What is your research focus in NP 107?,"What types of data and formats do you generate in your research?  More than one is acceptable, please separate with commas.","Has your data been uploaded into a repository(s)? If not, please proceed to question 8.",Do you have a preferred repository(s)?,Other (please specify),"List any repositories you've used in the last five year below? If more than one, please separate with a comma. ","Were all steps to meet your preferred repository(s) requirements user friendly? If not, please specify challenge.",Other (please specify),Is it clearly outlined whether your preferred repository(s) provides a Persistent Identifier (DOI)?,Other (please specify),"Does your preferred repository(s) have specific requirements? (File formats, controlled vocabularies, metadata standards, etc.)",Other (please specify),Does your preferred repository(s) ask for your ORCID?,Other (please specify),Do you need help finding a repository?,What would you like to see in a training session on data sharing?
Diet and Aging and Precision Nutrition,"diet data, physical measures and physiological measures    CSV, SAS, excel",No,,,,,,,,Yes,,No,,Yes,how to use repositories that cannot be downloaded such as the workbench used by the NIH All of Us study
"Understanding the roles of diet, aging, and microbiome on age-related eye disease","Image data, 16S Microbiome data, shotgun sequencing metagenomic data, metabolomics data, proteomic data, transcriptomic data",Yes,No,,MG-RAST (for microbiome data),Yes,,Not at all clear,,Yes,,No,,Yes,Best practice for different kinds of repositories. Information about metabolomic and proteomic data repositories.
"dietary assessment, cardiometabolic health, meat, processed foods","research participant data, national surveillance data, food databases",No,,,,,,,,,,,,Yes,"sharing data safely and effectively when personal protected information (age, sex, health outcomes) are the main components of the data"
Dietary and metabolic regulation of cellular aging,"Gene transcription data, histological data, protein expression data, immunofluorescence/immunohistochemistry, ELISA measurements, metabolic cage measurements, functional assays, cell killing assays, most data are collated in excel spreadsheets and analyzed using graphpad PRISM.",No,,,,,,,,Yes,,Other (please specify),"unsure, typically my big data collaborators do the data repository entry for us",No,"Honestly, I don't know what I don't know here."
,,Yes,No,,,Yes,,Very clear,,Yes,,Yes,,No,
Prevention of Diet-Related Diseases,Biochemistry data,Yes,No,,Journals,Yes,,Somewhat clear,,No,,No,,No,Summary
"physiologic responses to diet and exercise, behavior change and adherence.",types? formats?,Yes,Yes,,NAL,Other (please specify),Technician uploaded data.,Very clear,,Yes,,Other (please specify),Not sure,Yes,"explanation of expectations of the data mgt/data sharing plan in the project plan write-ups, explanation of what is expected of the same in practice as an ARS scientist, common language that can be shared and used in the DMP section of the project plan"
"Nutrient requirements, human milk composition","human milk nutrients and other constituents, nutrient intakes, biomarkers of nutritional status, genomics, metabolomics, microbiome",Yes,Yes,,BOX,Other (please specify),Unsure  as done by IT staff,Other (please specify),Not sure,Yes,,No,,No,An overview of what ARS can provide. IP and international data sharing issues.
nutrition and health,"Expected Data Types:  Data that we collect, generate, or derive will include phenotypes/human traits/human behavior/human laboratory and physiological variables, diet, SNP genotypes, CpG methylation epigenotypes, and microbiome data. Other data to be used include gene expression (from GEO NCBI and dbGaP), biological pathways (from KEGG, Reactome, WikiPathwys, various specialty), metabolites (FooDB, HMDB, Metabolon, Metabolomics Workbench) and their enzymes (enzyme database at Expasy), protein-protein interactions (BIND, BioGrid, STRING), human genome (Build 38, Ensembl), SNP-phenotype associations (GWAS catalog), CpGs (DNA methylation from Illumina annotation), eQTL and meQTL (GTEx/Jaffe 2015), cardiometabolic GxEs (CardioGxE), and various data from AHA Precision Medicine Platform and BioStudies repositories.  Data types will also include those biological variables collected from studies using animal models. All animal studies will use protocols in accordance with the University of California Davis Institution Animal Care and Use Committee guidelines. All maintenance protocols and experimental procedures will be approved by the UC Davis IACUC.   Data Formats and Standards:  Most data will be in flat file/text/csv or other open-file formats. Some data will be in Microsoft Excel (.xls), Portable Document Format (.pdf), and Joint Photographic Experts Group (.jpg) format. Laboratory protocols and experimental conditions will be produced in Microsoft Word, laboratory notebook, manufacturer’s pamphlet, or pdf format. When published to their respective data repositories phenotype/behavior/traits/laboratory variables, SNP genotypes, and diet data will be in flat file/text/csv format, as appropriate to the repository. ",Yes,Yes,,REDCap (Research Electronic Data Capture),Yes,,Not so clear,,Yes,,Yes,,No,
human nutrition,"dietary intake, genetics, biochemical concentrations, nutrient concentrations",No,No,I need help finding appropriate repositories for nutrition data. Would be lovely if USDA made these. NIH has nothing.,Pubmed for manuscripts.,Other (please specify),n/a,Other (please specify),n/a,Other (please specify),n/a,None of the above,,Yes,go through a general purpose repository and demonstrate the steps for uploading an example data set.
"Food and nutrition security, diet quality, accuracy of diet quality assessment, Delta populations","Survey data, Excel spreadsheets",Yes,Yes,Ag Data Commons,Ag Data Commons,Yes,,Very clear,,Yes,,Yes,,No,"Options for data repositories, best methods for data sharing"