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Preparation for EMPHASIS: European Infrastructure for multi-scale Plant Phenomics and Simulation for food security in a changing climate

Deliverables

Link with other information systems

Integration of EMPHASIS into general e-infrastructures (European and national level)

Data policy rules

Data policy rules

Map of data practices

Map of current data management organisation and storage in national infrastructures

Mapping of training activities

Mapping of training activities related to different aspects of plant phenotyping

Criteria for life cycle assessment

Criteria and processes for life cycle of research infrastructure within different pillars of research infrastructure categories from EMPHASIS processes

Report on current and future user demands

Report on current and future user demands based on mapping of existing user demands of access to different infrastructure categories and access modes

Report on operations for selection of host country for EMPHASIS central hub and potential services

Selection procedure for the host country of the hub and the services

Trend document

Forsight study and trend analysis to evaluate future developments of sensors user demand user diversity etc

Report on an integrated business plan

Report on an integrated business plan for EMPHASIS including Infrastructure design user demand einfrastructure financial processes legal framework governance communication strategy

Analysis of imaging approaches

Mapping and gapping analysis of imaging approaches in different PPI

Report on user orientation towards services

Report on the orientation of users towars different service scenarios that may be provided within EMPHASIS

Governance framework including roles and responsibilities for the implementation phase

Report on operational processes of EMPHASIS for the implementation phase

Gap analysis

Gap analysis including first ideas to overcome these in i) controlled environment/ high throughput phenotyping ii) intensive, highly equipped and semi-controlled field sites, iii) lean field phenotyping sites, iv) modelling platforms.

Governance and Statutes for the EMPHASIS Operational Phase

Define Statutes ruling the governance and other procedures in EMPHASIS

Criteria list for user demand

Criteria list for user demands in different infrastructure pillars and access modes

Mapping: list of existing/upcoming infrastructures

Mapping: list of existing/upcoming infrastructures in i) controlled environment/ high throughput phenotyping ii) intensive, highly equipped and semi-controlled field sites, iii) lean field phenotyping sites, iv) modelling platforms.

Criteria list for infrastructure

List of criteria defing different categories of infrastructure i) controlled environment/ high throughput phenotyping ii) intensive, highly equipped and semi-controlled field sites, iii) lean field phenotyping sites, iv) modelling platforms

Strategy: Data Management Plan

Strategy (Data Management Plan) for a European Plant Phenotyping Information System

Publications

EMPHASIS-PREP Deliverable: D3.3: Report on user orientation towards EMPHASIS services

Author(s): Michela Janni, Silvana Moscatelli, Francesco Loreto
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164072

EMPHASIS-PREP Deliverable D5.6: Governance and Statutes for the EMPHASIS Operational Phase

Author(s): Richard Traini
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164219

EMPHASIS-PREP Deliverable D5.4: Governance framework including roles and responsibilities for the implementation phase

Author(s): Richard Traini
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164206

EMPHASIS-PREP Deliverable 2.4: Gap analysis

Author(s): Morisse, Merlijn; Wells, Darren; Alary, Pierre-Etienne; Hollebecq, Jean-Eudes; Saint Cast, Clement; Pieruschka, Roland; Dhondt, Stijn
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766724

EMPHASIS-PREP Deliverable 2.2: Criteria list for user demands in different access modes

Author(s): Janni, Michela; Moscatelli, Silvana; Ceriotti, Aldo; Loreto, Francesco
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766720

EMPHASIS-PREP Deliverable 4.2: Strategy: Data Management Plan

Author(s): Pieruschka, Roland; Fahrner, Sven; Tardieu, Francois; Usadel, Björn
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766982

EMPHASIS-PREP Deliverable D3.4: Foresight study and trend analysis to evaluate future developments in plant phenotyping

Author(s): Sven Fahrner, Roland Pieruschka
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164112

EMPHASIS-PREP Deliverable 2.3: Mapping: list of existing and upcoming infrastructures

Author(s): Morisse, Merlijn; Wells, Darren; Alary, Pierre-Etienne; Janni, Michela; Fahrner, Sven; Hollebecq, Jean-Eudes; Saint Cast, Clement; Dhondt, Stijn
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766722

