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40 events found

Node: Portugal  or Switzerland  or EMBL-EBI 

  • "Ready for BioData Management?" Data Stewardship program for the life sciences

    21 February - 31 October 2022

    Oeiras, Portugal

    "Ready for BioData Management?" Data Stewardship program for the life sciences https://tess.elixir-europe.org/events/ready-for-biodata-management-data-stewardship-program-for-the-life-sciences BioData.pt | ELIXIR Portugal, in collaboration with several other organizations has designed a program to train the first generation of Data Stewards for the life sciences, to support the implementation of data management, open science and FAIR data principles in Portuguese R&I organizations. It will unfold from February to October 2022, allowing trainees get some practice and consolidate the acquired knowledge. It will comprise an introductory module covering the basic concepts of Data Stewardship followed by two assignments and end with a hands-on course for knowledge consolidation. 2022-02-21 09:00:00 UTC 2022-10-31 17:00:00 UTC BioData.pt | ELIXIR Portugal Online and F2F (See details in training documentation), Oeiras, Portugal Online and F2F (See details in training documentation) Oeiras Portugal FAIR data Data submission, annotation, and curation Bioinformatics Data management Biodata.pt - Elixir's portuguese node of the european projec info@biodata.pt ELIXIR Life Science Researchers 24 workshops_and_courses registration_of_interest data managementData management plandata stewardshipdata annotationlife sciencestraining
  • UNIX scripting for Life Scientists

    23 - 24 May 2022

    Lausanne, Switzerland

    Elixir node event
    UNIX scripting for Life Scientists https://tess.elixir-europe.org/events/unix-scripting-for-life-scientists-2d9f0a2e-30d6-4edd-846d-145089c6d2cc Overview Scripting allows shell users to automate repetitive tasks, thus improving reproducibility, reducing the risk of errors, freeing time, and avoiding boredom. 2022-05-23 09:00:00 UTC 2022-05-24 00:00:00 UTC SIB, Lausanne, Switzerland SIB Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • CPANG22 - Computational Pangenomics

    23 - 27 May 2022

    Oeiras, Portugal

    Elixir node event
    CPANG22 - Computational Pangenomics https://tess.elixir-europe.org/events/cpang22-computational-pangenomics 2022-05-23 09:30:00 UTC 2022-05-27 18:00:00 UTC Pedro Fernandes Oeiras, Portugal Oeiras Portugal 2780-156 Genomics Instituto Gulbenkian de Ciência bicourses@igc.gulbenkian.pt Oeiras Valley Bioinformaticians and wet-lab biologists who can program in Perl. 20 workshops_and_courses registration_of_interest Computational Pangenomics
  • Introduction to metabolomics analysis

    24 - 27 May 2022

    United Kingdom

    Elixir node event
    Introduction to metabolomics analysis https://tess.elixir-europe.org/events/introduction-to-metabolomics-analysis-2068300b-8fe1-4260-a021-67a637cd7936 This course will provide an introduction to metabolomics using publicly available data, software and tools. Participants will become familiar with the current state of experimental design, data acquisition (LC-MS, GC-MS, MS imaging), processing and modelling as well as community standards and sharing in metabolomics, particularly through using the EMBL-EBI’s MetaboLights repository and Galaxy infrastructure. There will be a practical component, where participants will learn through hands-on tutorials to use tools available for data analysis and data submission. The course will be completed with an interactive session which will build on the week’s learning to discuss how to employ a metabolomics workflow with a case study. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-05-24 09:00:00 UTC 2022-05-27 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This course is aimed at researchers who are new to the field of metabolomics and wish to learn about the process of conducting a metabolomics study. Attendees will gain an understanding of a standardised workflow, from experimental design to data acquisition and analysis, and will benefit those who are planning to integrate metabolomics into their work, either moving into the field or as an investigator from other omics. We will primarily focus on a basic introduction to metabolomics with worked examples using a predesigned LC-MS analysis workflow. The course assumes little prior knowledge of using bioinformatics tools. 30 [] [] []
  • Introduction to high-performance computing (sciCORE cluster)

