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17 events found

Content provider: VIB Bioinformatics Core  or Birmingham Metabolomics Tra... 

  • Metabolomics: Understanding Metabolism in the 21st Century

    14 September - 4 December 2020

    Elixir node event
    Metabolomics: Understanding Metabolism in the 21st Century https://tess.elixir-europe.org/events/metabolomics-understanding-metabolism-in-the-21st-century-9e853a8f-6a6f-40e7-9854-021aa2c07370 Metabolomics is an emerging field that aims to measure the complement of metabolites (the metabolome) in living organisms. The metabolome represents the downstream effect of an organism’s genome and its interaction with the environment. Metabolomics has a wide application area across the medical and biological sciences. The course provides an introduction to metabolomics, describes the tools and techniques we use to study the metabolome and explains why we want to study it. By the end of the course you will understand how metabolomics can revolutionise our understanding of metabolism. This course is designed as a 4-week course and the Educators will support discussions and learning in weeks 1 to 4 responding to questions and comments. The course will remain open for 12 weeks in total; if you join the course after week 5 we encourage you to read posts / comments on the platform to aid your learning. The Educators will answer comments and questions at a lower frequency in weeks 5 to 12. 2020-09-14 09:00:00 UTC 2020-12-04 23:59:00 UTC Birmingham Metabolomics Training Centre Metabolomics University of Birmingham bmtc@contacts.bham.ac.uk [] ScientistsPhD studentsMaster studentsUndergraduate students workshops_and_courses [] Metabolomics
  • Metabolomics Data Processing and Data Analysis

    12 October - 6 November 2020

    Elixir node event
    Metabolomics Data Processing and Data Analysis https://tess.elixir-europe.org/events/metabolomics-data-processing-and-data-analysis-3855a7d7-cf12-44e8-8d22-d6c252487ce0 This online course explores the tools and approaches that are used to process and analyse metabolomics data. You will investigate the challenges that are typically encountered in the analysis of metabolomics data, and provide solutions to overcome these problems. The materials in this course are delivered via the FutureLearn platform over a four week period, with an estimated learning time of four hours per week. Each week you will work through a number of steps to complete the learning material. A step may include a short video, an article, an exercise with step-by-step instructions, a test or a discussion to interact with your peer or the educators. All of the course material is uploaded to the FutureLearn platform so that you can complete the steps at a convenient time for you. We (the educators) support your learning via social discussions where you will be able post questions and comments to the team of educators and the other learners on the course throughout the 4 weeks. In the final week of the course there is a live question and answer session with the entire team of educators. You will be provided with information to join the question and answer session via the FutureLearn platform and you can post questions in advance. The question and answer session will be recorded and a video uploaded to the FutureLearn platform. If you do not have time to complete the course during the 4-week period you will retain access to the course material to revisit, as you are able. 2020-10-12 09:00:00 UTC 2020-11-06 23:59:00 UTC Birmingham Metabolomics Training Centre Bioinformatics Metabolomics University of Birmingham bmtc@contacts.bham.ac.uk [] ScientistsPhD studentsMaster students workshops_and_coursesmeetings_and_conferences [] MetabolomicsData processingData analysis
  • Image processing for correlated and multimodal imaging techniques

    19 October 2020 - 9 March 2021

    Elixir node event
    Image processing for correlated and multimodal imaging techniques https://tess.elixir-europe.org/events/image-processing-for-correlated-and-multimodal-imaging-techniques The purpose of this event is to dedicate three days of intense training to an audience with little or basic expertise. The program will first cover a full day of online lectures (19 October 2020), followed by two days of hands-on training (8 & 9 March 2021, Ghent). 2020-10-19 09:00:00 UTC 2021-03-09 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Basic statistics in R, online

    23 October - 20 November 2020

    Elixir node event
    Basic statistics in R, online https://tess.elixir-europe.org/events/basic-statistics-in-r-autumn-session This training gives an introduction to the use of the free statistical software language R. This introduction is aimed at beginners.  The training covers data handling, graphics, and basic statistical techniques (t-tests, one-way ANOVA and non-parametric equivalents). A full overview of statistical analyses in R including regression, two-way ANOVA... will be given in follow-up trainings. By following this training you will: get an idea of what R and Rstudio is use R to handle data: creating, reading, reformatting and writing data use R to create graphics use basic statistical techniques in R : t-tests, wilcoxon tests, one-way ANOVA, Kruskal Wallis tests, chi square tests, correlations, survival analysis... write and use R scripts 2020-10-23 09:00:00 UTC 2020-11-20 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Introduction to Protein Structure Analysis, autumn session

    29 October 2020

    Ghent, Belgium

    Elixir node event
    Introduction to Protein Structure Analysis, autumn session https://tess.elixir-europe.org/events/introduction-to-protein-structure-analysis-autumn-session Get to know the data generated from protein structure determination experiments (high-resolution NMR spectroscopy, X-ray crystallography, electron microscopy, ...) and where to get it. Display protein structure data and compare structures, through the use of Yasara. Create high-quality graphical representations of the structures. Calculate the effect of mutations on the stability of your protein. 2020-10-29 09:00:00 UTC 2020-10-29 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • Research Data Management in Life Sciences