EMPHASIS-PREP Deliverable 2.1: Criteria list for infrastructure

Author(s): Morisse, Merlijn; Wells, Darren; Alary, Pierre-Etienne; Pieruschka, Roland; Dhondt, Stijn
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3765459

EMPHASIS-PREP Deliverable 2.5: Report on current and future user demands

Author(s): Janni, Michela; Moscatelli, Silvana; Loreto, Francesco
Published in: 2020
Publisher: Zenodo
DOI: 10.5281/zenodo.4544533

EMPHASIS-PREP Deliverable D6.2: Report on an integrated business plan

Author(s): Sven Fahrner, Roland Pieruschka
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164222

EMPHASIS-PREP Deliverable D5.5: Report on operations for selection of host country for EMPHASIS

Author(s): Richard Traini
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164217

EMPHASIS-PREP Deliverable 3.2: Mapping of training activities

Author(s): Moscatelli, Silvana; Janni, Michela; Loreto, Francesco
Published in: 2018
Publisher: Zenodo
DOI: 10.5281/zenodo.3766746

From Bench to Bountiful Harvests Multinational Arabidopsis Steering Committee (MASC) Annual Report 2018/2019

Author(s): The Multinational Arabidopsis Steering Committee
Published in: MASC Annual Report, 2019, Page(s) 32-33
Publisher: MASC

EMPHASIS-PREP Deliverable 4.3: Link with other information systems

Author(s): Tardieu, Francois; Neveu, Pascal; Pommier, Cyril; Pieruschka, Roland; Saint Cast, Clément; Draye, Xavier; Cabrera Bosquet, Llorenç; Usadel, Björn
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766986

EMPHASIS-PREP Deliverable: D2.6. Criteria for life cycle assessment

Author(s): Merlijn Morisse, Darren Wells, Pierre-Etienne Alary, Jean-Eudes Hollebecq, Clement Saint Cast, Michela Janni, Sven Fahrner, Roland Pieruschka, Stijn Dhondt
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5163770

Data management challenges for artificial intelligence in plant and agricultural research

Author(s): Hugh F. Williamson, Julia Brettschneider, Mario Caccamo, Robert P. Davey, Carole Goble, Paul J. Kersey, Sean May, Richard J. Morris, Richard Ostler, Tony Pridmore, Chris Rawlings, David Studholme, Sotirios A. Tsaftaris, Sabina Leonelli
Published in: F1000Research, 10, 2021, Page(s) 324, ISSN 2046-1402
Publisher: F1000 Research Ltd.
DOI: 10.12688/f1000research.52204.1

EMPHASIS-PREP Deliverable D6.3: Report on services tested and potential KPIs (key performance indicators)

Author(s): Sven Fahrner, Roland Pieruschka
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164225

EMPHASIS-PREP Deliverable 4.1: Map of data practices

Author(s): Tardieu, Francois; Alary, Pierre-Etienne; Usadel, Björn; van Zedde, Rick; Pridmore, Tony; Neveu, Pascal
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3766775

Bibliographic coupling maps of the plant phenotyping, image analysis tool, plant model and crop model communities

Author(s): Cast, Clément Saint
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.4075293

EMPHASIS-PREP Deliverable 4.4: Analysis of imaging approaches

Author(s): Villiers, de, H.A.C.; Zedde, van de, H.J.; Barth, R.; Pridmore, Tony
Published in: 2019
Publisher: Zenodo
DOI: 10.5281/zenodo.3767003

EMPHASIS-PREP Deliverable D4.5: Data policy rules

Author(s): Francois Tardieu, Pascal Neveu, Cyril Pommier, Björn Usadel
Published in: 2021
Publisher: Zenodo
DOI: 10.5281/zenodo.5164187

Opportunities and Limitations of Crop Phenotyping in Southern European Countries

Author(s): Joaquim Miguel Costa, Jorge Marques da Silva, Carla Pinheiro, Matilde Barón, Photini Mylona, Mauro Centritto, Matthew Haworth, Francesco Loreto, Baris Uzilday, Ismail Turkan, Maria Margarida Oliveira
Published in: Frontiers in Plant Science, 10, 2019, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2019.01125