    25 May 2022

    Streamed from Basel, Switzerland

    Elixir node event
    Introduction to high-performance computing (sciCORE cluster) https://tess.elixir-europe.org/events/introduction-to-high-performance-computing-scicore-cluster-6ccc892b-1548-4bed-8b21-f44f580e782a This course is susceptible to be streamed to the registered participants, depending on the evolution of the sanitary situation Overview This full-day course has a practical focus, where participants will learn how to use the Linux command line and 2022-05-25 09:00:00 UTC 2022-05-25 00:00:00 UTC SIB, Streamed from Basel, Switzerland SIB Streamed from Basel Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to Glycoinformatics - lectures and practicals - streamed

    30 - 31 May 2022

    Streamed from Geneva, Switzerland

    Elixir node event
    Introduction to Glycoinformatics - lectures and practicals - streamed https://tess.elixir-europe.org/events/introduction-to-glycoinformatics-lectures-and-practicals-streamed This course will be streamed only for registered participants. Overview The word glycoprotein is often used yet the “glyco” part is hardly ever described. 2022-05-30 09:00:00 UTC 2022-05-31 00:00:00 UTC SIB, Streamed from Geneva, Switzerland SIB Streamed from Geneva Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to Glycoinformatics - lectures - streamed

    30 - 31 May 2022

    Streamed from Geneva, Switzerland

    Elixir node event
    Introduction to Glycoinformatics - lectures - streamed https://tess.elixir-europe.org/events/introduction-to-glycoinformatics-lectures-streamed-60ee2d1f-f02a-41e5-b067-0d7381880e71 This course will be streamed only for registered participants. Overview The word glycoprotein is often used yet the “glyco” part is hardly ever described. 2022-05-30 09:00:00 UTC 2022-05-31 00:00:00 UTC SIB, Streamed from Geneva, Switzerland SIB Streamed from Geneva Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Intermediate Python

    3 June 2022

    Bern, Switzerland

    Elixir node event
    Intermediate Python https://tess.elixir-europe.org/events/intermediate-python-c512cb9a-2e2c-45b7-a7a0-77bda8569003 Overview Python is an open-source and general-purpose scripting language which runs on all major operating systems. It was designed to be easily read and written with comparatively simple syntax. 2022-06-03 09:00:00 UTC 2022-06-03 00:00:00 UTC SIB, Bern, Switzerland SIB Bern Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Bioinformatics for principal investigators

    8 - 10 June 2022

    United Kingdom

    Elixir node event
    Bioinformatics for principal investigators https://tess.elixir-europe.org/events/bioinformatics-for-principal-investigators-65ee8139-bbbe-4fb3-9a29-ee2dcd36456f This course has been designed to provide Principal Investigators (PI's) working in the life sciences with an introduction to the challenges of working with biological data as a research leader. Starting with a look at where bioinformatics and data science fits into their research teams, the course will enable PI’s to take a strategic look at the requirements for undertaking such work and how bioinformatics capacity can be developed from personnel through to computational needs.  It will additionally provide guidance on strategies for managing data, and the importance of data sharing; how to work with computational collaborators and what resources are available across the life sciences to support such work. During this course we will not be teaching hands-on bioinformatics analysis, but we will be signposting appropriate training resources to upskill you and your team. This course is organised in parallel with Managing a Bioinformatics Core Facility to maximise opportunities for networking. Shared sessions are highlighted in bold in the course programme. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-06-08 09:00:00 UTC 2022-06-10 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This course is aimed at both new and established investigators who lead a research team which currently uses bioinformatics, or where bioinformatics will be a component in future research. No prior knowledge of bioinformatics, or experience of analysis is required for this course. Applications are invited from investigators working in all settings, including academic, clinical, and industrial organisations. 20 [] [] []
  • Managing a bioinformatics core facility

