This award is for a Science and Technology Center devoted to the emerging area of nanobiotechnology that involves a close synthesis of nano-microfabrication and biological systems. The Nanobiotechnology Center (NBTC) features a highly interdisciplinary, close collaboration between life scientists, physical scientists, and engineers from Cornell University, Princeton University, Oregon Health Sciences University, and Wadsworth Center of the New York State Health Department. The integrating vision of the NBTC is that nanobiotechnology will be the genesis of new insights into the function of biological systems, and lead to the design of new classes of nano- and microfabricated devices and systems. Biological systems present a particular challenge in that the diversity of materials and chemical systems for biological applications far exceeds those for silicon-based technology in the integrated-circuit industry. New fabrication processes appropriate for biological materials will require a substantial expansion in knowledge about the interface between organic and inorganic systems. The ability to structure materials and pattern surface chemistry at small dimensions ranging from the molecular to cellular scale are the fundamental technologies on which the research of the NBTC is based. Nanofabrication can also be used to form new analytical probes for interrogating biological systems with unprecedented spatial resolution and sensitivity. Three unifying technology platforms that foster advances in materials, processes, and tools underlie and support the research programs of the NBTC: Molecules of nanobiotechnology; Novel methods of patterning surfaces for attachment of molecules and cells to substrates; and Sensors and devices for nanobiotechnology. Newly developed fabrication capabilities will also be available through the extensive resources of the Cornell Nanofabrication Facility, a site of the NSF National Nanofabrication Users Network. The NBTC will be an integrated part of the educational missions of the participating institutions. NBTC faculty will develop a new cornerstone graduate course in nanobiotechnology featuring nanofabrication with an emphasis on biological applications. Graduate students who enter the NBTC from a background in engineering or biology will cross-train in the other field by engaging in a significant level of complementary course work. Participation in the NBTC will prepare them with the disciplinary depth and cross-disciplinary understanding to become next generation leaders in this emerging field. An undergraduate research experience program with a strong mentoring structure will be established, with emphasis on recruiting women and underrepresented minorities into the program. Educational outreach activities are planned to stimulate the interest of students of all ages. One such activity partnered with the Science center in Ithaca is a traveling exhibition for museum showings on the subject of nano scale size. National and federal laboratories and industrial and other partners will participate in various aspects of the NBTC such as by hosting interns, attendance at symposia and scientist exchanges. Partnering with the industrial affiliates will be emphasized to enhance knowledge transfer and student and postdoctoral training. This specific STC award is managed by the Directorate for Engineering in coordination with the Directorates for Biological Sciences, Mathematical and Physical Sciences, and Education and Human Resources.
This collaborative project aims to establish a national computational resource to move the research community much closer to the realization of the goal of the Tree of Life initiative, namely, to reconstruct the evolutionary history of all organisms. This goal is the computational Grand Challenge of evolutionary biology. Current methods are limited to problems several orders of magnitude smaller, and they fail to provide sufficient accuracy at the high end of their range. The planned resource will be designed as an incubator to promote the development of new ideas for this enormously challenging computational task; it will create a forum for experimentalists, computational biologists, and computer scientists to share data, compare methods, and analyze results, thereby speeding up tool development while also sustaining current biological research projects. The resource will be composed of a large computational platform, a collection of interoperable high-performance software for phylogenetic analysis, and a large database of datasets, both real and simulated, and their analyses; it will be accessible through any Web browser by developers, researchers, and educators. The software, freely available in source form, will be usable on scales varying from laptops to high-performance, Grid-enabled, compute engines such as this project's platform, and will be packaged to be compatible with current popular tools. In order to build this resource, this collaborative project will support research programs in phyloinformatics (databases to store multilevel data with detailed annotations and to support complex, tree-oriented queries), in optimization algorithms, Bayesian inference, and symbolic manipulation for phylogeny reconstruction, and in simulation of branching evolution at the genomic level, all within the context of a virtual collaborative center. Biology, and phylogeny in particular, have been almost completely redefined by modern