U24NS122732

Enhancing the Pan-Neurotrauma Data Commons (PANORAUMA) to a complete open data science tool by FAIR APIs - Project Summary

Neurotrauma (trauma to the spinal cord and brain) affects over 2.5 million individuals in the US, with an annual economic impact of $80 billion in medical and socioeconomic costs. Despite improved patient management in the last decades, there are limited viable options to promote neurological recovery.

Spinal cord injury (SCI) and traumatic brain injury (TBI) result in multifaceted syndromes spanning heterogeneous data sources and multiple scales of analysis. In addition, these injuries often occur at various sites within the central nervous system, with graded severities producing heterogeneous injuries with diverse outcome trajectories.

Making sense of this complexity requires pooling data across multiple injury severities, types, and scales of analysis ranging from molecular, anatomical, physiological, and behavioral levels. Large-scale data resources and big-data tools have the potential to help.

By pooling and harmonizing diverse data at the individual level, it becomes possible to make neurotrauma data "findable, accessible, interoperable, and reusable" (FAIR). FAIR neurotrauma data can be harnessed using modern data workflows and analytics, directing novel discovery and accelerating translation.

Moreover, FAIR data can set the stage for widespread adoption of artificial intelligence (AI) and machine learning (ML), and it is at the core of NIH strategic plan for data science and AI/ML-readiness initiatives like BRIDGE2A1 and AIM-AHEAD.

Researchers and data scientists can use FAIR neurotrauma data to drive novel discoveries and build robust reproducibility and translation tools, such as data processing software and new analytical workflows and pipelines.

The overarching objective of the Pan-Neurotrauma Data Commons parent project is to build a Pan-Neurotrauma (PANORAUMA) Data Commons infrastructure. The award aims at improving the efficiency, quality, and sustainability of the community-driven open data commons for spinal cord injury (ODC-SCI) and traumatic brain injury (ODC-TBI) by centralizing their operations and governance.

The NOSI (NOT-OD-22-068) for this supplement provides an opportunity for "improving the quality and sustainability of research software from a software engineering perspective." The supplement is vital for PANORAUMA sustainability and the expansion of the community of users to include research data scientists and research software developers in response to NIH's strategic plan for data science which states that "accessible, well-organized, secure, and efficiently operated data resources are critical to modern scientific inquiry."

For this supplement, we propose to:
1) Develop the Application Programming Interface (API) of PANORAUMA to better support data science activities in the cloud and optimize reusability, interoperability, and sustainability of data pipelines;
2) Incorporate the SMARTAPI FAIR standards to maximize the API's fairness and documentation;
3) Enhance the PANORAUMA-API interface with state-of-the-art, open-source data science coding languages R and Python; and
4) Build community partnerships between developers and data scientists.