    8 - 10 June 2022

    United Kingdom

    Elixir node event
    Managing a bioinformatics core facility https://tess.elixir-europe.org/events/managing-a-bioinformatics-core-facility-9f586926-41df-4736-ae50-9ccbdbabaab8 This knowledge exchange workshop is an opportunity for managers of bioinformatics core facilities to learn from EMBL-EBI’s service teams, from each other, and from potential users of their services. These facilities play an essential role in enabling research in the molecular life sciences. The landscape is constantly evolving as new research tools emerge, as experiments become increasingly data intensive, and as their clients – experimental researchers – become more exposed to the power of data-driven biology. This course will allow participants to share experiences, discuss challenges and solutions that they face, and plan ways to cope with the ever changing demands raised by the molecular life science field. It will include sessions to learn from data providers at EMBL-EBI, hear how others have tackled common problems, and work together to design core services. This course is organised in parallel with Bioinformatics for principal investigators to maximise opportunities for networking. Shared sessions are highlighted in bold in the course programme. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-06-08 09:00:00 UTC 2022-06-10 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This workshop is aimed at new and experienced managers of bioinformatics core facilities, or other facilities that support their users to analyse and interpret large biomolecular data sets.  This course will not provide a platform for teaching hands-on bioinformatics analysis.   15 [] [] []
  • BioExcel Summer School on Biomolecular Simulations 2022

    12 - 17 June 2022

    Italy

    Elixir node event
    BioExcel Summer School on Biomolecular Simulations 2022 https://tess.elixir-europe.org/events/bioexcel-summer-school-on-biomolecular-simulations-2022 The summer school will include lectures and hands-on sessions on the following topics: Molecular dynamics simulations Biomolecular docking Free energy calculations Advanced sampling methods (Metadynamics) BioExcel Building Blocks (BioBB) Quantum mechanics/molecular mechanics (QM/MM) Machine learning During the hands-on computer practicals you will make use of the BioExcel flagship software and tools: e.g. GROMACS, HADDOCK, PMX, BioBB, and CP2K. The trainers, developers and/or experts in the use of the software, will provide guidance and support. You can find more informatioan about the course on the BioExcel website: https://bioexcel.eu/events/bioexcel-summer-school-on-biomolecular-simulations-2022/ 2022-06-12 09:00:00 UTC 2022-06-17 00:00:00 UTC Science and technology park of Sardinia Edificio 2, Italy Science and technology park of Sardinia Edificio 2 Pula Italy 09010 [] [] The BioExcel school is intended for primarily PhD and post-doctoral researchers using or planning to use biomolecular modeling and simulation in their everyday research. Familiarity with Linux and basic knowledge of molecular modelling software is a requirement. 30 [] [] Proteins (proteins)Structures (structures)
  • Summer school in bioinformatics

