Plant Genomics and Phenomics Research Data Repository
Names
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Plant Genomics and Phenomics Research Data Repository
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
PGP
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
PGP Repository
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Names
More detailed information about this field from each metasource.
Plant Genomics and Phenomics Research Data Repository
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
PGP
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
PGP Repository
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Other names: PGP, PGP Repository
Names
More detailed information about this field from each metasource.
Plant Genomics and Phenomics Research Data Repository
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
PGP
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
PGP Repository
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
This repository provides several plant genomic and phenotypic datasets resulting from IPK and German Plant Phenotyping Network (DPPN) research activities. It was established in January 2015. The background of the study is in plant genetic resources, in particular the association of genotypes and phenotypes. This archive aims to provide data from the "system plant" - from the root to bloom and seed, as well from sequence analysis to systems biology.Ge
Description
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This repository provides several plant genomic and phenotypic datasets resulting from IPK and German Plant Phenotyping Network (DPPN) research activities. It was established in January 2015. The background of the study is in plant genetic resources, in particular the association of genotypes and phenotypes. This archive aims to provide data from the "system plant" - from the root to bloom and seed, as well from sequence analysis to systems biology.Ge
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
The Leibniz Institute of Plant Genetics and Crop Plant Research (IPK) and German Plant Phenotyping Network (DPPN) has jointly initiated the Plant Genomics and Phenomics Research Data Repository (PGP) as infrastructure to comprehensively publish plant research data. This covers in particular cross-domain datasets that are not being published in central repositories because of its volume or unsupported data scope, like image collections from plant phenotyping and microscopy, unfinished genomes, genotyping data, visualizations of morphological plant models, data from mass spectrometry as well as software and documents.
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Webpage:
http://edal-pgp.ipk-gatersleben.deWebpage
More detailed information about this field from each metasource.
http://edal-pgp.ipk-gatersleben.de
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
https://edal-pgp.ipk-gatersleben.de/
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Licence:
Name: otherLicence name
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other
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Licence URL
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https://edal-pgp.ipk-gatersleben.de/whatis.html
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Publications:
Publications
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PGP repository: a plant phenomics and genomics data publication infrastructure
PMID: 27087305
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
e!DAL--a framework to store, share and publish research data
PMID: 24958009
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
http://dx.doi.org/10.1109/BIBM.2012.6392737
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
Publications
More detailed information about this field from each metasource.
PGP repository: a plant phenomics and genomics data publication infrastructure
PMID: 27087305
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
e!DAL--a framework to store, share and publish research data
PMID: 24958009
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
http://dx.doi.org/10.1109/BIBM.2012.6392737
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
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PGP repository: a plant phenomics and genomics data publication infrastructure
PubMed citations: 37.
37 articles citing: PGP repository: a plant phenomics and genomics data publication infrastructure
Prospects of telomere-to-telomere assembly in barley: Analysis of sequence gaps in the MorexV3 reference genome. PMID:35338551
Quantitative monitoring of nucleotide sequence data from genetic resources in context of their citation in the scientific literature. PMID:34966925
Mutation of the ALBOSTRIANS Ohnologous Gene HvCMF3 Impairs Chloroplast Development and Thylakoid Architecture in Barley. PMID:34659298
Evolutionary rewiring of the wheat transcriptional regulatory network by lineage-specific transposable elements. PMID:34503979
Opportunities and limits of controlled-environment plant phenotyping for climate response traits. PMID:34302493
Crop breeding for a changing climate: integrating phenomics and genomics with bioinformatics. PMID:33852055
Genome-wide discovery of G-quadruplexes in barley. PMID:33846409
Long-read sequence assembly: a technical evaluation in barley. PMID:33710295
Editorial: Advances in Applied Bioinformatics in Crops. PMID:33679855
Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. PMID:33589928
DEFECTIVE ENDOSPERM-D1 (Dee-D1) is crucial for endosperm development in hexaploid wheat. PMID:33361776
The barley pan-genome reveals the hidden legacy of mutation breeding. PMID:33239781
The on-premise data sharing infrastructure e!DAL: Foster FAIR data for faster data acquisition. PMID:33090199
The reuse of public datasets in the life sciences: potential risks and rewards. PMID:33024631
Analysis of wild tomato introgression lines elucidates the genetic basis of transcriptome and metabolome variation underlying fruit traits and pathogen response. PMID:32989321
Unlocking the potential of plant phenotyping data through integration and data-driven approaches. PMID:32923745
Evaluation of Wild Potato Germplasm for Tuber Starch Content and Nitrogen Utilization Efficiency. PMID:32630783
Dissecting the phenotypic components and genetic architecture of maize stem vascular bundles using high-throughput phenotypic analysis. PMID:32569428
Supernumerary B chromosomes of Aegilops speltoides undergo precise elimination in roots early in embryo development. PMID:32488019
BioHackathon 2015: Semantics of data for life sciences and reproducible research. PMID:32308977
High Resolution Mapping of a Hordeum bulbosum-Derived Powdery Mildew Resistance Locus in Barley Using Distinct Homologous Introgression Lines. PMID:32194602
Programmatic Access to FAIRified Digital Plant Genetic Resources. PMID:31913851
TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools. PMID:31849336
An Age-Dependent Sequence of Physiological Processes Defines Developmental Root Senescence. PMID:31515448
Historical phenotypic data from seven decades of seed regeneration in a wheat ex situ collection. PMID:31358775
Crop Phenomics: Current Status and Perspectives. PMID:31214228
A chromosome-level sequence assembly reveals the structure of the Arabidopsis thaliana Nd-1 genome and its gene set. PMID:31112551
Exome sequences and multi-environment field trials elucidate the genetic basis of adaptation in barley. PMID:31108005
FAIRness and Usability for Open-access Omics Data Systems. PMID:30815061
Genetic diversity and relationship between domesticated rye and its wild relatives as revealed through genotyping-by-sequencing. PMID:30622636
Unbalanced historical phenotypic data from seed regeneration of a barley ex situ collection. PMID:30512010
Computational aspects underlying genome to phenome analysis in plants. PMID:30500991
Dealing with multi-source and multi-scale information in plant phenomics: the ontology-driven Phenotyping Hybrid Information System. PMID:30152011
Predicting plant biomass accumulation from image-derived parameters. PMID:29346559
Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. PMID:28448065
Measures for interoperability of phenotypic data: minimum information requirements and formatting. PMID:27843484
Quantitative monitoring of Arabidopsis thaliana growth and development using high-throughput plant phenotyping. PMID:27529152 -
e!DAL--a framework to store, share and publish research data
PubMed citations: 32.
