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 X-Tech program will bring together the Exploratorium and staff at five Beacon Centers to create an innovative technology program using STEM and IT activities previously tested at the Exploratorium. At each X-Tech Club, two Beacon Center staff and two Exploratorium Youth Facilitators will work with 20 middle school students each year for a total of 300 participants. Youth Facilitators are alumni of the Exploratorium's successful Explainer program and will receive 120 hours of training in preparation for peer mentoring. Each site will use the X-Tech hands-on curriculum that will focus on small technological devices to explore natural phenomenon, in addition to digital imaging, visual perception and the physiology of eyes. Parental involvement will be fostered through opportunities to participate in lectures, field trips and open houses, while staff at Beacon Centers will participate in 20 hours of professional development each year.
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TEAM MEMBERS:
Vivian AltmannDarlene LibreroVirginia WittMichael Funk
The Take Two Institutional Research Study was an ethnographic case study of the contributions of Web 2.0 philosophy and technologies to museum practice and staff development at the Museum of Life and Science in Durham, North Carolina. It used a naturalistic methodology to investigate staff members' relationships with each other and their publics as the Museum developed and embraced a philosophy of Web 2.0 experimentation, shared authority, and co-creation. An important element in developing Web 2.0 culture at the Museum of Life and Science was leadership that encouraged experimentation and
Media MashUp (MMU) was an IMLS funded project (LG-07-08-0113 ) designed to help libraries build capacity for offering computer-based programs for youth. These programs were designed to help foster 21st Century literacy skills. The program focused on the Scratch programming language (http://scratch.mit.edu/), but also used other creative freeware programs (i.e., Audacity, Picasa, SAM animation, ArtRage). MMU was a partnership among six library systems from around the country and The Science Museum of Minnesota. Three staff members from each library participated in the program: two librarians or
The Media MashUp project is funded by the IMLS (Grant LG-07-08-0113 ) to build capacity at libraries for computer-based programs for youth that help build 21st Century literacy skills. Twenty first Century literacy skills include interactive engagement with technology, collaboration and team problem solving, taking initiative and managing time and the use of higher level processing skills (www.21stcenturyskills.org/). This project uses the Scratch programming platform (http://scratch.mit.edu/) developed at MIT to help foster youth's 21st Century literacy skills. The professional audience
For document visualization, folding techniques provide a focus-plus-context approach with fairly high legibility on flat sections. To enable richer interaction, we explore the design space of multi-touch document folding. We discuss several design considerations for simple modeless gesturing and compatibility with standard Drag and Pinch gestures. We categorize gesture models along the characteristics of Symmetric/Asymmetric and Serial/Parallel, which yields three gesture models. We built a prototype document workspace application that integrates folding and standard gestures, and a system for
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TEAM MEMBERS:
Patrick ChiuChunyuan LiaoFrancine Chen
resourceresearchProfessional Development, Conferences, and Networks
These reports were delivered on day three at the conclusion of the Citizen Science Toolkit Conference at the Cornell Lab of Ornithology in Ithaca, New York on June 20-23, 2007. The reports summarize the discussions that took place in five separate breakout groups, which met periodically throughout the conference to focus on key Citizen Science themes and topics that emerged during conference presentations and plenary discussions.
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TEAM MEMBERS:
Cornell Lab of OrnithologyCatherine McEverNolan DoeskenGeoff LeBaronSarah KirnRebecca JordanMaureen McConnell
resourceresearchProfessional Development, Conferences, and Networks
This discussion was held during the final plenary session on day three of the Citizen Science Toolkit Conference at the Cornell Lab of Ornithology in Ithaca, New York on June 20-23, 2007. Topics discussed include citizen science as a new field or discipline, the science role that citizen scientists play, next steps, issues to consider, suggestions, and developing (or not) a shared data infrastructure.
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TEAM MEMBERS:
Cathy McEverCornell Lab of Ornithology
resourceprojectProfessional Development, Conferences, and Networks
Rhode Island Information Technology Experiences for Students and Teachers (RI-ITEST) is a comprehensive ITEST project for high school students and teachers. The goal of RI-ITEST is to prepare students from diverse backgrounds for careers in information technologies by engaging them in exciting, inquiry-based learning activities that use sophisticated computational models in support of a revolutionary science curriculum. It advances science education by enhancing the Physics First initiative in Rhode Island through the use of NSF funded student materials based on molecular modeling and promotes IT education by teaching modeling skills and providing students with career and vocational information on the use of computational models. The project provides over 120 hours of credit-bearing activities for 100 teachers and full support for classroom implementation. RI-ITEST is developing an optimal placement of the interactive materials from CC's Science of Atoms and Molecules project in the Physics First courses in Rhode Island; developing IT materials that are coordinated with the student materials that emphasize modeling skills and the career and vocational dimensions of computational modeling; preparing100 diverse Rhode Island science teachers in two cohorts to offer a course in the Physics-Chemistry-Biology sequence; developing materials and supports for using molecular dynamics and related IT materials for teachers in Rhode Island and elsewhere who are not ITEST participants; generating evidence for the effectiveness of the IT-enhanced project materials for increasing student learning and changing student attitudes about science, mathematics, and technology careers; reaching parents, guidance counselors, school administrators, and business partners with information about the project, student productions, and evidence for effectiveness; disseminating materials and findings to other teachers, programs, and districts nationwide.
