Minimum Information about Plant Phenotyping Experiment
Names
More detailed information about this field from each metasource.
Minimum Information about Plant Phenotyping Experiment
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
MIAPPE
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Minimum Information about Plant Phenotyping Experiment
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
MIAPPE
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Names
More detailed information about this field from each metasource.
Minimum Information about Plant Phenotyping Experiment
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
MIAPPE
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
MIAPPE is a reporting guideline for plant phenotyping experiments. It comprises a checklist, i.e., a list of attributes to describe an experiment so that it is understandable and replicable. It should be consulted by people recording and depositing plan phenotyping data. MIAPPE covers the description of the following aspects of plant phenotyping experiment: study, environment, experimental design, sample management, biosource, treatment and phenotype. A basic reference implementation of MIAPPE has been proposed for the ISA-Tab format. Other current developments include a Breeding API (BrAPI) implementation.
Description
More detailed information about this field from each metasource.
MIAPPE is a reporting guideline for plant phenotyping experiments. It comprises a checklist, i.e., a list of attributes to describe an experiment so that it is understandable and replicable. It should be consulted by people recording and depositing plan phenotyping data. MIAPPE covers the description of the following aspects of plant phenotyping experiment: study, environment, experimental design, sample management, biosource, treatment and phenotype. A basic reference implementation of MIAPPE has been proposed for the ISA-Tab format. Other current developments include a Breeding API (BrAPI) implementation.
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Webpage:
http://miappe.orgWebpage
More detailed information about this field from each metasource.
http://miappe.org
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications:
Publications
More detailed information about this field from each metasource.
Towards recommendations for metadata and data handling in plant phenotyping
PMID: 26044092
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Measures for interoperability of phenotypic data: minimum information requirements and formatting
PMID: 27843484
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
http://dx.doi.org/https://doi.org/10.1111/nph.16544
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Publications
More detailed information about this field from each metasource.
Towards recommendations for metadata and data handling in plant phenotyping
PMID: 26044092
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Measures for interoperability of phenotypic data: minimum information requirements and formatting
PMID: 27843484
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
http://dx.doi.org/https://doi.org/10.1111/nph.16544
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
-
Towards recommendations for metadata and data handling in plant phenotyping
PubMed citations: 54.
54 articles citing: Towards recommendations for metadata and data handling in plant phenotyping
Resources for image-based high-throughput phenotyping in crops and data sharing challenges. PMID:34608963
Data Management and Modeling in Plant Biology. PMID:34539712
Opportunities and limits of controlled-environment plant phenotyping for climate response traits. PMID:34302493
ELIXIR: Providing a Sustainable Infrastructure for Life Science Data at European Scale. PMID:34175941
Data challenges for future plant gene editing: expert opinion. PMID:34106390
Challenges for FAIR-compliant description and comparison of crop phenotype data with standardized controlled vocabularies. PMID:33991093
Crop breeding for a changing climate: integrating phenomics and genomics with bioinformatics. PMID:33852055
High-Throughput Plant Phenotyping Platform (HT3P) as a Novel Tool for Estimating Agronomic Traits From the Lab to the Field. PMID:33520974
Enhancing Genetic Gain through Genomic Selection: From Livestock to Plants. PMID:33404534