32 articles citing: e!DAL--a framework to store, share and publish research data
Mutation of the ALBOSTRIANS Ohnologous Gene HvCMF3 Impairs Chloroplast Development and Thylakoid Architecture in Barley. PMID:34659298
Detection of SARS-CoV-2 Derived Small RNAs and Changes in Circulating Small RNAs Associated with COVID-19. PMID:34452458
Long-read sequence assembly: a technical evaluation in barley. PMID:33710295
Genome-wide association study on metabolite accumulation in a wild barley NAM population reveals natural variation in sugar metabolism. PMID:33592061
Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. PMID:33589928
Function and Regulation of Chloroplast Peroxiredoxin IIE. PMID:33494157
Menoci: lightweight extensible web portal enhancing data management for biomedical research projects. PMID:33334310
Identification of QTLs conferring resistance to scald (Rhynchosporium commune) in the barley nested association mapping population HEB-25. PMID:33246416
The barley pan-genome reveals the hidden legacy of mutation breeding. PMID:33239781
The on-premise data sharing infrastructure e!DAL: Foster FAIR data for faster data acquisition. PMID:33090199
Negative dominance and dominance-by-dominance epistatic effects reduce grain-yield heterosis in wide crosses in wheat. PMID:32582844
Can metabolic prediction be an alternative to genomic prediction in barley? PMID:32502173
Supernumerary B chromosomes of Aegilops speltoides undergo precise elimination in roots early in embryo development. PMID:32488019
The contribution of cis- and trans-acting variants to gene regulation in wild and domesticated barley under cold stress and control conditions. PMID:31989179
TRITEX: chromosome-scale sequence assembly of Triticeae genomes with open-source tools. PMID:31849336
Variation in Recombination Rate Is Shaped by Domestication and Environmental Conditions in Barley. PMID:31209472
Exome sequences and multi-environment field trials elucidate the genetic basis of adaptation in barley. PMID:31108005
Review: New sensors and data-driven approaches-A path to next generation phenomics. PMID:31003608
Genetic diversity and relationship between domesticated rye and its wild relatives as revealed through genotyping-by-sequencing. PMID:30622636
Computational aspects underlying genome to phenome analysis in plants. PMID:30500991
Dealing with multi-source and multi-scale information in plant phenomics: the ontology-driven Phenotyping Hybrid Information System. PMID:30152011
Genetic Architecture of Anther Extrusion in Spring and Winter Wheat. PMID:28559904
Construction of a map-based reference genome sequence for barley, Hordeum vulgare L. PMID:28448065
Measures for interoperability of phenotypic data: minimum information requirements and formatting. PMID:27843484
Quantitative monitoring of Arabidopsis thaliana growth and development using high-throughput plant phenotyping. PMID:27529152
Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation. PMID:27428750
Genomic analysis of 6,000-year-old cultivated grain illuminates the domestication history of barley. PMID:27428749
PGP repository: a plant phenomics and genomics data publication infrastructure. PMID:27087305
Multiplex sequencing of bacterial artificial chromosomes for assembling complex plant genomes. PMID:26801048
Species-wide genome sequence and nucleotide polymorphisms from the model allopolyploid plant Brassica napus. PMID:26647166
Optimizing experimental procedures for quantitative evaluation of crop plant performance in high throughput phenotyping systems. PMID:25653655
A whole-genome shotgun approach for assembling and anchoring the hexaploid bread wheat genome. PMID:25637298 - http://dx.doi.org/10.1109/BIBM.2012.6392737
Tags:
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genotype
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
phenotype
metasource: Fairsharing.org
version: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
dna
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
biodiversity
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
bioinformatics
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
genetic diversity
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
phenotypic diversity
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
plant genomics
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
plant phenotyping
metasource: re3data.org
version: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
Tags
More detailed information about this field from each metasource.
genotype
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
phenotype
metasource: Fairsharing.orgversion: FAIRsharing.org: PGP; Plant Genomics and Phenomics Research Data Repository; DOI: https://doi.org/10.25504/FAIRsharing.rf3m4g; Last edited: Jan. 8, 2019, 1:21 p.m.; Last accessed: Jan 03 2022 7:09 p.m.
dna
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
biodiversity
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
bioinformatics
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
genetic diversity
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
phenotypic diversity
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
plant genomics
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
plant phenotyping
metasource: re3data.orgversion: re3data.org: Plant Genomics and Phenomics Research Data Repository; editing status 2022-08-18; re3data.org - Registry of Research Data Repositories. http://doi.org/10.17616/R3WD2R last accessed: 2022-11-04
genotype phenotype dna biodiversity bioinformatics genetic diversity phenotypic diversity plant genomics plant phenotyping
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