Category: Resources

A Roadmap for Glycoscience

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The National Research Council of the National Academies has released a report titled Transforming Glycoscience: A Roadmap for the Future. The report was sponsored by several NIH institutes, including NIGMS, along with the U.S. Food and Drug Administration, the National Science Foundation and the Department of Energy. It was prepared by the Committee on Assessing the Importance and Impact of Glycomics and Glycosciences, chaired by David Walt of Tufts University.

The committee was charged to “articulate a unified vision for the field on glycoscience and glycomics” and to “develop a roadmap with concrete research goals to significantly advance [them].”

Their major recommendations are that NIH, NSF, DOE and other relevant stakeholders place a high priority on the development of:

  • Transformative methods for the facile synthesis of carbohydrates and glycoconjuates;
  • Transformative tools for the detection, imaging, separation and high-resolution structure determination of carbohydrate structures and mixtures; and
  • Transformative capabilities for perturbing carbohydrate and glycoconjugate structure, recognition, metabolism and biosynthesis.

The report also supports the development of:

  • Robust, validated informatics tools to enable accurate carbohydrate and glycoconjugate structural prediction, computational modeling and data mining. This capability will broaden access of glycoscience data to the entire scientific community.
  • A long-term-funded, stable, integrated, centralized database that includes mammalian, plant and microbial carbohydrates and glycoconjugates and has links to other databases. The deposition of new structures using a reporting standard should be required.
  • Integration of the glycosciences into the science curriculum.

While NIGMS has a long history of investment in the glycosciences, including funding for the Consortium for Functional Glycomics glue grant and the development of methods and tools required for a full glycomics effort, the report sets an ambitious pace that would require a broad, multidisciplinary, multi-agency effort. It’s possible that the report may help guide the development of future NIH initiatives in the areas identified.

Gerald Hart, Johns Hopkins University School of Medicine and a member of the committee that prepared the report, will brief the NIGMS Advisory Council of its findings at its September meeting. NAS staff involved in developing the report will also be in attendance to respond to questions.

Biomedical Technology Resources for the Research Community

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Roughly two-thirds of the biomedical technology research and development programs formerly in the National Center for Research Resources are now part of NIGMS. Housed in the Biomedical Technology Branch of our Division of Biomedical Technology, Bioinformatics, and Computational Biology, the programs meet the needs of biomedical researchers by supporting cutting-edge research and development activities through a variety of award mechanisms.

In this post, I will focus on the Biomedical Technology Research Centers (BTRC) program, which supports the development and advancement of technologies needed to address today’s compelling biomedical research questions.

Find a BTRC:

NIGMS-Funded BTRCs
NIBIB-Funded BTRCs

The 65 national resource centers—34 are funded by NIGMS and 31 by the National Institute of Biomedical Imaging and Bioengineering—are available to scientists doing basic, translational and clinical biomedical research, providing them access to instruments, methods, software, expertise and hands-on training. With priority given to NIH-funded investigators, scientists have the opportunity to work closely and collaboratively with experts at the centers to:

  • Adapt BTRC tools to further the specific aims of their projects.
  • Contribute to the generation of pioneering technologies that can open up new research paths.

The BTRC program has been developing and providing access to state-of-the-art resources for 50 years, and it is directly responsible for such milestone innovations as:

  • The introduction of the computer into the laboratory setting.
  • The evolution of magnetic spin resonance from an observed scientific phenomenon to an analytical research tool to a clinical imaging technique.
  • The development of technologies for harnessing synchrotron radiation for biomedical research.
  • The creation of informatics approaches that allow for secure access to and sharing of huge volumes of dissimilar data.

At the half-century mark, the BTRC program remains vital and responsive to the scientific community. Ongoing centers continue to evolve and create innovative technologies, while new centers form as needs emerge.

We encourage you to take advantage of these valuable research resources. For more information about the NIGMS-funded BTRCs or other biomedical technology programs, please feel free to call 301-435-0755 or e-mail one of the following program directors:

Outsourcing Lab Procedures: What Are Your Needs and Ideas?

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Do you want to have more or easier access to state-of-the-art technologies and methodologies for your research? Are there specific types of non-clinical laboratory procedures that you wish were available through an outsourcing service?