Plant Phenotyping: Past, Present, and Future. PMID:33313536
Applying FAIR Principles to Plant Phenotypic Data Management in GnpIS. PMID:33313522
Unlocking the potential of plant phenotyping data through integration and data-driven approaches. PMID:32923745
Data synthesis for crop variety evaluation. A review. PMID:32863892
Document or Lose It-On the Importance of Information Management for Genetic Resources Conservation in Genebanks. PMID:32824806
WTO, an ontology for wheat traits and phenotypes in scientific publications. PMID:32634868
Genebank Phenomics: A Strategic Approach to Enhance Value and Utilization of Crop Germplasm. PMID:32610615
BRIDGE - A Visual Analytics Web Tool for Barley Genebank Genomics. PMID:32595658
Enabling reusability of plant phenomic datasets with MIAPPE 1.1. PMID:32171029
Programmatic Access to FAIRified Digital Plant Genetic Resources. PMID:31913851
Experimental Design and Sample Preparation in Forest Tree Metabolomics. PMID:31766588
Characterization of Cover Crop Rooting Types from Integration of Rhizobox Imaging and Root Atlas Information. PMID:31744188
A Framework for Evaluating Field-Based, High-Throughput Phenotyping Systems: A Meta-Analysis. PMID:31426499
Cyberinfrastructure to Improve Forest Health and Productivity: The Role of Tree Databases in Connecting Genomes, Phenomes, and the Environment. PMID:31293610
Modeling Crop Genetic Resources Phenotyping Information Systems. PMID:31281323
Crop Phenomics: Current Status and Perspectives. PMID:31214228
Review: New sensors and data-driven approaches-A path to next generation phenomics. PMID:31003608
Systems Biology and Multi-Omics Integration: Viewpoints from the Metabolomics Research Community. PMID:31003499
BrAPI-an application programming interface for plant breeding applications. PMID:30903186
The Phenotyping Dilemma-The Challenges of a Diversified Phenotyping Community. PMID:30873188
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
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. PMID:30239679
Dealing with multi-source and multi-scale information in plant phenomics: the ontology-driven Phenotyping Hybrid Information System. PMID:30152011
Unlocking historical phenotypic data from an ex situ collection to enhance the informed utilization of genetic resources of barley (Hordeum sp.). PMID:29959470
The 'PhenoBox', a flexible, automated, open-source plant phenotyping solution. PMID:29621393
The European Bioinformatics Institute in 2017: data coordination and integration. PMID:29186510
Ensembl Genomes 2018: an integrated omics infrastructure for non-vertebrate species. PMID:29092050
An Automated Method for High-Throughput Screening of Arabidopsis Rosette Growth in Multi-Well Plates and Its Validation in Stress Conditions. PMID:29046681
Similarities between plant traits based on their connection to underlying gene functions. PMID:28797052
Use of Natural Diversity and Biotechnology to Increase the Quality and Nutritional Content of Tomato and Grape. PMID:28553296
Floral pathway integrator gene expression mediates gradual transmission of environmental and endogenous cues to flowering time. PMID:28439467
Plant specimen contextual data consensus. PMID:28369359
Reshaping Plant Biology: Qualitative and Quantitative Descriptors for Plant Morphology. PMID:28217137
AraPheno: a public database for Arabidopsis thaliana phenotypes. PMID:27924043
Towards an open grapevine information system. PMID:27917288
Measures for interoperability of phenotypic data: minimum information requirements and formatting. PMID:27843484
Redefining 'stress resistance genes', and why it matters. PMID:27702993
EURISCO: The European search catalogue for plant genetic resources. PMID:27580718
Quantitative monitoring of Arabidopsis thaliana growth and development using high-throughput plant phenotyping. PMID:27529152
The Quest for Understanding Phenotypic Variation via Integrated Approaches in the Field Environment. PMID:27482076
PGP repository: a plant phenomics and genomics data publication infrastructure. PMID:27087305
LEAFDATA: a literature-curated database for Arabidopsis leaf development. PMID:26884807
Phenotyping in Plants. Preface. PMID:26512383
Data integration in biological research: an overview. PMID:26336651 -
Measures for interoperability of phenotypic data: minimum information requirements and formatting
PubMed citations: 42.