    13 - 17 June 2022

    United Kingdom

    Elixir node event
    Summer school in bioinformatics https://tess.elixir-europe.org/events/summer-school-in-bioinformatics-f81334cb-06e3-4263-bfd0-74c9c542615b This course, organised in association with Wellcome Connecting Science, provides an introduction to the use of bioinformatics in biological research, giving participants guidance for using bioinformatics in their work whilst also providing hands-on training in tools and resources appropriate to their research. Participants will initially be introduced to bioinformatics theory and practice, including best practices for undertaking bioinformatics analysis, data management, and reproducibility. To enable specific exploration of resources in their particular field of interest, participants will be divided into focused groups to work on a project set by resource and data experts from EMBL-EBI and external collaborating institutes. These projects will end with a presentation from each group on the final day of the course to bring together learnings from all participants. Participants will be required to review some pre-recorded material prior to the start of the course and will have an opportunity to meet other trainees in an induction session to be held virtually in the week before the course take place. Group projects A major element of this course is a group project, where participants will be placed in small groups to work together on a challenge set by trainers from EMBL-EBI and external institutes. This allows people to explore the bioinformatics tools and resources available in their area of interest and apply them to a set problem, providing participants with hands-on experience relevant to their own research. The group work will culminate in a presentation session involving all participants on the final day of the course, giving an opportunity for wider discussion on the benefits and challenges of working with biological data. Groups are mentored and supported by the trainers who set the initial challenge, but the groups will be responsible for driving their projects forward, with all members expected to take an active role. Groups are pre-organised before the course, and all group members will be sent some short “homework” in preparation for their project work prior to the start of the course. Basic outlines of the projects on offer this year are given below. In your application you must indicate your first and second choice of project, based on which you think would benefit your research most. Not all projects may be offered, and final decisions on which projects will be run during the course will be made based on the number of applicants per project. Most of the projects cover mammalian data sets, however, in many cases, the methods and approaches taught are transferable to data from various species. Networks and pathways This project will cover typical bioinformatics analysis steps needed to put differentially expressed genes into a wider biological context. You will start with gene expression data (RNA-seq) to build an initial interaction network. Next, you will learn to combine public network datasets, identify key regulators of biological pathways, and explore biological function through network analysis. You will get first-hand experience in integration and co-visualising with additional data and functional enrichment analysis. All this helps to put the initial results into a previously known context and provide hypotheses for potential follow up experiments. We will use Cytoscape, Expression Atlas, g:Profiler, StringDb, among other tools. We also may give a few R packages a try. Project mentors: Priit Adler (University of Tartu), Hedi Peterson (University of Tartu) Genome variation across human populations Natural variation between individuals or between different human populations is a result of genome mutations throughout evolutionary history. Some mutations may become fixed because of their beneficial effect while most drift among individuals. During this project, you will investigate genomic variation between two separate human populations of European and Asian descent. Using sequence data from a number of individuals from each population, you will use a range of bioinformatics tools to discover variants that exist between them. In the second section of the project, you will attempt to analyse the functional consequences of the variants you have identified, linking them to phenotypes. Project mentors: Baron Koylass (EMBL-EBI) Modelling cell signalling pathways Curating models of biological processes is an effective training in computational systems biology, where the curators gain an integrative knowledge of biological systems, modelling, and bioinformatics. You will learn to encode and simulate ordinary differential equation models of signalling pathways from a recent publication using user-friendly software such as COPASI even without extensive mathematical background. You will learn to perform in-silico experiments, new predictions, and develop hypotheses. Furthermore, you will learn how to annotate models and re-use pre-existing models from open repositories such as BioModels. Project mentors: Rahuman Sheriff (EMBL-EBI)  Interpreting functional information from large scale protein structure data This project will introduce you to the wealth of publicly available data in the Protein Data Bank (PDB) and give you the opportunity to investigate how large subsets of structure data can be used to analyse protein features and determine function. In the project you will learn how to: identify relevant protein structures, collate and interpret functional information, and implement this process programmatically. Project mentors: David Armstrong (EMBL-EBI), Preeti Choudhary (EMBL-EBI) Analysis of intercellular interactions in healthy and diseased states Ulcerative colitis is an inflammatory bowel disease. The exact pathomechanism of the disease is unknown. However, the interactions between the intestinal immune cells and the intestinal epithelial cells play a crucial role during the development of the disease. Single-cell RNA-seq measurements can help us understand these complex interactions. The expression data combined with protein-protein interaction databases can shed light on the connections between cells in diseased and healthy states. During this project, you will use a single-cell RNA-seq dataset to build interactions between the various cells. The dataset contains pre-processed, cell type classified data of biopsies from healthy, inflamed and non-inflamed UC colonic biopsies. The interactions between cells will be downloaded from the OmniPath database. You will use Python Notebooks to build up the intercellular networks, map the single cell RNA-seq expression data and visualise them. The intercellular networks between various cell types can then be compared by Cytoscape. Project mentors: Dezso Modos (Quandram Institute Bioscience), Marton Olbei (Earlham Institute) 2022-06-13 09:00:00 UTC 2022-06-17 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] Applicants are expected to be at an early stage of using bioinformatics in their research with the need to develop their knowledge and skills further. No previous knowledge of programming is required for this course; group projects may give you the opportunity to learn basic programming, but participants will be supported in this by their mentors. Depending on your chosen project, an introductory programming tutorial may be given as homework prior to attending the course. Though programming skills are not a prerequisite for attending the course, we will ask participants to specify their current level of programming skills in the applications. This will allow the mentors to target the group projects better to the skills and needs of the final course participants. 30 [] [] Protein Data Bank in Europe BioModels database European Nucleotide Archive Ensembl Cross domain (cross-domain)
  • Introduction to Machine Learning with Python