If you answered “yes” to either of these questions, then please consider responding to our Request for Information (RFI): Priorities for Outsourcing of Laboratory Procedures. The RFI will help us identify research areas, such as assays, measurements and computational and data management tasks, that could be developed into outsourced services perhaps by small businesses and possibly supported through new funding opportunities.

Responses, which are voluntary and anonymous, should be submitted electronically (no longer available) by May 1, 2012.

UPDATE: The response deadline has been extended to May 15 (NOT-GM-12-110).

Give Input on Public Access to Publications and Data

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The Office of Science and Technology Policy has issued two requests for information (RFIs) on public access to scholarly publications and to digital data resulting from federally funded research. This input will inform working groups of the National Science and Technology Council that are developing policies on these topics.

The first RFI, Public Access to Peer-Reviewed Scholarly Publications Resulting from Federally Funded Research, deals with questions related to managing public access, protecting intellectual property interests, embargoing publications and identifying other types of peer-reviewed publications (beyond scholarly journal articles) that should be covered by public access policies. Responses will be accepted through January 2, 2012.

The second RFI, Public Access to Digital Data Resulting from Federally Funded Scientific Research, seeks input on public access to data as well as actions to ensure the long-term usefulness and preservation of the data, protect intellectual property interests and harmonize different types and sources of data. Responses will be accepted through January 12, 2012.

If you want to know more about NIH’s existing policies on these topics, a good resource is the NIH Sharing Policies and Related Guidance on NIH-Funded Research Resources Web site. The site includes information on the data sharing policy, which requires all NIH investigator-initiated applications with direct costs greater than $500,000 in any single year to provide a data sharing plan. It also links to the NIH Public Access Policy, which requires scientists to submit an electronic version of the final, peer-reviewed manuscript to PubMed Central within 12 months of the official date of publication.

New Resource for Finding and Contributing Cellular Images

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Colorized scanning electron microscope image of a nerve ending that has been broken open to reveal the synaptic vesicles (orange and blue) beneath the cell membrane.With NIGMS support through a Recovery Act grant, the American Society for Cell Biology has established The Cell: An Image Library Link to external web site. The resource is a freely accessible, easy-to-search, public repository of reviewed and annotated images, videos and animations of cells.

The goal is to create a single place where scientists—as well as educators, students and the general public—can find images of cellular structures and processes. The library currently houses more than 3,600 representative images from different organisms and cell types. You can search for specific images or browse by a number of categories.

You can use the library to:

  • Locate historical and recent images to use in slide presentations or classroom lectures,
  • Study how structures behave in a cell with the movies and animations,
  • Compare cellular structures from different organisms,
  • Generate new scientific questions based on observed characteristics, and
  • Identify potential collaborators.

The curators continue to improve the site and to add images. Plans include future collections related to diseased cells. I encourage you to draw from the library and also to submit your own images.

If you have feedback on the library, you can send it to the manager, David Orloff.

New NIH Curriculum Supplement on Evolution and Medicine

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Cover image of the NIH Curriculum Supplement on Evolution and MedicineTo help students develop a rich understanding of evolution, NIH has just published a new high school curriculum supplement, Evolution and Medicine, that includes two weeks of lessons.

I particularly like the supplement because it shows through clear, scientifically-valid examples that evolutionary biology is fundamental to understanding health and disease. For instance, a unit on lactase persistence demonstrates how variation is distributed geographically and how it’s associated with the environment. There’s a unit on influenza that focuses on the evolutionary principles underlying vaccine development, and another that explains the evolutionary rationale for using model organisms.

The supplement was produced by the NIH Office of Science Education, but many of us at NIGMS were involved in developing and reviewing it. You can see an outline and order a copy for your own use or to share with others. A version of the supplement that you can review online and a downloadable teacher’s guide are coming soon. Descriptions of and links to other curriculum supplements are also available.

Emergence of Quantitative and Systems Pharmacology: A White Paper

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Our interest in quantitative and systems pharmacology (QSP) began in 2007 as a question about why we were seeing so little integration between two fields we fund: systems biology and pharmacology. We recognized that connecting them could improve our understanding of drug action and speed drug discovery and development while also increasing our scientific understanding of biology.

To examine the potential of quantitative, systems approaches to pharmacology research, we sponsored two workshops in this area, one in 2008 and the other in 2010. After the second meeting, a committee of external scientists who were also workshop participants began drafting a white paper to assess the state of the science and enumerate the opportunities, needs and challenges for QSP as an emerging discipline.

