Cabig tools

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As we move forward with caBIG deployment and development efforts, it will be beneficial to have a test framework where applications and services that expand the functionality of the existing infrastructure can be explored without impacting other production or development efforts.

The caBIG infrastructure can be deployed to form "local grids" which meet a variety of needs. In order to facilitate our exploration of caBIG many software components will need to be installed, maintained, and manipulated. In order to keep this process managable and to construct a scalable infrastructure, we will extensively leverage virtualization. The first step in this process is the construction a caGrid virtual machine VM that is pre-configured with core infrastructure components in place.

The caGrid install page is a rough guide to the installation steps and configration of this platform. An instance of this development platform is being hosted in the lab with a public IP address so full integration with the caGrid test infrastructure can be explored, see the developer node modifications notes for details on how the core virtual machine has been adapted for use. If you are a member of the lab, you can follow the instructions for access to this node. As we move forward with the deployment of the caBIG demonstration and testbed, additional VMs customized for specific functions will be developed.

Administrative and National Policy Requirements 3. Reporting Section VII. Agency Contacts 1. Peer Review Contact s 3. Section I. Funding Opportunity Description. This FOA is affiliated with the Neuroscience Blueprint , with Institutes and Centers participating independently, and with participation by Institutes that are not part of the Neuroscience Blueprint.

Modern biomedical research, including , but not limited to , neuroscience research, generates vast amounts of diverse and complex data. Increasingly, these data are acquired in digital form, allowing sophisticated and powerful computational and informatics tools to help scientists organize, store, query, mine, analyze, view, and, in genera l, make better use and sense of their data.

Moreover, the digital form of these data and tools make it possible for them to be easily and widely shared across the research community at-large. The federal investment in computational neuroscience and neuroinformatics research over the past 15 years has resulted in this research community being exceptionally well-poised to take advantage of these converging opportunities, and in so doing, accelerate the pace of discovery in neuroscience. The fact that neuroscience research provided both a community of investigators well-versed in digital approaches and the data-driven challenges necessary to test a new computational infrastructure was recognized by the National Center for Research Resources NCRR in their choice of neuroimaging and related research as the initial testbeds of their Biomedical Informatics Research Network BIRN initiative.

BIRN aims to foster large-scale collaborations in biomedical science by utilizing the capabilities of the emerging national cyberinfrastructure high-speed networks, distributed high-performance computing and the necessary software integration capabilities. Mark Ellisman U24RR and three testbed projects that ensure that the infrastructure developed by the Coordinating Center is useful to biomedical researchers.

The BIRN CC serves the critical task of developing, deploying and maintaining key infrastructure components, including high bandwidth connectivity via Internet 2, grid-based security, file management and computational services, techniques to federate databases and shared visualizati on and analysis environments.

The infrastructure being developed by this Co ordina ting Center is currently driven by the needs of thr ee testbed awards related to brain imaging of human neurological disorders and associated animal models. Each of the testbeds described above has used the BIRN infrastructure to share data and tools in a limited r esearch community. Data federation provides a significant benefit to the research community. A working data federation infrastructure hides the complexities of data location, data ownership, and data maintenance from the u ser.

In an ideal situation, an approved user simply asks the infrastructure to provide the data, and the information or data sets are made available immediately. The BIRN infrastructure supports data federation in a number of ways, including mechanisms for presenting distributed data sets as a single data source and a centralized portal framework that provides a unified interface for giving and gaining access to data sets in a flexible manner.

There are at least t hree different groups of users who may want to use or adopt the BIRN inf rastructure for data federation:. Unless the data are complex or voluminous, s uch a user is not likely to require support under this FOA.

Data federation using the BIRN infrastructure requires that the user s have appropriate hardware and software. This hardware should be requested as part of the budget in year one of the award. Users should also include a letter as part of their application from the leader of the testbed they plan to collaborate with. For example, researchers with electrophysiology data might find it more convenient to establish a data sharing infrastructure that is independent of the current BIRN infrastructure , which focuses on imaging data.

Such applications should justify which components of the BIRN infrastructure they will employ and how those components will enable them to meet the immediate data federation needs of their community. Applications should also provide a clear plan for more extensive data federation with other research communities. Ultimately, larger scale data federation among such research communities is more powerful than limited sharing, and the ultimate goal of this program is to facilitate such large scale sharing.

The federation of existing tools has a number of benefits including giving researchers a single interface through which the y can access a large variety of tools from different sources and a means to use the tools on a large, integrated collection of data sets.

Such an environment becomes a natural place to compare the strengths and weaknesses of various tools in various data processing situations. These resources could include file systems, relational databases, or archival systems. In addition to requesting support to federate tools under the existing BIRN infrastructure, it is possibl e to apply for support to add new types of data analysis tools.