    16 - 17 June 2022

    Lausanne or streamed, Switzerland

    Elixir node event
    Introduction to Machine Learning with Python https://tess.elixir-europe.org/events/introduction-to-machine-learning-with-python-c778fea7-fbc6-4a51-8aae-276118a6ce62 Overview With the rise of new technologies, the volume of omics data in the fields of biology and medicine has grown exponentially in recent times and a major issue is to mine useful predictive knowledge from these data. 2022-06-16 09:00:00 UTC 2022-06-17 00:00:00 UTC SIB, Lausanne or streamed, Switzerland SIB Lausanne or streamed Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to statistics with Python

    20 - 21 June 2022

    Basel, Switzerland

    Elixir node event
    Introduction to statistics with Python https://tess.elixir-europe.org/events/introduction-to-statistics-with-python-678b7cea-fec0-446f-8636-22e186bcde23 Overview Statistics are an integral aspect of scientific research, particularly for the life sciences which rely heavily on quantitative methodologies. 2022-06-20 09:00:00 UTC 2022-06-21 00:00:00 UTC SIB, Basel, Switzerland SIB Basel Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Cancer genomics

    20 - 24 June 2022

    United Kingdom

    Elixir node event
    Cancer genomics https://tess.elixir-europe.org/events/cancer-genomics-7e5000fc-53f2-4282-bc4e-e16a5e7c22ab This course will focus on the analysis of data from genomic studies of cancer.  Talks and interactive sessions will give an insight into the bioinformatic concepts required to analyse such data, whilst practical sessions will enable the participants to apply statistical methods to the analysis of cancer genomics data under the guidance of the trainers. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-06-20 09:00:00 UTC 2022-06-24 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This course is aimed at PhD students and post-doctoral researchers who are applying or planning to apply high throughput sequencing technologies in cancer research and wish to familiarise themselves with bioinformatics tools and data analysis methodologies specific to cancer data. Familiarity with the technology and biological use cases of high throughput sequencing (HTS) is required, as is some experience with R/Bioconductor (basic understanding of the R syntax and ability to manipulate R objects) and the Unix/Linux operating system. 30 [] [] []
  • Enrichment Analysis - streamed

    24 June 2022

    Streamed, Switzerland

    Elixir node event
    Enrichment Analysis - streamed https://tess.elixir-europe.org/events/enrichment-analysis-streamed-0241e7fb-7026-4dc8-bde8-e76da5716df0 Overview Experiments designed to quantify gene expression often yield hundreds of genes that show statistically significant differences between two classes (two biological states, two phenotype states, two experimental conditions, etc). 2022-06-24 09:00:00 UTC 2022-06-24 00:00:00 UTC SIB, Streamed, Switzerland SIB Streamed Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to openBIS

    27 June 2022

    Lausanne or streamed, Switzerland

    Elixir node event
    Introduction to openBIS https://tess.elixir-europe.org/events/introduction-to-openbis-e75d4225-486a-4c90-a175-0e470d2a6434 Overview This course provides a general overview of openBIS, followed by a practical training session. openBIS is a combined data management platform, Electronic Laboratory Notebook, and Inventory Management System. 2022-06-27 09:00:00 UTC 2022-06-27 00:00:00 UTC SIB, Lausanne or streamed, Switzerland SIB Lausanne or streamed Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Summer School on Genetic Epidemiology

