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Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated Plants WP10: Project documentation and internet portal Christoph U.Germeier

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Page 1: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Federal Centre of Breeding Research on Cultivated Plants

WP10: Project documentation and internet portal

Christoph U.Germeier

WP10: Project documentation and internet portal

Christoph U.Germeier

Page 2: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Project Management and Coordination through an internet portal

Scientific coordination of the implementation of the action

- Ensure working of logistics.

-> Project web applications will be available for:

- Ensure orthogonality of field and lab work.- Ensure inclusion of results into an online accessible database.- Statistical analysis and generation of knowledge from the data.

- Generate fieldplans according an agreed randomization design:suggested design: augmented randomized block design

- Generate downloadable pdf and Excel sheets for data acquisitionin the field including methodology description

- Downloadable lab protocols including methodology description and sample lists

- Upload or online input of project results including pictures

Page 3: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Project Platform and Web Application

- The project platform consists of two parts

1. A content management system (Typo 3) holding description of objectives, actions and means involved, list of partners and of sponsors, link to the European Avena Database, link to a test and productive version of the web applicationfile upload and download mechanism

2. A web application (JEE 5, JBoss)for interactive work with the project database (MySQL)and the EADB (Oracle)

Page 4: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

http://eadb.bafz.de/aveq/1. A content management part

here our institute labels should rotate

Page 5: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Link to the test application

Page 6: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Web application - List working collection

Page 7: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Web application - Generate Fieldplan: Ontology

Working collection:Subset of accessions selected from different sources to be used in a projectEvalution:Plan for characterisation and evaluation of a subset of the working collection in a certain vegetation period

(Field) experiment:Arrangement of treatment - accession combinations (treatments) in a certain randomisation design (experiment = randomization unit)

Fieldplan:Layout of the field design for a certain experiment (matrix of plots arranged in lanes)

Lane:Track of the sowing device, contains a (certain) number of rows.

Plot:Sowing unit in the lane with a certain treatment / accession

Row:Single line of plants

Page 8: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Web application - Generate Fieldplan: Roles and Workflow

The project group decides on a set of accessions for a certain evaluation

The coordinator initializes the evaluation and its set of accessions in the project database: this ensures orthogonality of accessions evaluated on different sites in one year.

Project partners define online their experiment (name) with their restrictions: number of plots per lane (determined by their field size)and generate their adapted randomized field plan

Page 9: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Web application - Generate Fieldplan

Page 10: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Web application - Methodology List

Page 11: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

View Experiments

View Experiment

Scale

Page 12: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Fieldlist

Fieldlist

Page 13: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Plot Yield

Input Plot Yield From Scale

Page 14: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Enter TGW

Enter TGW

Page 15: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Enter TGW

Enter TGW

Page 16: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Enter TGW

Enter TGW

Page 17: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Enter TGW

Enter TGW

Page 18: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Enter TGW

Enter TGW

Page 19: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Moisture & Testweight

Input Moisture & Testweight

Page 20: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Save Fieldlist

Page 21: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Thanks for your attention

Page 22: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Scale

Page 23: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

General View

Page 24: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

General View

General View

Page 25: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

List Working Collection

List Working Collection

Page 26: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

View Fieldplans

View Fieldplans

Page 27: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Fieldplan

Page 28: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Fieldlist

Fieldlist

Page 29: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Generate Fieldplan

Generate Fieldplan

Page 30: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Generate Fieldplan

Generate Fieldplan

Page 31: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Edit Experiment

Edit Experiment

Page 32: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Edit Experiment

Page 33: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Edit Experiment

Page 34: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Edit Experiment

Page 35: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

CSV (Excel-File)

Page 36: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Upload Picture

Upload Pictures

Page 37: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data For Upload

Input Data For Upload

Page 38: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data & Upload Picture

Input Data & Upload Picture

Page 39: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

List Methodology

List Methodology

Page 40: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Edit Methodology

Edit Methodology

Page 41: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Search Project

Search Project

Page 42: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data For Search Project

Input Data For Search Project

Page 43: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data For Search Project

Input Data For Search Project

Page 44: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Select Site

Select Site

Page 45: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data For Select Site

Page 46: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Input Data For Select Site

Input Data For Select Site

Page 47: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Modification + Save For Select Site

Modification & Save For Select Site

Page 48: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007

Index• Edit Experiment - Page 15-18• Edit Methodology - Page 35• Generate Fieldplan - Page 13-14• List Methodology - Page 34• List Working Collection - Page 9• Search Project - Page 36-38• Select Site - Page 39-42• Upload Pictures - Page 31-33• View Experiment (Fieldlist) - Page 19-29

(Fieldplan) Page 11-12 (CSV) Page 30

• View Fieldplan - Page 10-12

Page 49: Avena genetic resources for quality in human consumption (AVEQ) Startup Meeting, Clermont Ferrand 2007 Federal Centre of Breeding Research on Cultivated

Avena genetic resources for quality in human consumption (AVEQ)Startup Meeting, Clermont Ferrand 2007