Phenotyping: New Windows into the Plant for Breeders

Author(s): Michelle Watt, Fabio Fiorani, Björn Usadel, Uwe Rascher, Onno Muller, Ulrich Schurr
Published in: Annual Review of Plant Biology, 71/1, 2020, Page(s) 689-712, ISSN 1543-5008
Publisher: Annual Reviews, Inc.
DOI: 10.1146/annurev-arplant-042916-041124

Current status of the multinational Arabidopsis community

Author(s): Geraint Parry, Nicholas J. Provart, Siobhan M. Brady, Baris Uzilday, Keith Adams, Wagner Araújo, Sébastien Aubourg, Sacha Baginsky, Erica Bakker, Katja Bärenfaller, Jacqui Batley, Mike Beale, Mark Beilstein, Youssef Belkhadir, Gregor Mendel, Tanya Berardini, Joy Bergelson, Francisca Blanco‐Herrera, Siobhan Brady, Hans‐Peter Braun, Steve Briggs, Lynette Brownfield, Maura Cardarelli, Marcos C
Published in: Plant Direct, 4/7, 2020, ISSN 2475-4455
Publisher: Wiley & American Society of Plant Biologists and Society for Experimental Biology
DOI: 10.1002/pld3.248

European infrastructures for sustainable agriculture

Author(s): Jacques Roy, François Tardieu, Michèle Tixier-Boichard, Ulrich Schurr
Published in: Nature Plants, 3/10, 2017, Page(s) 756-758, ISSN 2055-0278
Publisher: Macmillan Publishers Limited
DOI: 10.1038/s41477-017-0027-3

Plant Phenotyping Research Trends, a Science Mapping Approach

Author(s): Corrado Costa, Ulrich Schurr, Francesco Loreto, Paolo Menesatti, Sebastien Carpentier
Published in: Frontiers in Plant Science, 9, 2019, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2018.01933

The Phenotyping Dilemma—The Challenges of a Diversified Phenotyping Community

Author(s): Eva Rosenqvist, Dominik K. Großkinsky, Carl-Otto Ottosen, Rick van de Zedde
Published in: Frontiers in Plant Science, 10, 2019, ISSN 1664-462X
Publisher: Frontiers Media S. A.
DOI: 10.3389/fpls.2019.00163

Plant Phenotyping: Past, Present, and Future

Author(s): Roland Pieruschka, Uli Schurr
Published in: Plant Phenomics, 2019, 2019, Page(s) 1-6, ISSN 2643-6515
Publisher: American Association for the Advancement of Science
DOI: 10.34133/2019/7507131

Enabling reusability of plant phenomic datasets with MIAPPE 1.1

Author(s): Evangelia A. Papoutsoglou, Daniel Faria, Daniel Arend, Elizabeth Arnaud, Ioannis N. Athanasiadis, Inês Chaves, Frederik Coppens, Guillaume Cornut, Bruno V. Costa, Hanna Ćwiek‐Kupczyńska, Bert Droesbeke, Richard Finkers, Kristina Gruden, Astrid Junker, Graham J. King, Paweł Krajewski, Matthias Lange, Marie‐Angélique Laporte, Célia Michotey, Markus Oppermann, Richard Ostler, Hendrik Poorte
Published in: New Phytologist, 227/1, 2020, Page(s) 260-273, ISSN 0028-646X
Publisher: Blackwell Publishing Inc.
DOI: 10.1111/nph.16544

Integrating plant phenotyping community in Europe

Author(s): Pieruschka, Roland
Published in: COST Action, Novi Sad, Serbia, 2017-09-29 - 2017-09-30, 1, 2017, Page(s) 13, ISBN 978-86-80417-77-6
Publisher: EPPN2020

Datasets

Global Plant Phenotyping Survey 2020/21

Author(s): Sven Fahrner; Michela Janni; Roland Pieruschka; Lisa Vincenz-Donnelly; Philipp von Gillhaussen
Published in: Zenodo