    29 June - 2 July 2022

    Davos, Switzerland

    Elixir node event
    Summer School on Genetic Epidemiology https://tess.elixir-europe.org/events/summer-school-on-genetic-epidemiology Overview This summer school aims at providing guidelines on optimal practice in designing, analyzing, and interpreting genetic epidemiological studies, for those who would like to actively analyze DNA sequencing from whole genome sequencing or whole 2022-06-29 09:00:00 UTC 2022-07-02 00:00:00 UTC SIB, Davos, Switzerland SIB Davos Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Research Data Management and Data Management Plan

    30 June - 1 July 2022

    Bern or Lausanne, Switzerland

    Elixir node event
    Research Data Management and Data Management Plan https://tess.elixir-europe.org/events/research-data-management-and-data-management-plan Overview Recent studies have shown that worldwide, between 51% and 89% of published life sciences research is not reproducible, with consequent losses estimated at around $100 billions/year in biomedical research (Chalmers et al., 2009; Freedman 2022-06-30 09:00:00 UTC 2022-07-01 00:00:00 UTC SIB, Bern or Lausanne, Switzerland SIB Bern or Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Single-cell Transcriptomics

    4 - 6 July 2022

    Bern, Switzerland

    Elixir node event
    Single-cell Transcriptomics https://tess.elixir-europe.org/events/single-cell-transcriptomics-be70d45c-e4dd-4319-866d-d0c192c60ccf Overview In contrast to the Bulk RNA sequencing used to quantify the abundance of gene and transcript expression at a whole population level, single-cell RNA sequencing (scRNAseq) allows researchers to study gene expression profile at a single cell 2022-07-04 09:00:00 UTC 2022-07-06 00:00:00 UTC SIB, Bern, Switzerland SIB Bern Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Systems biology: from large datasets to biological insight

    4 - 8 July 2022

    United Kingdom

    Elixir node event
    Systems biology: from large datasets to biological insight https://tess.elixir-europe.org/events/systems-biology-from-large-datasets-to-biological-insight-d2a1656c-29ef-412d-9ddb-233bf139d811 This course covers the use of computational tools to extract biological insight from omics datasets. The content will explore a range of approaches - ranging from network inference and data integration to machine learning and logic modelling - that can be used to extract biological insights from varied data types. Together these techniques will provide participants with a useful toolkit for designing new strategies to extract relevant information and understanding from large-scale biological data. The motivation for running this course is a result of advances in computer science and high-performance computing that have led to groundbreaking developments in systems biology model inference. With the comparable increase of publicly-available, large-scale biological data, the challenge now lies in interpreting them in a biologically valuable manner. Likewise, machine learning approaches are making a significant impact in our analysis of large omics datasets and the extraction of useful biological knowledge. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-07-04 09:00:00 UTC 2022-07-08 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This course is aimed at advanced PhD students, post-doctoral researchers, and non-academic scientists who are currently working with large-scale omics datasets with the aim of discerning biological function and processes. Ideal applicants should already have some experience (ideally 1-2 years) working with systems biology or related large-scale (multi-)omics data analyses. Applicants are expected to have a working knowledge of the Linux operating system and the ability to use the command line. Experience of using a programming language (i.e. Python) is highly desirable, and while the course will make use of simple coding or streamlined approaches such as Python notebooks, higher levels of competency will allow participants to focus on the scientific methodologies rather than the practical aspects of coding and how they can be applied in their own research. We recommend these free tutorials: Basic introduction to the Unix environment: www.ee.surrey.ac.uk/Teaching/Unix Introduction and exercises for Linux: https://training.linuxfoundation.org/free-linux-training Python tutorial: https://www.w3schools.com/python/ R tutorial: https://www.datacamp.com/courses/free-introduction-to-r Regardless of your current knowledge we encourage successful participants to use these to prepare for attending the course and future work in this area. Selected participants will also be sent materials prior to the course. These might include pre-recorded talks and required reading that will be essential to fully understand the course. 30 [] [] []
  • Bioinformatics for T-Cell immunology

