Events And Training activities

Events

Conference “Biology and significance of angiosperm resurrection plants”, 17 June, 2021,Golden Sands Black Sea Resort, Bulgaria

Workshop: Bioinformatics and computational modeling - Supervised machine learning approaches for gene regulatory network reconstruction, May 19, 2021, Online

Workshop: Lipidomics, January 18 to January 19, 2021, Online

Workshop: Plant Metabolomics, October 22 to October 23, 2020, Online

Workshop: An Introduction to NGS Applications & Analysis, July 6 to July 10, Online

Workshop: Biology on the Command Line, June 22 to June 26, Online

RESIST Mid-Term review meeting is to be held on April 3rd 2020 at the Center of Plant Systems Biology and Biotechnology, Plovdiv, Bulgaria

RESIST Kick-off meeting was held on 11-12 April 2019 at Hotel Ramada, Plovdiv, Bulgaria


Training activities

A series of training events (courses and workshops) will be organized in order to enhance the transfer of knowledge between the partners and improve the qualifications of the committed scientists in specific fields such as plant -omics analyses, bioinformatics and mathematical modelling, soft skills acquisition etc. ------------------------


  1. Course Entrepreneurship and transferrable skills (Bioatlantis): The course will be organized in BioAtlantis with the purpose to throw light on different aspects of the process of establishment, organization and management of new enterprises. Moreover, the set of transferrable skills, which are not directly related to a particular work position, but can be applied to a wide range of different jobs and industries, will also be discussed. Topics include:
    • Identification of opportunities to establish new enterprises; market analyses and preparation of business plans;
    • Role of research and innovation (R&I) for the profitability and growth of business entities;
    • Development of transferrable skills like leadership, motivation, communication and adequate time management.

  2. Workshop Plant genetics and crop health (BioAtlantis): The course will be divided into two modules, the first of which will be focused on basics of plant genetics and genomics, while the second one will be dedicated to biostimulant-based technologies for crop protection. The event will also involve a guided tour to present the largest fully automated seaweed extraction facility in Britain and Ireland, which uses technologies for separation, purification and spray drying. Topics of the workshop include:
    • Basics of quantitative genetics (module 1);
    • Plant translational research in the genomics era (module 1);
    • Development of innovative products for crop protection (module 2);
    • Molecular approaches to assess the mechanism of biostimulant – plant interactions (module 2).

  3. Course Project writing and management (CPSBB): The course will introduce the EU research landscape and focus on the basic principles of project writing and management. Topics include:
    • IIntroduction to the EU research landscape. Funding opportunities within H2020 (the main pillars) and other European funding instruments for groups, postdocs, and ESRs;
    • How to write project proposals: basics learned from successful candidates and from evaluators;
    • Profession project manager: insights from the scientific managers.

  4. Workshop: Bioinformatics and computational modeling - Supervised machine learning approaches for gene regulatory network reconstruction (UP): The workshop will provide an introduction of supervised machine learning approaches for reconstruction of gene regulatory networks (GRNs) using large-scale transcriptomics data. In the first part of the event, we will provide an overview of supervised machine learning approaches, namely support vector machines and random forests. We will then summarise how these approaches are used in addressing the problem of GRN reconstruction when transcriptomics data are available. We will also cover aspects related to assessing the performance of reconstructions. The second part of the workshop will be dedicated to showcasing the applications of these approaches to reconstructing GRNs in model plants and crops, with emphasis on Arabidopsis thaliana and maize. We will also present packages and tools developed in house that can be used in addressing this problem in future applications.

  5. Sign up for Workshop Bioinformatics and mathematical modelling here, by May 17, 2021


  6. Workshop on Plant lipidomics (BGU): The workshop will consist of a theoretical part presenting the methods of sample preparation, data analysis, and biostatistics, as well as hands-on training with the available machines. Topics include:
    • Sample preparation and untargeted lipid profiling using LC-MS;
    • Data analysis: normalization, clustering, principle component analysis (PCA);
    • Statistical analysis and biological interpretation.

    Sign up for Workshop "Plant lipidomics" here, by January 15, 2021


  7. Course Plant stress physiology (CPSBB): The course introduces the concepts of biotic, abiotic, and oxidative stress signalling in plants and cover the genetic, epigenetic, and molecular mechanisms of regulation of stress tolerance. Topics include:
    • Introduction to abiotic and oxidative stresses. Plant abiotic and biotic stress tolerance;
    • Genetic and epigenetic regulations of stress tolerance in plants;
    • Plant hormones and stress signaling.

  8. Workshop "Plant metabolomics" (MPG): The workshop introduces the basic requirements to understand plant metabolism and present the techniques used to study plant metabolic processes. The lectures provide a wide overview of different metabolomics concepts and the common workflows used in plant metabolomics as well as aspects and techniques used for data analysis. The focus is on gas- and liquid chromatography- mass spectrometry (GC/LC-MS) as the most frequently used in plant metabolomics, but nuclear magnetic resonance (NMR) spectroscopy as a means of elucidating metabolite structures also are reviewed. The workshop is divided into the following parts:
    • General introduction about metabolomics. Principal and basics of GC-MS and LC-MS analysis;
    • Practice and chromatogram evaluation for GC/LC-MS;
    • NMR-based metabolomics for elucidation of metabolite structures.

    Sign up for Workshop "Plant metabolomics" here, by October 15, 2020


  9. Workshop "An Introduction to NGS Applications & Analysis" (July 6-July 10, 2020): This workshop focus on NGS and the analysis of NGS-derived (short read) data. After introducing the different NGS technologies and applications, participants run through a sample NGS analysis pipeline including quality assessment and preprocessing of NGS data, mapping sequencing reads, identification of differentially expressed transcripts, clustering and GO enrichment. It is assumed that those participating are F familiar with working on the command line (or have already attended the first workshop), but do not need to be familiar with NGS analysis specifically.

    Sign up for Workshop "An Introduction to NGS Applications & Analysis" here, by June 29, 2020


  10. Workshop "Biology on the Command Line" (June 22-June 26, 2020): The first stumbling block for many experimental biologists when faced with a bioinformatics project is the need to work on a command line terminal in a Linux/UNIX environment. This skill is a prerequisite for any scientist wishing to analyze their NGS datasets (and many others). The primary focus of the first workshop is to build familiarity with working on the command line. The workshop is suitable for those with absolutely no experience with Linux/UNIX systems (covering the basics such as file system navigation and viewing and manipulating files) and progresses to more advanced topics (grep, sed and awk, package installation and scripting). These topics will be covered in the context of the biological sciences and so will also include an introduction to the analysis of file types one might commonly find when analyzing NGS data (e.g. FASTA/FASTQ/BED/GFF formats).

    Sign up for Workshop "Biology on the Command Line" here, by June 15, 2020