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 National Center for Earth-surface Dynamics (NCED) is a Science and Technology Center focused on understanding the processes that shape the Earth's surface, and on communicating that understanding with a broad range of stakeholders. NCED's work will support a larger, community-based effort to develop a suite of quantitative models of the Earth's surface: a Community Sediment Model (CSM). Results of the NCED-CSM collaboration will be used for both short-term prediction of surface response to natural and anthropogenic change and long-term interpretation of how past conditions are recorded in landscapes and sedimentary strata. This will in turn help solve pressing societal problems such as estimation and mitigation of landscape-related risk; responsible management of landscape resources including forests, agricultural, and recreational areas; forecasting landscape response to possible climatic and other changes; and wise development of resources like groundwater and hydrocarbons that are hosted in buried sediments. NCED education and knowledge transfer programs include exhibits and educational programs at the Science Museum of Minnesota, internships and programs for students from tribal colleges and other underrepresented populations, and research opportunities for participants from outside core NCED institutions. The Earth's surface is the dynamic interface among the lithosphere, hydrosphere, biosphere, and atmosphere. It is intimately interwoven with the life that inhabits it. Surface processes span environments ranging from high mountains to the deep ocean and time scales from fractions of a second to millions of years. Because of this range in forms, processes, and scales, the study of surface dynamics has involved many disciplines and approaches. A major goal of NCED is to foster the development of a unified, quantitative science of Earth-surface dynamics that combines efforts in geomorphology, civil engineering, biology, sedimentary geology, oceanography, and geophysics. Our research program has four major themes: (1) landscape evolution, (2) basin evolution, (3) biological sediment dynamics, and (4) integration of morphodynamic processes across environments and scales. Each theme area provides opportunities for exchange of information and ideas with a wide range of stakeholders, including teachers and learners at all levels; researchers, managers, and policy makers in both the commercial and public sectors; and the general public.
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TEAM MEMBERS:
Efi Foufoula-GeorgiouChristopher PaolaGary Parker
resourceprojectProfessional Development, Conferences, and Networks
The Center for Informal Learning and Schools (CILS) is a five-year collaborative effort between the Exploratorium in San Francisco, the University of California at Santa Cruz, and King's College London. The purpose of the Center is to study the intersection of informal science learning that takes place in museums and science centers and formal learning that takes place in schools, and to prepare leaders in informal science education. Through the efforts of the center, new doctoral level leaders will be prepared who understand how informal science learning takes place and how informal institutions can contribute to science education reform. A Ph.D. program will be offered to 16 individuals at King's College London (two cohorts of eight) and a post-doctoral program to six scientists interested in issues of learning and teaching in informal settings. A doctoral program is planned at the University of California at Santa Cruz for 24 students, 12 whose interests are primarily in education and 12 who come from the sciences. In addition to doctoral level training, there will be a certification program for existing informal science professionals to better enable them to support teachers, students and the general public. That program will provide 160 informal science educators 120 hours of professional development experiences, and an additional 24 informal science educators with a master's degree in informal science education at UC Santa Cruz. A Bay Area Institute will be developed to serve as a central focus for all CILS activities. It will bring together researchers and practitioners; it will offer courses and workshops for graduate students; and it will provide a central location for reporting research findings and methodologies that focus on how informal learning institutions can best contribute to science education reform.
This CAREER grant interweaves research and teaching focused on understanding how social groups construct meaning during scientific conversations across different learning contexts, such as classrooms, museums and the home. This work will be translated into formal educational settings and used to inform teaching practices within pre-service University and in-service school district settings. The research and educational emphasis will be on creating conceptual links between social learning in diverse settings and the creation of corridors of opportunity between formal and informal learning institutions. To date there has been little research with families from cultural and linguistic minority populations, such as Latino families, at informal learning settings and virtually none that integrates formal and informal learning, or impacts teaching. The five-year project will: 1. Conduct Study 1, aimed at making fundamental cross-cultural comparisons of family conversational meaning making at the Monterey Bay Aquarium and linking this work with family interviews, reflective conversations and visits to family homes; 2. Review the theoretical framework and conduct Study 2, which will incorporate lessons learned from Study 1, and linking this research to formal classrooms; and 3. Use the findings (at each stage) to inform teaching practice with UCSC undergraduate (Science majors) and graduate (Science credential, MA and Ph.D.) students, and, in collaboration with teacher research groups for new and experienced teacher in schools that serve predominantly Latino students. This research plan provides an opportunity for viewing several inter-connected mechanisms, including family interactions and conversations, compelling science content, naturalistic learning in museum settings, and, finally, analyzing these factors in order to inform teaching practices that promote bilingual minority students to the rank of scientists.
The Vermont Center for the Book is developing "Mother Goose Cares about Math and Science," an integrated curriculum of science process skills and standards-based mathematics concepts for preschool children. A college credit course will be developed for childcare providers based on this curriculum. The course increases science and math literacy and the ability to incorporate NCTM standards, and science process skills, into daily interactions with children. Participants are also provided with the tools to communicate the importance of these concepts to parents. The course will be delivered to 600 childcare workers in Vermont and inner-city Philadelphia over a three-year period. Recruitment will include providers in center-, home- and school-based settings in both urban and rural communities. Participants will be provided with books, Curriculum Guides, tools and manipulatives needed to implement the course pedagogy. Materials to be developed include a seven-segment training, which will be used to disseminate the project nationally. Participants will receive a comprehensive training package that can be used to train their peers.
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TEAM MEMBERS:
Sally AndersonGregory DeFrancis
resourceprojectProfessional Development, Conferences, and Networks
This is a two-year planning project that will support planning activities to provide a basis for further STEM education reform in the Greater Mohawk Valley of New York. These include different workshops for school administrators and teachers preparing them to support student research and venues for students to present the results of their research. Perhaps even more importantly it will provide an alternative path for assessment of districts' STEM educational goals. The 25 years of Utica College's support and programming of student research activities will provide a rich background for assessment of the effectiveness of student learning in science, mathematics and technology through such activities.