    9 - 10 November 2020

    Elixir node event
    Research Data Management in Life Sciences https://tess.elixir-europe.org/events/research-data-management-in-life-sciences Upon completion of this course, participants should have an understanding of what Research Data Management is, and why it is important in academic research.  They should have an understanding of the FAIR data principles, and how they can make data more FAIR. They should be able to successfully manage all types of research data and to document both the research itself, as well as the data in a comprehensive way.  2020-11-09 09:00:00 UTC 2020-11-10 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] publish and share datacreate preservation documentationMigrate data to best mediaMigrate data to best formatcreate user documentationEstablish copyrightcite data sourcesmanage and store datadescribe and document datacapture data with metadataexplore existing data resourcesplan consent for sharingplan data management design research
  • Gentle hands-on introduction to Python programming

    16 - 30 November 2020

    Leuven, Belgium

    Elixir node event
    Gentle hands-on introduction to Python programming https://tess.elixir-europe.org/events/gentle-hands-on-introduction-to-python-programming-tbc-autumn Learning the basics of Python programming: different variables, reading files, writing files, conditional statements Being able to write a basic Python script from scratch 2020-11-16 09:00:00 UTC 2020-11-30 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Bulk RNASeq: from counts to differential expression

    24 November - 1 December 2020

    Elixir node event
    Bulk RNASeq: from counts to differential expression https://tess.elixir-europe.org/events/bulk-rnaseq-from-counts-to-differential-expression-eea507f0-2ad6-4e12-83ca-71f9f9101a4a The course will show: R tools to generate count files like featureCounts, and summarizeOverlaps are demonstrated Count files from HTSeq-Count, FeatureCounts, Salmon or Kallisto are used to identify differentially expressed genes After the live session participants can analyze their own count files. Issues can be handled during the Q&A session. 2020-11-24 09:00:00 UTC 2020-12-01 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Quality Assurance and Quality Control in Metabolomics

    30 November - 18 December 2020

    Elixir node event
    Quality Assurance and Quality Control in Metabolomics https://tess.elixir-europe.org/events/quality-assurance-and-quality-control-in-metabolomics-fc8eb4e0-eaca-4a9a-8c76-1f3bf559d9a1 The application of quality assurance and quality control in the metabolomics field is vital to ensure the collection of high quality data. In this course you will explore the importance of quality assurance and quality control in both untargeted and targeted metabolomics studies. We will explain the difference between quality control and quality assurance and how to apply in your studies and laboratories. You will evaluate the types of quality control samples that can be applied in metabolomics, what is the most appropriate quality control sample to use in your research, and how to apply the data in your quality assurance procedure to produce robust and reproducible data. The materials in this course are delivered via the FutureLearn platform over a three week period, with an estimated learning time of four hours per week. Each week you will work through a number of steps to complete the learning material. A step may include a short video, an article, an exercise with step-by-step instructions, a discussion to interact with your peer and a selection of quizzes, tests and polls to self-assess your own learning. All of the course material is uploaded to the FutureLearn platform so that you can complete the steps at a convenient time for you. We (the educators) support your learning via social discussions where you will be able post questions and comments to the team of educators and the other learners on the course throughout the three weeks. In the final week of the course we will record a summary video where we will respond to questions posted by you during the course. If you do not have time to complete the course during the 3-week period you will retain access to the course material to revisit, as you are able. 2020-11-30 09:00:00 UTC 2020-12-18 23:59:00 UTC Birmingham Metabolomics Training Centre Metabolomics University of Birmingham [] ScientistsPhD studentsMasters students meetings_and_conferencesworkshops_and_courses [] MetabolomicsQuality AssuranceQuality Control
  • Introduction to Protein Structure Analysis, winter session

    30 November 2020 - 19 March 2021

    Ghent, Belgium

    Elixir node event
    Introduction to Protein Structure Analysis, winter session https://tess.elixir-europe.org/events/introduction-to-protein-structure-analysis-winter-session Get to know the data generated from protein structure determination experiments (high-resolution NMR spectroscopy, X-ray crystallography, electron microscopy, ...) and where to get it. Display protein structure data and compare structures, through the use of Yasara. Create high-quality graphical representations of the structures. Calculate the effect of mutations on the stability of your protein. 2020-11-30 09:00:00 UTC 2021-03-19 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • Basic statistics in R, online - winter session