The committee recently issued the white paper.

The paper makes the case that this post-genomic era is the right time to develop and employ quantitative, systems approaches to understand drug action more predictively, and that the need and excitement for doing so is building. Already we are starting to see evidence of this field emerging—the University of California, San Francisco, has started a Center for Quantitative Pharmacology Link to external web site, and Harvard Medical School just announced an Initiative in Systems Pharmacology. Also, the American Association of Pharmaceutical Sciences annual meeting Link to external web site this month will include a session called, “Achieving the Quantitative and Systems Pharmacology Vision.”

The overall recommendation of the workshop committee is for pharmacology to move beyond characterizing drug/target interactions to a holistic quantitative understanding of drug action across many levels—from drug-receptor interactions to drug response in humans. As stated in the paper, this will require the participation of scientists from academia and industry who work in diverse areas, including traditional pharmacology, clinical pharmacology, pharmacodynamics/pharmacokinetic modeling, systems biology, chemistry, bioinformatics, multiscale modeling and computer science. Training new and established investigators also will be a critical element.

We encourage you to read the paper and let us know what you think about its recommendations for research and training in QSP.

Expression Plasmids and Empty Vectors Available

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PSI:Biology-Materials Repository bannerGreat news for biochemists, biologists and structural biologists—more than 50,000 protein expression plasmids and almost 100 empty vectors are now available through the PSI:Biology-Materials Repository Link to external web site. This includes about 900 membrane protein plasmids, and we expect this number—plus that for human proteins—to grow in the coming months.

The repository has carefully collected, maintained and annotated these materials generated by scientists involved in the Protein Structure Initiative. In addition, it has developed and optimized the empty vectors for producing proteins in bacteria, yeast and cell-free systems. For a modest charge, you can order the plasmids and vectors from the online catalog Link to external web site.

Many of the plasmids represent proteins whose crystal structures have been determined but whose biological functions are not yet known. Search the repository Link to external web site or use the Functional Sleuth to find out if the structure of your favorite protein or a similar one has already been determined.

If you can’t locate the plasmids you need in the PSI collection, you might search the larger DNASU plasmid repository Link to external web site, which houses the PSI:Biology Materials Repository. This central repository offers plasmids from hundreds of organisms and special collections, including human kinases, the Thermotoga maritime genome and a new set of 180 glycoenzymes.

Systems Biology Center Offers Computational Course Materials

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National Centers for Systems Biology bannerIn addition to their systems-level studies of complex biological phenomena, the NIGMS-supported National Centers for Systems Biology engage in a variety of training and outreach activities. One recent example is a curriculum for first-year graduate students created by the New York Center for Systems Biology. This material introduces computational principles and approaches that are becoming increasingly important across the biomedical sciences.

If you would like to know more about this course and/or download materials such as lecture slides or problem sets, please see the Teaching Resources section (no longer available) of the September 13, 20 and 27 issues of Science Signaling.

To learn more about the systems biology centers and their offerings, visit the systems biology portal (no longer available).

Journal Essay: Perspectives of a Program Officer

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I’ve been a program officer for NIGMS research and training activities for 27 years. The Molecular Biology of the Cell journal recently asked me to describe the general roles of such a position, including the challenges and rewards. My essay Link to external web site, which appeared in the August 1 issue, offers insight into what the job entails and how we can help our applicants and grantees.

Here’s the abstract for “A View from the NIH Bridge: Perspectives of a Program Officer”:

This essay is written from my perspective as a program officer for research and training activities at the National Institute of General Medical Sciences (NIGMS) for almost 27 yr. It gives a bird’s-eye view of the job of a program officer, which includes providing advice to applicants and grantees, making funding recommendations, overseeing grantees’ progress, facilitating scientific opportunities in specific areas of program responsibility, and shaping NIGMS and National Institutes of Health (NIH) policy. I have highlighted the numerous rewards of serving as a program officer, as well as some of the difficulties. For those who may be considering a position as an NIH program officer now or in the future, I’ve also described the qualities and qualifications that are important for such a career choice. Finally, this essay addresses some of the challenges for the NIH and the research community in the years ahead as we simultaneously face exciting scientific opportunities and tighter budgets.