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Organizer: SIB Swiss Institute of Bioi...  or NanoCommons  or de.NBI 

  • Data Carpentry Workshop 2021

    26 - 28 January 2021

    Data Carpentry Workshop 2021 Educators: Renato Alves (HD-HuB) Date: 26/01/2021 - 28/01/2021 Location: Online Contents: The missing step between data collection and research progress is a lack of training for researchers in crucial skills for effectively managing and analysing large amounts of data. This hands on workshop teaches researchers the fundamental data skills they need to conduct their work, and provides high-quality, domain-specific training covering the full lifecycle of data-driven research. The domain-specific approach allows participants to tailor the data, content, and tools to reflect the specific data and analysis needs of different areas: - Data organisation and cleaning - Introduction to R - Data analysis and visualisation in R - Interacting with databases from R - Data analysis with applications to genomics Learning goals: You will learn... - how to organise data and some practices for more effective data handling - to effectively clean and format data and automatically track any changes - to use R to handle, filter, and summarise tabular data - to use the split-apply-combine concept for data analysis - to visualise the results of these analyses in R using the ggplot2 library - to apply all of the concepts in an exploratory analysis of a typical biological dataset Prerequisities: The course is aimed at graduate students and other researchers in the life sciences who would like to learn good practices in data management and analysis. The course is ideally suited to students without prior experience in computational research, but some familiarity with working with tabular data on a computer is welcome. Keywords: Data Carpentry, R Tools: R 2021-01-26 09:00:00 UTC 2021-01-28 17:00:00 UTC de.NBI [] [] [] workshops_and_courses [] []
  • Life Tool Training

    26 - 27 January 2021

    Life Tool Training Educators: Jacobo Miranda Ackerman, Fadi Al Machot, Nils Hoffmann (BioInfra.Prot / LIFS) Date: January 26th and 27th , 2021 Deadline for Workshop Registration: January 19th, 2020 Location: Online, virtual training. Contents: In the first part of the course (day 1), we will work through an example for targeted LC-MS lipidomics with LipidCreator and Skyline. In the second part of the course (day 1), we will apply PeakStrainer and LipidXplorer for filtering, identification and quantification of lipid signals from shotgun lipidomics. The course will consist of a short theory and background overview of the employed programs complemented by the application of the tools to provided data sets. The third part of this course (day 2) will work through a typical use-case of downstream data processing of shotgun lipidomics data following MS acquisition with LipidXplorer. We will inspect, check and normalize the data as well as calculate absolute quantities using internal class-specific standards with lxPostman. In part four (day 2), we will then perform a qualitative comparison of the lipidomes using the LUX Score lipidome homology. Tuesday, January 26th 09:00 – 09:45 Welcome and Introduction 10:00 – 10:30 Targeted Lipidomics with LipidCreator and Skyline 10:30 – 13:00 LipidCreator and Skyline Exercises Wednesday, January 27th 09:00 – 11:00 Shotgun Lipidomics with LipidXplorer 11:00 – 12:00 Quantification of Shotgun Lipidomics data with lxPostman 12:00 – 13:00 Lipidome comparison with LUX Score Learning goals: Participants will be able to understand and explain the shotgun MS and targeted LC-MS workflows for lipidomics. They will learn the fundamentals of the software tools used and how to choose parameters for them. They will learn to understand and interpret the results of each step of the pipeline. Prerequisites: Basic knowledge of lipidomics, analytical workflows in lipidomics and basic familiarity with web-based and desktop applications. Please note that you may need to install software on your computer to fully participate in all exercises which may require the proper rights. The workshop will be a mix of small lecture segments and hands-on exercises. The trainers will be available for questions and assistance during the workshop. We will use Zoom to host the workshop. To participate, please ensure that the Zoom client software is installed on your computer. Keywords: Lipidomics, Shotgun, Targeted, LC-MS Tools: PeakStrainer and LipidXplorer, LipidCreator, Skyline, lxPostman, LUX Score 2021-01-26 09:00:00 UTC 2021-01-27 13:00:00 UTC de.NBI [] [] [] workshops_and_courses [] []
  • Successful writing of bioinformatics grant proposals

    16 March 2021

    Successful writing of bioinformatics grant proposals Educators: Olaf Wolkenhauer (RBC / de.stairs) Date: 16th March 2020, 10:00 – 12:30 Location: Online Contents: In this seminar I would like to share my experience as an applicant and reviewer for proposals submitted for DFG, BMBF and EU funding. Why? (i) Because I find it difficult to write successful proposals. (ii) Because, as a young scientist I would have liked to receive help for this important part of being a scientist and (iii) because I was elected to a DFG Review panel, by my community, and this is an opportunity to reward that trust. My experience is of course limited, and the advice will not be universally valid. However, I do hope to provide inspiration and motivation for your own grant proposal. Given that my own research is focused in the areas of bioinformatics, systems biology/medicine, the seminar should be of interest for colleagues working on interdisciplinary research in the life sciences. Ideally, the seminar is a conversation and discussion, with lots of questions being asked by the participants. During the seminar, we shall identify general pattern in successful grant proposals, which also apply to other forms of communication, say in publications, conference posters, or websites. The goal is to provide practical advice for your next application for a research grant. Learning goals: - Motivation and mindset (grantmanship) - Differences between BMBF and DFG proposals. - Analysing calls - Identifying a suitable DFG programme/panel - Drafting/outlining the proposal - Length and effort - Dividing the proposal into sections - Identifying a research gap - Designing work packages - Creating visual representations - Describing the state of the art and own preliminary work - Things to watch out for and common mistakes - Additional documents and their role in the evaluation - Submission and rebuttals - Practical advice for summarising and communicating your research Prerequisites: The seminar is targeted at postdocs and junior group leaders. PhD students in their final year may benefit if they are in the process of writing a proposal at the time of this seminar. Keywords: Grantmanship, Grant proposals 2021-03-16 10:00:00 UTC 2021-03-16 12:30:00 UTC de.NBI [] [] [] workshops_and_courses [] []

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