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 Museum of Science in Boston will develop exhibits and programs for visitors to use models as tools for understanding the world around them. It is the 4th stage of a six-part, long-range vision and plan that focuses on comprehending science as a way of thinking and doing. "Making Models" will serve over one million visitors per year, mostly families and school groups. The models to be featured include physical, biological, conceptual, mathematical, and computer simulation models. Four (4) specific science inquiry skills will be stressed, which are associated with making and using models: recognition of similarities, assessment of limitations, communication of ideas, and the creation of one's own models for developing personal understanding and appreciation of the world in which we live. In tandem with this new exhibit, some current exhibits and programs will be modified to meet these modeling goals. Demonstrating the application of these new exhibit techniques for other museums and science centers, and evaluating how visitors learn in this setting will also be performed, with the results disseminated on a national level. The Museum will collaborate with two (2) other nationally known sites in this development and evaluation of exhibit components, creation of new teacher development programs, and the development of models-related web resources.
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TEAM MEMBERS:
Douglas SmithLarry BellPaul Fontiane
The St. Louis Science Center, in collaboration with the City College of New York and the Science Museum of Minnesota, will combine their considerable expertise with youth programs to create new opportunities for after-school STEM learning. Teens, ages 14-17, currently participating in the "Youth Exploring Science" program at the St. Louis Science Center and the Youth Science Center at the Science Museum of Minnesota will receive intensive training to prepare them to assume the role of lead designers of Learning Places that will be created in nine-after school programs in St. Louis and St. Paul. "Learning Places" are educational environments supported by hands-on activities and innovative strategies that integrate science, mathematics and technology into after-school programs. In the final year of the grant the project will be disseminated to five museums across the US including the Pacific Science Center (Seattle, WA), Headwaters Science Center (Bemidji, MN), Explora (Albuquerque, NM), and Sciencenter (Ithica, NY). Youth program staff, and staff and administrators in after-school programs and partnering museums will also benefit from training and professional development. Deliverables include 27 "Learning Places," a teen training program, a Resource Guide for implementation and research contributions to the field.
Children's Discovery Museum of San Jose, CA, will develop a three-pronged project called "Round and Round" focused on the geometry, science and technology of circles and wheels. All three project products (one permanent and one traveling version of a 2000-sq. ft. exhibition; an array of complementary educational programs for children ages 3-10; and published research on patterns of interactions among families of diverse backgrounds in museum settings) will be developed in cooperation with developmental psychologists from the University of California at Santa Cruz and advisors from Latino and Vietnamese communities in San Jose. "Round and Round" exhibits and programs will offer a trans-cultural, gender-neutral, and multi-disciplinary look at the ingenuity and ubiquity of circles. Together they will provide a comprehensive array of interactive experiences that help children, ages 3-10, and adults explore the mathematics, physics, physical properties and engineering advantages of circles and wheels. The project is expected to serve three million visitors in science and children's museums across the nation within four years of implementation.
WGBH Educational Foundation is requesting funds to produce 20 new shows and new outreach and Web activities for "ZOOM," which will be renamed "Hot Seat." "Hot Seat" is a daily half-hour PBS television series targeted to kids ages 8 to 11. Uniquely by and for kids, the program gives its viewers a chance to explore, to experiment and to share their creativity. The series, along with its far-reaching outreach, offers its audience an innovative curriculum that promotes the acquisition of basic math and science knowledge and the development of problem solving skills called "Habits of Mind." The intended impacts are to: (1) establish a project that uniquely integrates television, the Web and outreach as a model for how media can teach science and math; (2) engage kids and teach them science and math content and process skills; (3) provide curriculum and professional development to organizational partners. Innovation includes developing three new content areas for the series -- Invention, Space Science and Earth Science -- and evolving the project design by incorporating new production techniques that enhance the "reality factor" of the science programming. Outreach for the project will include printed materials for kids, families and educators. A new collaborative partnership is being developed with the American Library Association to help distribute the new afterschool curricula to librarians across the country. "Hot Seat" will support the existing network of "ZOOM" outreach partners and convert the museum "ZOOMzones" to "Hot Seat Spots." "ZOOM" currently is carried by 269 public broadcasting stations and is viewed by 4 million children each week.
The Ft. Worth Museum of Science and History will develop "Texas Dinosaurs: How Do We Know? -- Regional Dissemination of Science Inquiry Exhibits and Educational Programs on Paleontology." This will be a major permanent and portable exhibition project that will be accompanied by an array of educational programs for formal and informal audiences throughout Texas. The permanent 12,000 sq. ft. exhibit, "Texas Dinosaurs: How Do We Know?", will recreate field and laboratory processes of paleontological research in an inquiry approach to public learning in geology, biology, ecology and mathematics. Portable versions of the exhibit will be distributed to the Dinosaur Valley State Park in Glen Rose, the Texas Parks and Wildlife Headquarters, the Panhandle-Plains Historical Museum in Canyon, the Science Spectrum in Lubbock, the McAllen International Museum, and the El Paso Insights Science Museum -- all in Texas. Regional dissemination of "How Do We Know?" exhibits and educational programs and materials will reach at least 1.5 million people annually, including isolated rural communities in the large geographic region of Texas.