    11 - 15 July 2022

    United Kingdom

    Elixir node event
    Bioinformatics for T-Cell immunology https://tess.elixir-europe.org/events/bioinformatics-for-t-cell-immunology This course will introduce and explore a number of key bioinformatics tools and resources that can be applied to T-cell immunological research. Targeted at life scientists with a wet-lab focus, it will provide participants with an overview of best-practice methods in applying bioinformatics approaches and enable them to become confident users of their own and public domain data. The resources introduced during the course will cover a variety of data types, from genomic data to computational models, and biological pathways. Participants will gain experience of the analysis pipelines for RNA-Seq and flow cytometry experiments as well as data integration of -omics data and basics concepts of machine learning approaches.This course has been developed in collaboration with the ENLIGHT-TEN+ project, a consortium focused on developing early-stage research expertise in T-cell immunology and big data analysis. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-07-11 09:00:00 UTC 2022-07-15 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] The course is aimed at wet-lab scientists working in the field of immunology who wish to learn more about available data and tools that can help them in their research. 15 places are reserved for early-stage researchers from the ENLIGHT-TEN+ project.   30 [] [] []
  • Proteomics bioinformatics

    17 - 22 July 2022

    United Kingdom

    Elixir node event
    Proteomics bioinformatics https://tess.elixir-europe.org/events/proteomics-bioinformatics-e45e1bf8-c758-491b-817d-e236414eb179 This course provides hands-on training in the basics of mass spectrometry (MS) and proteomics bioinformatics, search engines and post-processing software, quantitative approaches, MS data repositories, the use of public databases for protein analysis, annotation of subsequent protein lists, and incorporation of information from molecular interaction and pathway databases. This course is organised in association with the Vlaams Instituut voor Biotechnologie (VIB). In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-07-17 09:00:00 UTC 2022-07-22 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] The course is aimed at research scientists with a minimum of a degree in a biological discipline, including laboratory and clinical staff, as well as specialists in related fields. The practical elements of the course will take raw data from a proteomics experiment and analyse it. Participants will be able to go from MS spectra to identifying and quantifying peptides, and finally to obtaining lists of protein identifiers that can be analysed further using a wide range of resources. The final aim is to provide attendees with the practical bioinformatics knowledge they need to go back to the lab and process their own data when collected. 30 [] [] []
  • Advanced Statistics: Statistical Modelling

    22 - 25 August 2022

    Lausanne, Switzerland

    Elixir node event
    Advanced Statistics: Statistical Modelling https://tess.elixir-europe.org/events/advanced-statistics-statistical-modelling-dc58174b-c34c-468a-a484-1fa4c7ed7957 Overview While the statistical models and tools presented in an introductory statistics course (such as linear regression) can be used to answer a wide range of questions in life sciences, many types of data can not be analyzed using these simple 2022-08-22 09:00:00 UTC 2022-08-25 00:00:00 UTC SIB, Lausanne, Switzerland SIB Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Advanced Programming with R

    29 - 31 August 2022

    Lausanne, Switzerland

    Elixir node event
    Advanced Programming with R https://tess.elixir-europe.org/events/advanced-programming-with-r Overview This 3-day advanced course is targeted at life scientists or bioinformaticians using the R statistical software who want to extend their knowledge. Lectures will be conducted in the morning, with practicals in the afternoon. 2022-08-29 09:00:00 UTC 2022-08-31 00:00:00 UTC SIB, Lausanne, Switzerland SIB Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to RNA-Seq: From quality control to pathway analysis

    1 - 2 September 2022

    Basel, Switzerland

    Elixir node event
    Introduction to RNA-Seq: From quality control to pathway analysis https://tess.elixir-europe.org/events/introduction-to-rna-seq-from-quality-control-to-pathway-analysis-d8c6ae2e-37f6-44fe-826e-a3348db94bd4 Overview This two-day course will present the theory and bioinformatics tools required to analyze RNA-seq gene expression data, The course will present the theory and bioinformatics tools required to analyse RNA-seq gene expression data, from the 2022-09-01 09:00:00 UTC 2022-09-02 00:00:00 UTC SIB, Basel, Switzerland SIB Basel Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Comparative Genomics

