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128 events found
  • Image processing for correlated and multimodal imaging techniques

    19 October 2020 - 8 March 2022

    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 2022-03-08 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Bacterial Genomes: Disease Outbreaks and Antimicrobial Resistance

    1 January - 31 December 2021

    Bacterial Genomes: Disease Outbreaks and Antimicrobial Resistance https://tess.elixir-europe.org/events/bacterial-genomes-disease-outbreaks-and-antimicrobial-resistance-b178602b-e29f-4ac7-afbf-5deafd52f8dd # Overview * **Duration**: There is no longer a live period for this course, and there will be no live monitoring of the forums, but you can still join and complete the course throughout 2021. * Free * Certificate of achievement available on satisfactory completion * **CPD Approval**: Royal College of Pathologists (9 credits), Royal College of Nursing (9 credits)** ** ### Why join the course? The increase in resistance of harmful bacteria to antibiotics is a major global threat to health. Here we explore bacterial genomes and the use of genome sequencing to identify and track these drug resistant bacteria. Join us to discover how genome research is helping scientists and healthcare professionals track disease outbreaks and prevent the rise of antibiotic resistant ‘superbugs’. ### Who is the course for? This course will be of interest to scientists, healthcare professionals, biomedical researchers and bioinformaticians. The course offers all learners an opportunity to learn about genomes, disease, and antimicrobial resistance. You require no previous knowledge of genome science to complete the course. ### What do people say about this course? "_I would definitely point students to this resource. Text, videos, and figures were all very well done._" Pablo Tsukayama, Assistant Professor of Microbiology "_A highlight of the course was the introduction to whole genome sequencing – new information for me._" Christine Laws, Medical Doctor “_Exchanging genetic information quickly throughout the world is clearly going to revolutionise the ability to combat disease._” Prue van der Hoorn, Artist # Programme and start dates ### What topics will you cover? * Diseases caused by bacteria * What bacterial genomes look like * Genome sequencing technology * Mechanisms of transmission and resistance * Genomic epidemiology – tracking the spread of bacterial pathogens * Antimicrobial resistance ### What will you achieve? By the end of the course, you'll be able to... * Explain why some bacteria are pathogenic * Explore the structure of bacterial genomes * Describe the uses of different genome sequencing technologies * Investigate how genome data are used to track the spread of bacterial disease * Discuss the role of genome sequencing in stopping the spread of antimicrobial resistance # Educators ## **Lead Educators** **[Dr Adam Reid][1]** I am a senior staff scientist at the Wellcome Sanger Institute near Cambridge in the United Kingdom. I'm interested in using genomics and bioinformatics to better understand infectious diseases. **[Dr Josie Bryant][2]** I am a Henry Wellcome Postdoctoral Fellow in the University of Cambridge, Department of Medicine. I am working on bacterial genomics and evolution with a focus on within-patient microbial diversity ### Dr Francesca Short I am a scientist at the Wellcome Sanger Institute. I am interested in using functional genomics techniques to understand infections caused by the bacterium _Klebsiella pneumoniae_. ## **Programme Lead Educator** **[Professor Nicholas Thomson][3]** I am a Group Leader at the Wellcome Sanger Institute. I provide scientific oversight for this course. I am interested in bacterial evolution and the spread of infectious disease. ### The course also features interviews with distinguished scientists, including: * **[Mathew Beale][4]** - Wellcome Sanger Institute * **[Daryl Domman][5]** - Wellcome Sanger Institute * **[Gal Horesh][6]** - Wellcome Sanger Institute * **[Catherine Ludden][7]** - London School of Hygiene and Tropical Medicine * **[Tapoka Mkandawire][8]** - Wellcome Sanger Institute * **[Julian Parkhill][9]** - Wellcome Sanger Institute * **Lindsay Pike** - Wellcome Sanger Institute * **[Michael Quail][10]** - Wellcome Sanger Institute * **[Susannah J. Salter][11]** - Wellcome Sanger Institute * **[Estee Torok][12]** - Addenbrooke’s Hospital and University of Cambridge [1]: http://www.sanger.ac.uk/people/directory/reid-adam-james [2]: https://www.infectiousdisease.cam.ac.uk/directory/josie-bryant [3]: http://www.sanger.ac.uk/people/directory/thomson-nicholas-robert [4]: http://www.sanger.ac.uk/people/directory/beale-mathew [5]: http://www.sanger.ac.uk/people/directory/domman-daryl [6]: http://www.sanger.ac.uk/people/directory/horesh-gal [7]: https://www.lshtm.ac.uk/aboutus/people/ludden.catherine [8]: http://www.sanger.ac.uk/people/directory/mkandawire-tapoka-t [9]: http://www.sanger.ac.uk/people/directory/parkhill-julian [10]: http://www.sanger.ac.uk/people/directory/quail-michael-andrew [11]: http://www.sanger.ac.uk/people/directory/salter-susannah-j [12]: https://www.infectiousdisease.cam.ac.uk/directory/et317@medschl.cam.ac.uk # What's Included Wellcome Genome Campus Advanced Courses and Scientific Conferences are offering everyone who joins this course a free digital upgrade, so that you can experience the full benefits of studying online for free. This means that you get: * Unlimited access to this course * Includes any articles, videos, peer reviews and quizzes * Tests to validate your learning * A PDF Certificate of Achievement to prove your success when you’re eligible # CDP Approval 2021-01-01 09:00:00 UTC 2021-12-31 23:59:59 UTC Wellcome Genome Campus - Advanced Courses [] advancedcourses@wellcomegenomecampus.org [] [] workshops_and_courses [] bacterialgenomesAMRHDRUK
  • Basic statistics in R online