San Francisco Regents Of The University Of California

(1) TO SUPPORT EXTRAMURAL RESEARCH FUNDED BY THE NATIONAL INSTITUTE OF NEUROLOGICAL DISORDERS AND STROKE (NINDS) INCLUDING: BASIC RESEARCH THAT EXPLORES THE FUNDAMENTAL STRUCTURE AND FUNCTION OF THE BRAIN AND THE NERVOUS SYSTEM, RESEARCH TO UNDERSTAND THE CAUSES AND ORIGINS OF PATHOLOGICAL CONDITIONS OF THE NERVOUS SYSTEM WITH THE GOAL OF PREVENTING THESE DISORDERS, RESEARCH ON THE NATURAL COURSE OF NEUROLOGICAL DISORDERS, IMPROVED METHODS OF DISEASE PREVENTION, NEW METHODS OF DIAGNOSIS AND TREATMENT, DRUG DEVELOPMENT, DEVELOPMENT OF NEURAL DEVICES, CLINICAL TRIALS, AND RESEARCH TRAINING IN BASIC, TRANSLATIONAL AND CLINICAL NEUROSCIENCE. THE INSTITUTE IS THE LARGEST FUNDER OF BASIC NEUROSCIENCE IN THE US AND SUPPORTS RESEARCH ON TOPICS INCLUDING BUT NOT LIMITED TO: DEVELOPMENT OF THE NERVOUS SYSTEM, INCLUDING NEUROGENESIS AND PROGENITOR CELL BIOLOGY, SIGNAL TRANSDUCTION IN DEVELOPMENT AND PLASTICITY, AND PROGRAMMED CELL DEATH, SYNAPSE FORMATION, FUNCTION, AND PLASTICITY, LEARNING AND MEMORY, CHANNELS, TRANSPORTERS, AND PUMPS, CIRCUIT FORMATION AND MODULATION, BEHAVIORAL AND COGNITIVE NEUROSCIENCE, SENSORIMOTOR LEARNING, INTEGRATION AND EXECUTIVE FUNCTION, NEUROENDOCRINE SYSTEMS, SLEEP AND CIRCADIAN RHYTHMS, AND SENSORY AND MOTOR SYSTEMS. IN ADDITION, THE INSTITUTE SUPPORTS BASIC, TRANSLATIONAL AND CLINICAL STUDIES ON A NUMBER OF DISORDERS OF THE NERVOUS SYSTEM INCLUDING (BUT NOT LIMITED TO): STROKE, TRAUMATIC INJURY TO THE BRAIN, SPINAL CORD AND PERIPHERAL NERVOUS SYSTEM, NEURODEGENERATIVE DISORDERS, MOVEMENT DISORDERS, BRAIN TUMORS, CONVULSIVE DISORDERS, INFECTIOUS DISORDERS OF THE BRAIN AND NERVOUS SYSTEM, IMMUNE DISORDERS OF THE BRAIN AND NERVOUS SYSTEM, INCLUDING MULTIPLE SCLEROSIS, DISORDERS RELATED TO SLEEP, AND PAIN. PROGRAMMATIC AREAS, WHICH ARE PRIMARILY SUPPORTED BY THE DIVISION OF NEUROSCIENCE, ARE ALSO SUPPORTED BY THE DIVISION OF EXTRAMURAL ACTIVITIES, THE DIVISION OF TRANSLATIONAL RESEARCH, THE DIVISION OF CLINICAL RESEARCH, THE OFFICE OF TRAINING AND WORKFORCE DEVELOPMENT, THE OFFICE OF PROGRAMS TO ENHANCE NEUROSCIENCE WORKFORCE DEVELOPMENT, AND THE OFFICE OF INTERNATIONAL ACTIVITIES. (2) TO EXPAND AND IMPROVE THE SMALL BUSINESS INNOVATION RESEARCH (SBIR) PROGRAM, TO INCREASE PRIVATE SECTOR COMMERCIALIZATION OF INNOVATIONS DERIVED FROM FEDERAL RESEARCH AND DEVELOPMENT, TO INCREASE SMALL BUSINESS PARTICIPATION IN FEDERAL RESEARCH AND DEVELOPMENT, AND TO FOSTER AND ENCOURAGE PARTICIPATION OF SOCIALLY AND ECONOMICALLY DISADVANTAGED SMALL BUSINESS CONCERNS AND WOMEN-OWNED SMALL BUSINESS CONCERNS IN TECHNOLOGICAL INNOVATION. TO UTILIZE THE SMALL BUSINESS TECHNOLOGY TRANSFER (STTR) PROGRAM, TO STIMULATE AND FOSTER SCIENTIFIC AND TECHNOLOGICAL INNOVATION THROUGH COOPERATIVE RESEARCH AND DEVELOPMENT CARRIED OUT BETWEEN SMALL BUSINESS CONCERNS AND RESEARCH INSTITUTIONS, TO FOSTER TECHNOLOGY TRANSFER BETWEEN SMALL BUSINESS CONCERNS AND RESEARCH INSTITUTIONS, TO INCREASE PRIVATE SECTOR COMMERCIALIZATION OF INNOVATIONS DERIVED FROM FEDERAL RESEARCH AND DEVELOPMENT, AND TO FOSTER AND ENCOURAGE PARTICIPATION OF SOCIALLY AND ECONOMICALLY DISADVANTAGED SMALL BUSINESS CONCERNS AND WOMEN-OWNED SMALL BUSINESS CONCERNS IN TECHNOLOGICAL INNOVATION.

93.853 - Extramural Research Programs in the Neurosciences and Neurological Disorders

National Institute of Neurological Disorders and Stroke (NNDS) [HHS - NIH]

San Francisco, California 941432500 United States

Single Zip Code

Biomedical Data Repository (U24 - Clinical Trials Not Allowed) (PAR-20-089)

Amendment Since initial award the total obligations have increased 380% from $738,472 to $3,540,991.