Such tools will be necessary to analyze the new sorts of data, like electrophysiology data, that will be federated using the BIRN infrastructure. Such applications should define their research community and should explain how federating these new tools will benefit that research community.

The software tools support basic, clinical, and translational research functions. It is expected that providing the capability for researchers to use caBIG-enabled applications will remove the technological barriers to sharing data on the grid. The caGrid infrastructure contains many innovative features augmenting these core components. These features include a robust grid security infrastructure, innovative metadata management services and workflow management systems for service orchestration.

The use of caGrid infrastructure and tools does not require any specialized hardware, and is supported on most commonly available platforms. There are two key registration steps that must be undertaken for a system to become part of caGrid.

The caDSR derives its semantics from ontology and terminology sources that are approved for use in caBIG, but is not itself an ontology management system. Rather, it is a metadata registry for caBIG information models. Tools and live support are available to assist with UML model registration. Once an information model is registered, the system can then be added to the actual caGrid data and analysis federation. This requires that the system be exposed as a "service" on caGrid using the Introduce tool referred to above.

Introduce assists with the process of wrapping and registering a service with the main caGrid Index Service registry. Once registered, a service becomes available to all authorized users of caGrid. In addition to the portal, more sophisticated scientific research applications that leverage caGrid are also under development.

Section II. Award Information. The applicant will be solely responsible for planning, directing, and executing the proposed project. Specifically, if you are a U. Funds Available Because the nature and scope of the proposed research will vary from application to application, it is anticipated that the size and duration of each award will also vary. Although the financial plans of the Institutes and Centers ICs provide support for this program, awards pursuant to this funding opportunity are contingent upon the availability of funds and the submission of a sufficient number of meritorious applications.

Section III. Eligibility Information. Eligible Applicants 1. Individuals from underrepresented racial and ethnic groups as well as individuals with disabilities are always encouraged to apply for NIH support.

Other-Special Eligibility Criteria. Applicants may submit more than one application, provided each application is scientifically distinct.

Section IV. Application and Submission Information. Individual DUNS and CCR registration should be used only for the purposes of personal reimbursement and should not be used on any grant applications submitted to the Federal Government. Several of the steps of the registration process could take four weeks or more. The NIH will accept electronic applications only from organizations that have completed all necessary registrations.

Note: Only the forms package directly attached to a specific FOA can be used. Telecommunications for the hearing impaired: TTY Content and Form of Application Submission. Agency-specific instructions for such fields are clearly identified in the Application Guide.

Some components are required, others are optional. The forms package associated with this FOA in Grants. A completed application in response to this FOA includes the data in the following components:. Foreign Organizations Non-domestic non-U. NIH policies concerning grants to foreign non-U.

Applications from foreign organizations must:. Proposed research should provide special opportunities for furthering research programs through the use of unusual talent, resources, populations, or environmental conditions in other countries that are not readily available in the United States or that augment existing U.

Failure to include this data field will cause the application to be rejected. The governance and organizational structure of the leadership team and the research project should be described, including communication plans, process for making decisions on scientific direction, and procedures for resolving conflicts. In the event of an award, the requested allocations may be reflected in a footnote on the Notice of Award. When multiple institutions are involved, one institution must be designated as the prime institution and funding for the other institution s must be requested via a subcontract to be administered by the prime institution.

See Section 4. When submitting a modular budget, the prime institution completes the PHS Modular Budget component only. See Section 5. Submission, Review, and Anticipated Start Dates. Opening Date: December 18, Earliest date an application may be submitted to Grants. Prospective applicants are asked to submit a letter of intent that includes the following information:.

Although a letter of intent is not required, is not binding, and does not enter into the review of a subsequent application, the information that it contains allows IC staff to estimate the potential review workload and plan the review.

The letter of intent is to be sent by the date listed in Section IV. The letter of intent should be sent to: Gregory K. Letters of intent should not be sent in multiple formats. Letters sent by e-mail are strongly preferred. Note: Applications must only be submitted electronically.

Application Processing Applications may be submitted on or after the opening date and must be successfully received by Grants. If an application is not submitted by the receipt date s and time, the application may be delayed in the review process or not reviewed. Once an application package has been successfully submitted through Grants. Upon receipt, applications will be evaluated for completeness by the CSR. Incomplete applications will not be reviewed.

If the application is not responsive to the RFA, NIH staff may contact the applicant to determine whether to return the application to the applicant or submit it for review in competition with unsolicited applications at the next appropriate NIH review cycle. There will be an acknowledgement of receipt of applications from Grants. The submitting AOR receives the Grants. Information related to the assignment of an application to a Scientific Review Group is also in the Commons.