information technology, both in terms of data acquisition and in terms of analysis. Phylogeneticists have formulated specific models and questions that can now be addressed using recent advances in database technology and optimization algorithms. The time is thus exactly right for a close collaboration of biologists and computer scientists to address the IT issues in phylogenetics, many of which call for novel approaches, due to a combination of combinatorial difficulty and overall scale. The project research team includes computer scientists working in databases, algorithm design, algorithm engineering, and high-performance computing, evolutionary biologists and systematists, bioinformaticians, and biostatisticians, with a history of successful collaboration and a record of fundamental contributions, to provide the required breadth and depth. This project will bring together researchers from many areas and foster new types of collaborations and new styles of research in computational biology; moreover, the interaction of algorithms, databases, modeling, and biology will give new impetus and new directions in each area. It will help create the computational infrastructure that the research community will use over the next decades, as more whole genomes are sequenced and enough data are collected to attempt the inference of the Tree of Life. The project will help evolutionary biologists understand the mechanisms of evolution, the relationships among evolution, structure, and function of biomolecules, and a host of other research problems in biology, eventually leading to major progress in ecology, pharmaceutics, forensics, and security. The project will publicize evolution, genomics, and bioinformatics through informal education programs at museum partners of the collaborating institutions. It also will motivate high-school students and college undergraduates to pursue careers in bioinformatics. The project provides an extraordinary opportunity to train students, both undergraduate and graduate, as well as postdoctoral researchers, in one of the most exciting interdisciplinary areas in science. The collaborating institutions serve a large number of underrepresented groups and are committed to increasing their participation in research.
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TEAM MEMBERS:
Tandy WarnowDavid HillisLauren MeyersDaniel MirankerWarren Hunt, Jr.
The "Salmon Research Team: A Native American Technology, Research and Science Career Exposure Program" is a three-year, youth-based ITEST project submitted by the Oregon Museum of Science and Industry. The project seeks to provide advanced information technology and natural science career exposure and training to 180 middle level and high school students. Mostly first-generation college-bound students, the target audience represents the Native American community and those with Native American affiliations in reservation, rural and urban areas. Students will investigate computer modeling of complex ecological, hydrological and geological problems associated with salmon recovery efforts. Field experiences will be provided in three states: Oregon, Washington and northern California. The participation of elders and tribal researchers will serve as a bridge between advanced scientific technology and traditional ecological knowledge to explore sustainable land management strategies. Students will work closely with Native American and other scientists and resource managers throughout the Northwest who use advanced technologies in salmon recovery efforts. Student participation in IT-dependent science enrichment and research activities involving natural science fields of investigation will occur year round. Middle school students are expected to receive at least 330 contact hours including a one-week summer research experience, a one-week spring break program, and seven weekends of residential programs during the school year. The high school component consists of 460 contact hours reflecting one additional week for the summer research experience. In addition to watershed and salmon recovery related research, students will be involved in other ancillary research projects. A vast array of partners are positioned to support the field research experience including, for example, the U.S. Department of the Interior, Redwood National State Park, College of Natural Resources and Sciences at Humboldt State University, Confederated Tribes of the Warm Springs, University of Oregon Institute of Marine Biology, University of Washington Columbia Basin Research project, the Northwest Center for Sustainable Resources at Chemeketa Community College and the Integrated Natural Resource Technology program at Mt. Hood Community College. The project is intended to serve as a model for IT-based youth science programs that address national and state education standards and are relevant to the cultural experience of Native American students. Two mentors will provide continued support to students: an academic mentor at the student's schools and a professional mentor from a local university or natural resource agency. Incentives will be provided for student participation including stipends and internships. Career exposure and work-related skills are integrated throughout the project activities and every program component. Creative strategies are used to encourage family involvement including, for example, salmon bakes and museum discounts.