42 articles citing: Measures for interoperability of phenotypic data: minimum information requirements and formatting
Advanced high-throughput plant phenotyping techniques for genome-wide association studies: A review. PMID:35003802
Mutation of the ALBOSTRIANS Ohnologous Gene HvCMF3 Impairs Chloroplast Development and Thylakoid Architecture in Barley. PMID:34659298
A Critical Review of the Current Global Ex Situ Conservation System for Plant Agrobiodiversity. II. Strengths and Weaknesses of the Current System and Recommendations for Its Improvement. PMID:34579439
ISA API: An open platform for interoperable life science experimental metadata. PMID:34528664
Opportunities and limits of controlled-environment plant phenotyping for climate response traits. PMID:34302493
Evolutionary Origins of Drought Tolerance in Spermatophytes. PMID:34239520
Challenges for FAIR-compliant description and comparison of crop phenotype data with standardized controlled vocabularies. PMID:33991093
Improving the completeness of public metadata accompanying omics studies. PMID:33858487
Meta-GWAS for quantitative trait loci identification in soybean. PMID:33856425
Implementing FAIR data management within the German Network for Bioinformatics Infrastructure (de.NBI) exemplified by selected use cases. PMID:33589928
Global Wheat Head Detection (GWHD) Dataset: A Large and Diverse Dataset of High-Resolution RGB-Labelled Images to Develop and Benchmark Wheat Head Detection Methods. PMID:33313551
Plant Phenotyping: Past, Present, and Future. PMID:33313536
Applying FAIR Principles to Plant Phenotypic Data Management in GnpIS. PMID:33313522
The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems. PMID:33205138
Food Phenotyping: Recording and Processing of Non-Targeted Liquid Chromatography Mass Spectrometry Data for Verifying Food Authenticity. PMID:32878155
Data synthesis for crop variety evaluation. A review. PMID:32863892
Document or Lose It-On the Importance of Information Management for Genetic Resources Conservation in Genebanks. PMID:32824806
WTO, an ontology for wheat traits and phenotypes in scientific publications. PMID:32634868
Genebank Phenomics: A Strategic Approach to Enhance Value and Utilization of Crop Germplasm. PMID:32610615
BRIDGE - A Visual Analytics Web Tool for Barley Genebank Genomics. PMID:32595658
Enabling reusability of plant phenomic datasets with MIAPPE 1.1. PMID:32171029
Semantic concept schema of the linear mixed model of experimental observations. PMID:32109232
Programmatic Access to FAIRified Digital Plant Genetic Resources. PMID:31913851
Cyberinfrastructure and resources to enable an integrative approach to studying forest trees. PMID:31892954
Experimental Design and Sample Preparation in Forest Tree Metabolomics. PMID:31766588
Modeling Crop Genetic Resources Phenotyping Information Systems. PMID:31281323
The Plant Ontology Facilitates Comparisons of Plant Development Stages Across Species. PMID:31214208
To clean or not to clean phenotypic datasets for outlier plants in genetic analyses? PMID:31020325
Review: New sensors and data-driven approaches-A path to next generation phenomics. PMID:31003608
BrAPI-an application programming interface for plant breeding applications. PMID:30903186
The Phenotyping Dilemma-The Challenges of a Diversified Phenotyping Community. PMID:30873188
Computational aspects underlying genome to phenome analysis in plants. PMID:30500991
AgBioData consortium recommendations for sustainable genomics and genetics databases for agriculture. PMID:30239679
Growing and cultivating the forest genomics database, TreeGenes. PMID:30239664
Dealing with multi-source and multi-scale information in plant phenomics: the ontology-driven Phenotyping Hybrid Information System. PMID:30152011
Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data. PMID:30115101
The electronic Rothamsted Archive (e-RA), an online resource for data from the Rothamsted long-term experiments. PMID:29762552
The 'PhenoBox', a flexible, automated, open-source plant phenotyping solution. PMID:29621393
Predicting plant biomass accumulation from image-derived parameters. PMID:29346559
PlantCV v2: Image analysis software for high-throughput plant phenotyping. PMID:29209576
The European Bioinformatics Institute in 2017: data coordination and integration. PMID:29186510
EURISCO: The European search catalogue for plant genetic resources. PMID:27580718 - http://dx.doi.org/https://doi.org/10.1111/nph.16544
Tags:
Tags
More detailed information about this field from each metasource.
biological sample
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
phenotype
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
protocol
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
report
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
study design
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
treatment
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
Tags
More detailed information about this field from each metasource.
biological sample
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
phenotype
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
protocol
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
report
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
metasource: Fairsharing.org
version: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
study design
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
treatment
metasource: Fairsharing.orgversion: FAIRsharing.org: MIAPPE; Minimum Information about Plant Phenotyping Experiment; DOI: https://doi.org/10.25504/FAIRsharing.nd9ce9; Last edited: Feb. 7, 2021, 9:09 p.m.; Last accessed: Jan 03 2022 7:13 p.m.
biological sample phenotype protocol report study design treatment
Need help integrating and/or managing biomedical data?