Note: Since email can be unreliable, it is the responsibility of the applicant to check periodically on their application status in the Commons. The NIH will not accept any application in response to this FOA that is essentially the same as one currently pending initial merit review unless the applicant withdraws the pending application. The NIH will not accept any application that is essentially the same as one already reviewed. Intergovernmental Review This initiative is not subject to intergovernmental review.

Pre-award costs are allowable. If specific expenditures would otherwise require prior approval, the grantee must obtain NIH approval before incurring the cost. NIH prior approval is required for any costs to be incurred more than 90 days before the beginning date of the initial budget period of a new or competing renewal award. The incurrence of pre-award costs in anticipation of a competing or non-competing award imposes no obligation on NIH either to make the award or to increase the amount of the approved budget if an award is made for less than the amount anticipated and is inadequate to cover the pre-award costs incurred.

NIH expects the grantee to be fully aware that pre-award costs result in borrowing against future support and that such borrowing must not impair the grantee's ability to accomplish the project objectives in the approved time frame or in any way adversely affect the conduct of the project.

Other Submission Requirements. While each section of the Research Plan component needs to be uploaded separately as a PDF attachment, applicants are encouraged to construct the Research Plan component as a single document, separating sections into distinct PDF attachments just before uploading the files.

This approach will enable applicants to better monitor formatting requirements such as page limits. All attachments must be provided to NIH in PDF format, filenames must be included with no spaces or special characters, and a.

Special Instructions for Modular Grant applications. R01 applications from U. When submitting a modular budget, the applicant organization will include only the PHS Modular Budget component. Foreign organizations may not submit modular budgets. NIH has published new limitations on grant application appendix materials to encourage applications to be as concise as possible while containing the information needed for expert scientific review. Do not use the Appendix to circumvent the page limitations of the Research Plan component.

An application that does not observe the required page limitations may be delayed in the review process. Note: While each section of the PHS Research Plan component needs to be uploaded separately as a PDF attachment, applicants are encouraged to construct the Research Plan component as a single document, separating sections into distinct PDF attachments just before uploading the files. This approach will enable applicants to monitor better formatting requirements such as page limits.

Foreign Applications Non-domestic non-U. The precise content of the data-sharing plan will vary, depending on the data being collected and how the investigator is planning to share the data. Applicants who are planning to share data may wish to describe briefly the expected schedule for data sharing, the format of the final dataset, the documentation to be provided, whether or not any analytic tools also will be provided, whether or not a data-sharing agreement will be required and, if so, a brief description of such an agreement including the criteria for deciding who can receive the data and whether or not any conditions will be placed on their use , and the mode of data sharing e.

Investigators choosing to share under their own auspices may wish to enter into a data-sharing agreement. References to data sharing may also be appropriate in other sections of the application. All applicants must include a plan for sharing research data in their application. All investigators responding to this funding opportunity should include a description of how final research data will be shared, or explain why data sharing is not possible. The reasonableness of the data sharing plan or the rationale for not sharing research data will be assessed by the reviewers.

However, reviewers will not factor the proposed data sharing plan into the determination of scientific merit or the priority score.

Investigators responding to this funding opportunity should include a sharing research resources plan addressing how unique research resources will be shared or explain why sharing is not possible. The adequacy of the resources sharing plan and any related data sharing plans will be considered by Program staff of the funding organization when making recommendations about funding applications.

See Section VI. Section V. Application Review Information. Criteria Update: Enhanced review criteria have been issued for the evaluation of research applications received for potential FY funding and thereafter - see NOT-OD Only the review criteria described below will be considered in the review process. Review and Selection Process Applications submitted for this funding opportunity will be assigned to the ICs on the basis of established PHS referral guidelines. Applications that are complete will be evaluated for scientific and technical merit by an appropriate peer review group convened by CSR in accordance with the review criteria stated below.

As part of the initial merit review, all applications will:. Applications submitted in response to this funding opportunity will compete for available funds with all other recommended applications. The following will be considered in making funding decisions:. The goals of NIH supported research are to advance our understanding of biological systems, to improve the control of disease, and to enhance health.

In their written critiques, reviewers will be asked to comment on each of the following criteria in order to judge the likelihood that the proposed research will have a substantial impact on the pursuit of these goals. Each of these criteria will be addressed and considered in assigning the overall score, weighting them as appropriate for each application. Note that an application does not need to be strong in all categories to be judged likely to have major scientific impact and thus deserve a high priority score.

For example, an investigator may propose to carry out important work that by its nature is not innovative but is essential to move a field forward. Significance: Does this study address an important problem? If the aims of the application are achieved, how will scientific knowledge or clinical practice be advanced? What will be the effect of these studies on the concepts, methods, technologies, treatments, services, or preventative interventions that drive this field?