, serum chemistry, hematology, and cecal and nasopharyngeal bacterial cultures in the gray short-tailed opossum (monodelphis domestica). Journal of the American Association for Laboratory Animal Science, 49(4), 401-406.

Morgan, J. L., Darling, A. E., & Eisen, J. A. (2010). Metagenomic sequencing of an in vitro-simulated microbial community. PLoS ONE, 5(4), 1-10.

Krishnamoorthy, U., & Robinson, P. H. (2010). Prediction of rumen microbial N supply in bovines from dietary values of partitioning factor (PF), in vitro rate of gas production (k), neutral detergent fibre and crude protein: A brief systematic review of studies completed in bengaluru (india). Animal Feed Science and Technology,

Chhetri, B. K., Perez, A. M., & Thurmond, M. C. (2010). Factors associated with spatial clustering of foot-and-mouth disease in nepal. Tropical Animal Health and Production, 42(7), 1441-1449.

Jackson, W., Krishnamoorthy, U., Robinson, P. H., & Fadel, J. G. (2010). Effect of changing partitioning factor (PF) and in vitro rate of gas production (k) of diets on intake and digestibility, microbial N production, as well as milk production and composition, of lactating crossbred dairy cows. Animal Feed Science and Technology,

Miller, M. A., Conrad, P. A., Harris, M., Hatfield, B., Langlois, G., Jessup, D. A., et al. (2010). A protozoal-associated epizootic impacting marine wildlife: Mass-mortality of southern sea otters (enhydra lutris nereis) due to sarcocystis neurona infection. Veterinary Parasitology, 172(3-4), 183-194.

Cummings, B. P., Stanhope, K. L., Graham, J. L., Griffen, S. C., & Havel, P. J. (2010). Supplementation with EPA or fish oil for 11 months lowers circulating lipids, but does not delay the onset of diabetes in UC davis-type 2 diabetes mellitus rats. British Journal of Nutrition, , 1-7.

Westworth, D. R., & Sturges, B. K. (2010). Congenital spinal malformations in small animals. Veterinary Clinics of North America – Small Animal Practice, 40(5), 951-981.

Hsieh, J. -., Tung, K. -., Chen, W. -., Lin, J. -., Chien, L. -., Hsu, Y. -., et al. (2010). Epidemiology of bartonella infection in rodents and shrews in taiwan. Zoonoses and Public Health, 57(6), 439-446.

Blossom, J. E., Bright, J. M., & Griffiths, L. G. (2010). Transvenous occlusion of patent ductus arteriosus in 56 consecutive dogs. Journal of Veterinary Cardiology, 12(2), 75-84.

Shilo, Y., Pascoe, P. J., Cissell, D., Johnson, E. G., Kass, P. H., & Wisner, E. R. (2010). Ultrasound-guided nerve blocks of the pelvic limb in dogs. Veterinary Anaesthesia and Analgesia, 37(5), 460-470.

Chomel, B. B., & Kasten, R. W. (2010). Bartonellosis, an increasingly recognized zoonosis. Journal of Applied Microbiology, 109(3), 743-750.

Heller, M. C., Drew, C. P., Jackson, K. A., Griffey, S., & Watson, J. L. (2010). A potential role for indoleamine 2,3-dioxygenase (IDO) in rhodococcus equi infection. Veterinary Immunology and Immunopathology.

Role of Human-Animal Interaction in Child Health and Development (R03)

September 13th, 2010 by Mary Wood

R03 Request for Applications (RFA) is out for Human Animal Interactions (HAI) research co-funded by NIH and WALTHAM.

Participating Organizations
National Institutes of Health (NIH)

Components of Participating Organizations
National Institute of Child Health and Human Development (NICHD)

National Institute of Nursing Research (NINR)

“The purpose of this FOA is to establish Human-Animal Interaction (HAI) as an important field of inquiry by encouraging both basic and applied studies that focus on the interaction between humans and animals and the impact of HAI in three major areas:
(1) foundational studies of the interaction itself and its impact on typical development and health, including basic research on biobehavioral markers of suitable behavioral traits for HAI and for using domesticated companion animals as models for identifying gene-behavior associations in humans;
(2) applied studies (to include but not limited to clinical trials of the therapeutic use of animals); and
(3) population level studies of the impact of animals on public health (prevalence/incidence studies, etc.), social capital, and the cost-effectiveness of using pets/animals in reducing/p
reventing disease and disorders.”


Affiliation Search in Scopus – UCD Health System

September 7th, 2010 by Mary Wood

The following is a list of the 20 most recent publications from the UC Davis Health System faculty as found through SCOPUS, a large abstract and citation database of research literature and quality web sources. This list is generated through a SCOPUS affiliation search query.

SCOPUS also offers journal analytics and author citation analytics.logo_Scopus

For information about constructing a custom listing generated by SCOPUS, please contact us: or

Interim Guidelines for Animal Health and Control of Disease Transmission in Pet Shelters

September 3rd, 2010 by Bruce Abbott

These Interim Guidelines have been developed by consultation between the American Veterinary Medical Association and the U.S. Centers for Disease Control and Prevention and are advisory in nature. These are guidelines for animals arriving at shelters as a result of a natural disaster.

The guidelines are available from:

It includes guidance on:

  • animal health history
  • examinations and identification
  • animal health management
  • prevention and treatment of zoonotic and nosocomial diseases
  • facility management
  • safe handling of exotic animals

Interim Guidance on Health and Safety Hazards When Working with Displaced Domestic Animals

September 3rd, 2010 by Bruce Abbott

The National Institute for Occupational Safety and Health (NIOSH) has recently updated its interim guidelines for workers who are performing animal rescue and recovery efforts in response to hurricanes.  These were originally developed in response to Hurricanes Katrina and Rita.

The guideline can be found here:

The guideline addresses these potential health and safety hazards for those working with displaced domestic animals:

  • Animal Bites and Scratches
  • Rabies and Other Zoonoses
  • Sharps-Related Injuries
  • Heavy Lifting
  • Dermatologic Conditions
  • Animal Allergens
  • Latex Allergy
  • Noise
  • Pesticide Exposure

Additionally the website lists other guidelines and resources that are related, including guidelines for shelters taking in displaced animals.

JCR, Impact Factors, and EHP…

September 3rd, 2010 by Mary Wood

The current issue of the online open access NIEHS journal Environmental Health Perspectives includes the journal’s impact factor, along with a bold claim, on the front page :

6.19 Impact Factor : Top monthly journal in public, environmental, and occupational health

Looking in Journal Citation Reports (JCR), sorted by Impact Factor within the subject category “Public, Environmental, and Occupational Health”, EHP actually appears 4th.  The publication details in JCR explain how EHP earned the right to claim the title of “top monthly journal…”:  Epidemiol Rev is issued 1/yr ; WHO Tech Rep 6/yr ; Ann Rev Publ Health 1/yr ; and EHP … 12/year.



JCR provides more information than just the Impact Factor, some of which is seen in the screenshot above, allowing comparisons between publications beyond a single number.  Additional information such as Self-Cites and Impact Factor Trends, and graphs such as Cited Journal and Citing Journal, are readily created for each journal.   JCR even mentions the Eigenfactor and Article Influence scores, offering alternative methods of assessing and tracking the influence of a journal.

Environmental Health Perspectives is a well respected peer-reviewed multi-disciplinary publication; according to Ulrichs,  EHP is indexed in just about every possible source, including PubMed, Exerpta Medica, Biosis, and CAB.   In response to their self-advertised impact factor, EHP is used here as a JCR example.  Please contact us if you have any questions or are curious about this journal citation resource: or