From Cell to Field

– Pattern Recognition, Machine Learning and Modelling in the context of Plant Phenotyping –

jointly organised by

Data availability on different scales – from plant molecular to ecosystems level – is rapidly increasing. New algorithms, modelling strategies and sensors are increasing the possibilities of plant traits and data accessibility as well as data integration towards comprehensive phenotyping. Expectations are thus high that phenotyping will open new ways for basic plant research, plant breeding, agricultural management and environmental protection. A key for advance is the interaction between plant, technical and mathematical sciences. This meeting will bring together plant researchers and pattern recognition experts in order to discuss state-of-the-art methods of modelling and machine learning and their applications for plant research and pave the way for future scientific collaborations.

Keywords: Machine learning, deep learning, CNNs, high-throughput plant phenotyping, image analysis, pattern recognition, root phenotyping, plant sensors, hyperspectral imaging, data analysis, modelling

About APPN:

The APPN initiative aims to unite the Austrian plant phenotyping community in order to facilitate research collaborations, development of plant phenotyping infrastructure and methodologies, staff training, staff exchange and networking activities. APPN actively supports the ESFRI-EMPHASIS project.

About OAGM:

The purpose of the Austrian Association for Pattern Recognition (OAGM) is the ongoing exchange of information and experience, regarding the state and technology of pattern recognition and its applications between the members of the association and the international community. Since 1981, the Austrian Association for Pattern Recognition has been a society of its own and operates also as a working group within the Austrian Computer Society (OCG).

Date:  25th June, 2020

Venue: IMP lecture hall, VBC, Vienna, Austria

Abstract submission: 15th Mai 2020

Free registration

Preliminary Program


Start Registration

9:00 – 9:10

Welcome remarks, Stefanie Wienkoop & Markus Teige, University of Vienna

9:10 – 9:30

Jakub Jez, VBCF, "APPN initiative - available and upcoming national plant phenotyping infrastructure and services"

9:30 – 9:50

Peter M. Roth, Graz University of Technology, "OAGM initiative"

9:50 – 10:20

Sven Fahrner, Project Manager EMPHASIS"ESFRI-EMPHASIS Project, European- and International Plant Phenotyping Initiatives"

10:20 – 11:00

Coffee Break & Poster Session

Scientific Session 1: From cell…

Chair: Stefanie Wienkoop

11:00 – 11:45

Key Note: Wolfram Weckwerth, Mosys, University of Vienna, "Panomics meets germplasm - from lab to field"

11:45 – 12:15

Thomas Nägele, LMU München, "System Dynamics of Plant Acclimation"

12:15 – 13:00

Flash talks (á 15min) based on submitted abstracts

13:00 – 14:00

Lunch @IMPcafeteria

Scientific Session 2: Via plant/root…

Chair: Markus Teige

14:00 – 14:45

Key Note: Astrid Juncker, IPK Gatersleben, title tba.

14:45 – 15:05

Verena Ibl, University of Vienna, "Barley germination and root tracking:  The usage of a D-root Lego® BrickBlackBox (BIBLOX) for studies #asnearaspossibletonature"

15:05 – 15:50

Flash talks (á 15min) based on submitted abstracts

15:50 – 16:20

Coffee Break & Poster Session

Scientific Session 3: To data & modelling…

Chair: Peter M Roth

16:20 – 17:00

Key Note: Kristina Gruden, National Institute of Biology (NIB), SVN, "Using prior knowledge to model plant responses to stress"

17:00 – 17:45

Flash talks (á 15min) based on submitted abstracts

17:45 – 18:00

Closing remarks

from 18:00

Networking, wine and snacks, optional PlantS Facility tour

Looking forward to meeting you at the VBC!

Yours, organising committee

Stefanie Wienkoop, Markus Teige, Peter M. Roth and Jakub Jez

Contact details:

Stefanie Wienkoop
Department Ecogenomics and Systems Biology, University of Vienna

Markus Teige
Department of Biochemistry and Cell Biology, University of Vienna

Peter M. Roth
Graz University of Technology
Institute of Computer Graphics and Vision
+43 (0) 316 873 5087

Jakub Jez
Vienna BioCenter Core Facilities
Plant Sciences
+43 1 796 2324 7090

We would like to thank our official partners for allowing us to offer free registration:


Abstract Submission