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THE GENELAB DATA REPOSITORY IS A RAPIDLY EXPANDING AND REMARKABLY POWERFUL RESOURCE WITH WHICH TO DISSECT ORGANISMAL RESPONSES TO SPACEFLIGHT AT LEVELS RANGING FROM THE METAGENOME TO THE TRANSCRIPTOME AND PROTEOME. THE RESEARCH IN THIS PROPOSED GENELAB DATA SYSTEM STUDY SEEKS TO EXTEND THE BIOINFORMATICS TOOL DEVELOPMENT FOR GENELAB DATA TO A CROSS-KINGDOM ARCHITECTURE. MAKING SUCH INTER-ORGANISMAL COMPARISONS POSSIBLE WILL FACILITATE MINING ACROSS THE WEALTH OF DATASETS WITHIN THE GENELAB SYSTEM AND DRIVE INSIGHTS INTO THE FUNDAMENTAL RESPONSES TO SPACEFLIGHT SHARED BY BIOLOGICAL SYSTEMS AS A WHOLE. THIS WORK APPROACHES SOME OF GENELAB'S CORE QUESTIONS AS TO HOW IMPLEMENTATION OF LARGE SCALE DATASET ANALYSES CAN HELP PRODUCE NEW INSIGHTS AND HYPOTHESES ABOUT THE EFFECTS OF SPACEFLIGHT ON BIOLOGY. WE HAVE DEVELOPED AN INTERACTIVE DATA VISUALIZATION AND MINING ENVIRONMENT BASED ON THE QLIK ENGINE CALLED THE TOAST DATABASE THAT COVERS ALL THE PLANT BIOLOGY DATA DEPOSITED WITHIN GENELAB. THIS APPROACH ALLOWS USERS TO MAKE INTERACTIVE COMPARISONS AND FILTERS BETWEEN DATASETS TO MINE FOR BOTH COMMON AND UNIQUE FEATURES OF THE TRANSCRIPTOMES OF THE GENELAB PLANT DATA. THE REACH OF THIS ANALYSIS HAS BEEN FURTHER EXTENDED BY INCORPORATING BOTH THE PUBLISHED DATASETS FROM OTHER SPACE AGENCIES AND UNPUBLISHED DATA SETS GENEROUSLY PROVIDED BY THE PLANT SCIENCE SPACEFLIGHT COMMUNITY. CURRENT WORK IS FOCUSED ON MAINTAINING AND EXPANDING THIS PLANT-DRIVEN DATA ENVIRONMENT AND INCORPORATING ANALYTICAL PIPELINES FOR GENE FAMILIES ECOTYPES AND SPECIES TO MOVE TOWARDS A HIGHLY INTUITIVE ANALYSIS ENVIRONMENT. THIS TOOL WILL ALLOW USERS TO RAPIDLY MOVE FROM DATA EXPLORATION TO IDENTIFYING SPACEFLIGHT-RESPONSE GENES AND FROM THERE TO TESTABLE HYPOTHESES. THE INTERFACE IS DESIGNED TO BE ACCESSIBLE TO A USER BASE WITH A DIVERSE LEVEL OF KNOWLEDGE ABOUT TRANSCRIPTOMICS PROTEOMICS AND SPACEFLIGHT. THIS CURRENT WORK IS CENTERED ON PLANT BIOLOGY BUT OFFERS A STRONG STARTING POINT TO EXTEND THE REACH OF THESE KINDS OF ANALYSES TO BEYOND THE PLANT KINGDOM. CREATING THIS INCREASED ENVELOPE OF INVESTIGATION POSSIBLE WITH THE GENELAB DATA SYSTEM BY FACILITATING COMPARISONS BETWEEN THE BREADTH OF DATA DEPOSITED WITHIN GENELAB IS THE OPPORTUNITY WE PROPOSE TO EXPLORE IN THE RESEARCH PROGRAM OUTLINED BELOW.SPECIFIC AIMS: (1) IMPORT THE DIVERSITY OF THE DATASETS FROM THE GENELAB DATA REPOSITORY INTO THE TOAST DATABASE AND DEVELOP ORTHOLOGOUS MATRIXAND GENE ONTOLOGY-DRIVEN APPROACHES TO TRANSLATE BETWEEN THEM IN A KINGDOM-TRANSPARENT MANNER. (2) DEVELOP COMMON PHENOTYPING TOOLS AND APPROACHES FOR THE RESEARCH COMMUNITY TO FACILITATE THE TESTING OF POTENTIAL ROLES OF THESE GENES IN SPACEFLIGHT-RELATED FACTORS. THIS EFFORT WILL FOCUS ON ELEMENTS OF SPACEFLIGHT SUCH AS MICROGRAVITY AND HYPOXIC STRESS RESPONSE THAT ARE APPLICABLE TO A WIDE RANGE OF ORGANISMS.IN ADDITION TO USING PUBLICATIONS AND PRESENTATIONS AT MEETINGS AND THE RANGE OF OPEN-SCIENCE DATA ANALYSIS SHARING TOOLS RESULTS WILL BE DISTRIBUTED TO A BROADER GENERAL AUDIENCE THROUGH A RANGE OF EDUCATIONAL AND OUTREACH EFFORTS. THIS RESEARCH PROGRAM WILL BE INCORPORATED INTO FORMAL UNDERGRADUATE CLASSWORK AND ALSO INTO OUTREACH EFFORTS TO HIGH SCHOOLS AND TO THE GENERAL PUBLIC.

$249,998FY2020National Aeronautics and Space AdministrationNASA

University Of Wisconsin System, Madison WI

Investigators

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