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TEAM MEMBERS:
Travis Southworth-NeumeyerDaniel Calvert
The "Environmental Science Information Technology Activities (ESITA)" based at the Lawrence Hall of Science (LHS) at UC-Berkeley is a three-year, youth-based proposal that seeks to engage 144 inner-city ninth and tenth graders in learning experiences involving environmental science and information technology. The goal of the project is to develop, field-test, and disseminate an effective student-centered, project-based model for increasing understanding and interest in information technology. Program components included an afterschool program, summer enrichment and an internship program. An extensive partnership involving community based agencies, environmental science organizations, a local high school and industry support the project by serving as host sites for the afterschool program and internship component. Student participation in project-based, IT-dependent research activities related to environmental science will occur year round. Students will research air and water quality in their local communities and study attitudes toward -- and use of -- information technology among their peers. The focus of the research activities is based on the results of a students-needs assessment. Students participate in the program over a two-year period and are expected to receive at least 240 total contact hours. The afterschool program serves as the project's principal mechanism for content delivery. The five-month afterschool program consists of inquiry-based mini-courses on the following topics: Information Technology tools and concepts, earth and physical science, data compilation and modeling, and publication of research results. The summer enrichment component encompasses a series of workshops at LHS; excursions to IT-related exhibits, environmental facilities, and IT-based companies; and an annual student robotics fair. During the second year of program participation students will complete 12-month internships to support the application of concepts and skills learned the first year. The LHS Student Geoscience Research Opportunities program will serve as a model host site for the program. Stipends are provided throughout the program to encourage student participation and retention.
Ways of Knowing, Inc. is producing two one-hour film documentarties for public television on the origin, nature and history of writing. "The Writing Project" (working title) is about the study of writing as a technology. The goal of the films is to explain how writing systems work and to make people aware of the importance of writing in societies. The programs will address what reading and writing is, how writing was invented and how it is used in dozens of different systems around the world. The focus is on the diversity, yet sameness, of writing systems and on the grand variety of its uses. The target audience is the PBS television audience, with follow-up educational viedocassette distribution to schools and colleges to be used as an introduction to linguistics "basic text." The program's outreach will be enhanced by a companion website and book.
Twin Cities Public Television, in association with Red Hill Studios, is producing and disseminating an Exploring Time television special and associated outreach material. The project will augment and leverage the Exploring Time traveling exhibit now being developed by the Science Museum of Minnesota (NSF grant #99-01919). The goal of both the exhibit and the television special is to increase the public's understanding of our world by revealing the unseen world of natural change -- the multitude of changes that are occurring in the present but at rates too slow or too fast to be seen. The television special will provide visual explorations of changes that take place over a vast range of timescales -- from billionths of seconds to billions of years. The television series and exhibit will be supplemented by a range of materials. Both low- and high-bandwidth, web-based material will be available and a teacher's guide will be developed for middle school classrooms. A "Time Explorers Toolkit" will be available to both formal and informal learners. This CD-ROM includes detailed, step-by-step instructions on how to create time-lapse movies. The project also will coordinate outreach with the Community Technology Centers Network, the organization that supports technology centers that serve individuals from underrepresented and low-income groups.
The University of Oregon, Eugene, is producing "Absolute Zero and the Conquest of Cold," a three-hour television documentary series about the field of low-temperature physics, the field in which one-third of all physicists are working today. The series explores key concepts, significant individuals and events in the field's turbulent history, and the enormous impact that the mastery of cold has had on society through technologies such as air-conditioning, refrigeration and liquefied gases. The film, based in large part on Tom Shachtman's book of the same name, will document how four centuries of research into lower temperatures has produced stunning scientific insights and applications that have revolutionized the world we live in. Planned outreach includes public programs, museum activities, and an interactive web site. The PI's for the project are Russell Donnelly of the University of Oregon, Richard Hudson of Twin Cites Public Television, and Meredith Burch of Meridian/Windfall Productions, Inc. Other key staff members include Thomas Shachtman, author of the book upon which the series is based; David Dugan, Co-Producer/Director of Windfall Films; David Heil of David Heil and Associates; Barbara Flagg of Multimedia Research; and Irene Goodman, of Goodman Research Group.
Seeing in the Dark will be a prime-time PBS special about stargazing -- described in the proposal as "the interaction between starlight and human beings who have a look for the love of it, whether just learning the constellations or doing amateur astronomy so advanced that it sometimes rivals professional research." The project teaches "hands-on" astronomy drawing heavily on new technology (large, inexpensive "Dobsonian" telescopes; charged-coupled light-sensing devices [CCDs}; and the Internet) that make astronomical observing practical for millions to whom it has previously been at best a remote possibility. The video will be supported by an extensive outreach effort that includes informal, family projects and formal, in-class exercises. The Astronomical Society of the Pacific will be a major outreach partner. There also is a companion book, "Seeing in the Dark," published by Simon & Schuster.