    12 - 14 September 2022

    Streamed or Lausanne, Switzerland

    Elixir node event
    Comparative Genomics https://tess.elixir-europe.org/events/comparative-genomics-d3e772d0-ca37-4239-8d74-2ac20f260036 Overview The aims of this course are to (i) explore key evolutionary concepts, (ii) examine different methodological approaches, and (iii) gain hands-on experience in eukaryotic comparative genomic analyses. 2022-09-12 09:00:00 UTC 2022-09-14 00:00:00 UTC SIB, Streamed or Lausanne, Switzerland SIB Streamed or Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Mathematics of life: modelling molecular mechanisms

    12 - 16 September 2022

    United Kingdom

    Elixir node event
    Mathematics of life: modelling molecular mechanisms https://tess.elixir-europe.org/events/mathematics-of-life-modelling-molecular-mechanisms-1b57c504-4751-4313-a48d-3ac2da24ab02 This course will provide participants with an introduction and hands-on training on modelling approaches, tools and resources used in systems biology as well as touch on network analysis. Computer models are increasingly used to understand the essential processes of biology. Researchers in academic institutions as well as the pharmaceutical industry use mathematical models to generate hypotheses on how complex biomolecular systems work. Modelling of biochemical pathways deregulated in disease conditions can offer mechanistic insights into the pathology, help to elucidate mechanisms behind drug action, and predict the dose required for treatment thus facilitating fundamental research and drug discovery. This course will provide a helpful brief introduction to key modelling concepts and hands on training to use popular tools and resources used in this scientific field. In-person course We plan to deliver this course in an in-person manner onsite at our training suite at EMBL-EBI, Hinxton.  Please be aware that we are continually evaluating the ongoing pandemic situation and, as such, may need to change the format of courses at short notice. Your safety is paramount to us; you can read our COVID guidance policy for more information. All information is correct at time of publishing. 2022-09-12 09:00:00 UTC 2022-09-16 00:00:00 UTC European Bioinformatics Institute Hinxton, United Kingdom European Bioinformatics Institute Hinxton Cambridge United Kingdom CB10 1SD [] [] This course is aimed at experimental biologists, bioinformaticians and mathematicians who have just started in systems biology, are familiar with the basic terminology in this field and who are now keen on gaining a better knowledge of systems biology modelling approaches to understand biological and biomedical problems. An experience of using a programming language (e.g Python, R, Matlab) would be a benefit but is not mandatory. An undergraduate knowledge of molecular and cellular biology or some background in mathematics is highly beneficial. 30 [] [] []
  • Introduction to high-performance computing (sciCORE cluster)

    14 September 2022

    Streamed from Basel, Switzerland

    Elixir node event
    Introduction to high-performance computing (sciCORE cluster) https://tess.elixir-europe.org/events/introduction-to-high-performance-computing-scicore-cluster-73ca4b1c-7185-4a0a-9ea7-17be4fe5f45b This course is susceptible to be streamed to the registered participants, depending on the evolution of the sanitary situation Overview This full-day course has a practical focus, where participants will learn how to use the Linux command line and 2022-09-14 09:00:00 UTC 2022-09-14 00:00:00 UTC SIB, Streamed from Basel, Switzerland SIB Streamed from Basel Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Good practice in high-throughput experiments

    21 - 22 September 2022

    Zurich or streamed, Switzerland

    Elixir node event
    Good practice in high-throughput experiments https://tess.elixir-europe.org/events/good-practice-in-high-throughput-experiments-b5752b6c-f7ee-4865-8875-ff2ee12485eb Overview This course offers an overview of good practice in high-throughput experiments (e.g. next-generation sequencing or compound screening). Particularly we focus on pitfalls in the design of projects (e.g. 2022-09-21 09:00:00 UTC 2022-09-22 00:00:00 UTC SIB, Zurich or streamed, Switzerland SIB Zurich or streamed Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []

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