    30 November 2020 - 19 March 2021

    Elixir node event
    Basic statistics in R, online - winter session https://tess.elixir-europe.org/events/basic-statistics-in-r-online-winter-session This training gives an introduction to the use of the free statistical software language R. This introduction is aimed at beginners.  The training covers data handling, graphics, and basic statistical techniques (t-tests, one-way ANOVA and non-parametric equivalents). A full overview of statistical analyses in R including regression, two-way ANOVA... will be given in follow-up trainings. By following this training you will: get an idea of what R and Rstudio is use R to handle data: creating, reading, reformatting and writing data use R to create graphics use basic statistical techniques in R : t-tests, wilcoxon tests, one-way ANOVA, Kruskal Wallis tests, chi square tests, correlations, survival analysis... write and use R scripts 2020-11-30 09:00:00 UTC 2021-03-19 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Research Software Developers Day

    3 December 2020

    Elixir node event
    Research Software Developers Day https://tess.elixir-europe.org/events/research-software-engineers-conference The aim of this conference is to foster a community of research software developers and to collectively improve the standard of software used for scientific research. For this, our first edition, we focus on three main themes: reproducibility, software quality and infrastructure. ​If you have something to say, whether broadly related to the topics mentioned above or not, we kindly request you to submit a talk or workshop proposal via this link. If you miss out, you'll have another opportunity to give a lightning talk on the day.   The schedule is accessible at www.be-rse.org/.  2020-12-03 09:00:00 UTC 2020-12-03 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • DDA and DIA proteomic analysis in Galaxy

    3 - 4 December 2020

    Ghent, Belgium

    Elixir node event
    DDA and DIA proteomic analysis in Galaxy https://tess.elixir-europe.org/events/label-free-proteomics-data-analysis-in-galaxy At the beginning of the course we will introduce you to the Galaxy platform and teach you how to perform basic tasks such as importing data, running tools, working with histories, creating workflows, and sharing your work.  Then, we will dive into proteomic analyses which are split up into two parts. First, we will use MaxQuant to analyze classical proteomic shotgun (label-free data dependent acquisition = DDA) data. MaxQuant is a standalone tool that enables peptide and protein identification as well as quantification.  In the second part we will perform a complete analysis workflow for data independent acquisition (DIA) data using a variety of open-source tools (including diapysef, OpenSwath, Pyprophet, MSstats). This includes generating a peptide library, refining the library and utilizing the library to identify and quantify peptides in DIA data.  2020-12-03 09:00:00 UTC 2020-12-04 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • Introduction to Git & GitHub

    10 December 2020

    Ghent, Belgium

    Elixir node event
    Introduction to Git & GitHub https://tess.elixir-europe.org/events/introduction-to-git-github-tbc-autumn Get you started with Git from zero (note that if you already use Git, this workshop will be too basic for you). We'll work with GitHub (Desktop) and have a look into git on a command-line level.  Introduction, set-up & configurations Working locally: Create a repository, clone, edit, staging commits, commit & push Working with your history & logs Working in a project: Forking, branching & pull requests How to version control your code in Rstudio with GitHub 2020-12-10 09:00:00 UTC 2020-12-10 00:00:00 UTC VIB Bioinformatics Core Clemenspoort Gent, Ghent, Belgium Clemenspoort Gent Ghent Belgium 9000 [] [] [] [] [] []
  • Factorial design and analysis

    14 - 15 December 2020

    Elixir node event
    Factorial design and analysis https://tess.elixir-europe.org/events/factorial-design-and-analysis After attending this course, you will be able to reason about you experiment and come up with a design and analysis that fits your situations best, rather than to settle for a suboptimal textbook solution. 2020-12-14 09:00:00 UTC 2020-12-15 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Liquid-Liquid Phase Separation

    14 - 15 December 2020

    Elixir node event
    Liquid-Liquid Phase Separation https://tess.elixir-europe.org/events/liquid-liquid-phase-separation-09e3b786-957d-4d94-9513-3bcfeb0269b7 The aim of this training day is – after a brief introduction – to provide guidelines for accurate experimental characterization of LLPS processes in vitro and in cells. We will end the day with a discussion on the implications of dysregulation of liquid-liquid phase separation for human disease. We have invited top-notch speakers on this topic to inform you on the latest developments.   2020-12-14 09:00:00 UTC 2020-12-15 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Deep learning in biology

    17 - 18 December 2020

    Elixir node event
    Deep learning in biology https://tess.elixir-europe.org/events/deep-learning-in-biology-autumn-session Large amounts of data and compute resources have enabled the development of high-performance machine learning models. This is particularly due to deep learning techniques. By looking at many data samples, these models can find structure in the data that is useful for predictive and explorative analysis: e.g. classification, clustering, data generation, dimensionality reduction, etc. The most popular applications within biotechnology are concerned with image segmentation, diagnostics, sequence analysis, etc. However, deep learning models are far from straightforward to implement correctly due to the many different hyperparameter settings, optimization procedures, architecture choices, etc. In this course, we will make use of Jupyter Notebook and Keras, which are both based on Python, to apply deep learning techniques on both bio informatics and bio image informatics data. We aim to work towards applications that participants would like to study. 2020-12-17 09:00:00 UTC 2020-12-18 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []

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