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TEAM MEMBERS:
Daniel DamelinGerald KowaiczykJames Magyar
This proposal calls for development, over five years, of a national, interactive, telecommunications-supported Network of 85 or more affiliated neighborhood technology learning centers in inner cities and other impoverished areas, for the purpose of attracting, and then nurturing underserved peoples' active involvement with math, science, and technology. Network affiliates will provide informal opportunities for disadvantaged minority young people and their families and friends to get access to, and learn to use, the most powerful tool for personal empowerment yet known, to engage in explorations designed to increase awareness of their ability to do math and science and of the potential for careers in these areas, and, through telecommunications, to involve themselves with distant peer groups in collaborative investigations. Such opportunities present attractive and cost-effective alternatives to the dead ends that street life, drugs, incarceration, and/or welfare offer. Success in achieving these goals depends, however, on the availability of continuing programmatic and staff development assistance, and on the ability of Network members to engage, not as disparate entities, but as a mutually supportive community, in this momentous task. Proposed Network services include (in addition to telecommunications linkages) the identification, development, and dissemination of technology-mediated math and science activities appropriate to community education, consultative planning and technical assistance, staff development workshops, the development of a resource database, and an annual all-affiliates meeting -- all these to be accompanied by systematized self-assessment procedures. Also included is the development of a Network infrastructure to support continued existence of the Network beyond the grant period.
Maine is a rural state with unequal access to computers and information technology. To remedy this, the Maine laptop program supplies iBooks to every seventh and eighth grade student in the state. The goal of EcoScienceWorks is to build on this program and develop, test and disseminate a middle school curriculum featuring computer modeling, simple programming and analysis of GIS data coupled with hands-on field experiences in ecology. The project will develop software, EcoBeaker: Maine Explorer, to stimulate student exploration of information technology by introducing teachers and students to simple computer modeling, applications of simulations in teaching and in science, and GIS data manipulation. This is a three-year, comprehensive project for 25 seventh and eighth grade teachers and their students. Teachers will receive 120 contact hours per year through workshops, summer sessions and classroom visits from environmental scientists. The teachers' classes will field test the EcoScienceWorks curriculum each year. The field tested project will be distributed throughout the Maine laptop program impacting 150 science teachers and 17,000 middle school students. EcoScienceWorks will provide middle school students with an understanding of how IT skills and tools can be used to identify, investigate and model possible solutions to scientific problems. EcoScienceWorks aligns with state and national science learning standards and integrates into the existing middle school ecology curriculum. An outcome of this project will be the spread of a field tested IT curriculum and EcoBeaker: Maine Explorer throughout Maine, with adapted curriculum and software available nationally.
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TEAM MEMBERS:
Walter AllanEric KlopferEleanor Steinberg
The Cryptoclub: Cryptography and Mathematics Afterschool and Online is a five-year project designed to introduce middle school students across the country to cryptography and mathematics. Project partners include the Young Peoples Project (YPP), the Museum of Science and Industry in Chicago, and Eduweb, an award-winning educational software design and development firm. The intended impacts on youth are to improve knowledge and interest in cryptography, increase skills in mathematics, and improve attitudes towards mathematics. The secondary audience is leaders in afterschool programs who will gain an increased awareness of cryptography as a tool for teaching mathematics and adopt the program for use in their afterschool programs. Project deliverables include online activities, online cryptography adventure games, interactive offline games, a leader\'s manual, and training workshops for afterschool leaders. The project materials will be developed in collaboration with YPP staff and pilot tested in Year 3 at local afterschool programs and YPP sites in Chicago in addition to four national sites. Field testing and dissemination occurs in Year 4 at both local sites in Chicago and national locations such as afterschool programs, science centers, and community programs. Six 3-day training workshops will be provided (2 per year in Years 3-5) to train afterschool leaders. It is anticipated that this project will reach up to 11,000 youth, including underserved youth in urban settings, and 275 professional staff. Strategic impact resulting from this project includes increased awareness of cryptography as a STEM topic with connections to mathematics as well a greater understanding of effective strategies for integrating and supporting web-based and offline activities within informal learning settings. The Cryptoclub project has the potential to have a transformative impact on youth and their understanding of cryptography and may serve as a national model for partnerships between afterschool and mentoring programs.
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TEAM MEMBERS:
Janet BeissingerSusan GoldmanDaria TsoupikovaBonnine Saunders