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Integrated Analysis of Omics Data

  • Photo: 
    Håkon Sparre

NOVA PhD course of 5 ECTS, organised by Docent Erik Alexandersson, Swedish University of Agricultural Sciences.
Course dates and location: 11-15 Jun. 2018, in Alnarp, Sweden.

The course is the first course in the NOVA PhD course series "Phenotyping Technologies in Plant-environment Interactions" which is scheduled for 2018-2021:

Course Description
The changing climate demands developing faster breeding methods to provide effective solutions for the future agriculture. This course series aims to introduce the emerging research fields of high throughput plant phenotyping used for plant-environment interactions from highly controlled environments to field conditions, in combination with omics technologies including bioinformatics and R-computing.

Content
The course series aims to introduce the emerging technologies related to i) controlled environments that allow simulations and testing future climatic conditions, ii) automated and image based plant phenotyping technologies that are to remove bottlenecks in between genotype to phenotype screens, iii) high throughput field phenotyping technologies and iv) transcriptomics with bioinformatics and R-computing that are required for the deeper understanding of the molecular networks. The objective of the course series is to provide the participating students with the basic knowledge and understanding of the emerging fields of plant phenomics and data processing that can serve breeding efforts in modern agriculture.

Programme Outline
Lecture topics:

  1. Greenhouse environmental control and crop physiology in greenhouse conditions
  2. Non-invasive phenotyping technologies (sensors and data processing)
  3. Phenotyping plant physiology (abiotic and biotic stresses, photosynthesis)
  4. Transcriptomics technologies and R-computing of time course data

Pre-/Post-Campus Assignments
Pre; literature studies on the course topics
Post; learning diaries based on lectures, drafting a research plan

Learning Outcomes
Participation in lectures and daily learning diaries (2 ECTS)

  • knowledge about the crop physiology in greenhouse context and management methods
  • knowledge about the whole range of analysis sensors available for plant phenotyping
  • gaining understanding of the opportunities and challenges in experimental design in plant phenotyping


Participation in the workshops (1 ECTS)

  • gaining hands on experience in plant-environment treatments, image based data acquisition, and molecular omics technologies, and data processing


Literature study, presentation and a research plan as pre and post assignments (2 ECTS)

  • gaining deeper understanding of the chosen biological process and chosen technology through own study
  • application of gained knowledge in the research plan

Evaluation Elements
Active participation in assignments and workshops, presentation, submission of learning diaries and post-assignments (research plan).

Pedagogical Approach
Student activation by introductory pre-course assignments, in depth scientific lectures, hands-on experience during work shops and post-course assignments that allow application of the gained knowledge.

Estimated Workload

  • 15 hours seminar
  • 15 hours lecture
  • 90 hours independent work
  • 30 hours other

Prerequisite Knowledge
MSc degree in a relevant field is required. Relevant fields: agriculture, biological and environmental sciences.

Admission
Admission for NOVA courses is handled by the course organiser/ the NOVA member institution organising the course. Please see the links in the margin for more information.

Apply here

Published 18. April 2017 - 16:12 - Updated 16. October 2017 - 10:52

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