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AgBioData

AgBioData is a consortium of people working at agricultural biological databases, data archives and knowledgebases who strives to identify common issues in database development, curation, and management, with the goal of creating database products that are more Findable, Accessible, Interoperable, and Reusable (FAIR). Currently, there are over 150 people from 30 different databases and resources within the AgBioData consortium. We strive to promote authentic, detailed and accurate communication between all parties involved in scientific data.

For all agriculturally database personnel, we recommend joining the AgBioData consortium, attending the monthly conference call seminars, joining a working group, and working with your counterparts in other databases. A little time invested now in working together and applying common standards can save a lot of time later and prevent duplicated efforts in the development of tools and resources.

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AgBioData Datasets

38 datasets

Germplasm Resources Information Network (GRIN)

    The Germplasm Resources Information Network (GRIN) is an online portal for information about agricultural genetic resources that are managed by the Agricultural Research Service of USDA, along with U.S. partnering organizations.

    Gramene

      Gramene is a curated, open-source, integrated data resource for comparative functional genomics in crops and model plant species.

      Data from: Estimation of pool construction and technical error

        Animals were incorporated into pools in different proportions to estimate error and evaluate factors influencing error. Animals were incorporated into 2 types of pools, sub-pools and super pools. Within phenotype, liver abscess or normal, 16 animals were combined into 4 sub-pools, 4 animals per sub-pool in parts of 1:2:3:4. Sub-pools were constructed based on crushed frozen liver tissue mass. Within phenotype, 4 sub-pools were incorporated into 2 super pools in parts of 1:2:3:4 for super pool 1 and 3:4:1:2 for super pool 2. Super pools were made based on DNA quantity. Errors in DNA quantification would create error in forming super pools from sub-pools and variation in cell content or DNA content of liver tissue would result in error in combining sub-pools from animals.

        Data from: Plant strategies for maximizing growth during drought and drought recovery in Solanum melongena L. (eggplant)

          This data represents the collection of physiological and biometric data of above- and below-ground plant traits in four species of Solanum melongena of Philippine origin (PHL 4841, PHL 2778, PHL 2789, and Mara). Half of the plants were subjected to significant water deficit, and half again of those deficit plants were allowed to recover after subsequent watering. This data is suitable to serve as a benchmark for trait values in S. melongena, as well as in studies of trait responses to terminal drought and episodic drought in agricultural settings.

          National Plant Germplasm System

            The U.S. National Plant Germplasm System (NPGS) is collaborative effort to safeguard the genetic diversity of agriculturally important plants.

            Data from: Genotypic characterization of the U.S. peanut core collection

              This collection contains supplementary data for the manuscript "Genotypic characterization of the U.S. Peanut Core Collection", which describes genotyping results for the USDA peanut core collection. Supplementary files include: descriptive information about the genotyped accessions, SNP genotype calls in several formats, a phylogenetic tree calculated from the genotype data, Structure analysis, PCA analysis, and comparisons with the diploid progenitors.

              Animal Germplasm Resources Information Network (A-GRIN)

                Animal genetic resources underpin the livestock sector's production and profitability. As a result livestock industries contribute billions of dollars to national economies. The Animal Germplasm Resources Information Network (A-GRIN) mission is to acquire, evaluate and preserve these strategic resources so that industry and the research community can have access to a broad array of genetic variability for: national security, introduction of genetic variation, corrective breeding, and various research initiatives.

                SoyBase and the Soybean Breeder's Toolbox

                  SoyBase is a repository for genetics, genomics and related data resources for soybean. It contains current genetic, physical and genomic sequence maps integrated with qualitative and quantitative traits.

                  Pulse Crop Database Resources

                    Genomic, Genetic and Breeding Resources for Pulse Crop Improvement. The Pulse Crop Database (PCD), formerly the Cool Season Food Legume Database (CSFL),contains genes, genomes, germplasm, maps, markers, QTL/MTL, species information, and transcripts. Crops supported include Adzuki bean, Bambara bean, Chickpea, Common bean, Cowpea, Faba bean, Lentil, Lupin, Pea, Pigeon pea, Vetch, and others.