    6 - 27 September 2021

    Elixir node event
    Basic statistics in R online https://tess.elixir-europe.org/events/basic-statistics-in-r-online-9c428672-9c49-4ee9-b985-fae3bd58d5fa 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 2021-09-06 09:00:00 UTC 2021-09-27 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • Core Statistics using Python (ONLINE LIVE TRAINING)

    8 - 23 September 2021

    Cambridge, United Kingdom

    Elixir node event
    Core Statistics using Python (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/core-statistics-using-python-online-live-training PLEASE NOTE: The Bioinformatics Team are presently teaching this course live online, with tutors available to help you throughout if have any questions. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching in our training room. This [award winning](https://www.cctl.cam.ac.uk/teaching-prizes/tel-prize/2020) virtually delivered course is intended to provide a strong foundation in practical statistics and data analysis using the Python software environment. The underlying philosophy of the course is to treat statistics as a practical skill rather than as a theoretical subject and as such the course focuses on methods for addressing real-life issues in the biological sciences. There are three core goals for this course: # Use Python confidently for statistics and data analysis # Be able to analyse datasets using standard statistical techniques # Know which tests are and are not appropriate Python is an open source programming language so all of the software we will use in the course is free. In this course, we explore classical statistical analysis techniques starting with simple hypothesis testing and building up to linear models and power analyses. The focus of the course is on practical implementation of these techniques and developing robust statistical analysis skills rather than on the underlying statistical theory. After the course you should feel confident to be able to select and implement common statistical techniques using Python and moreover know when, and when not, to apply these techniques. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4001622&course-title=Core%20Statistics%20using%20Python).'' 2021-09-08 08:30:00 UTC 2021-09-23 12:00:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsThis course is included as part of several DTP and MPhil programmesas well as other departmental training within the University of Cambridge (potentially under a different name) so participants who have attended statistics training elsewhere should check before applying. workshops_and_courses [] HDRUK
  • Introduction to FAIR Data Stewardship

    8 September - 3 November 2021

    Hogeschool Leiden online, Hogeschool Leiden online

    Elixir node event
    Introduction to FAIR Data Stewardship https://tess.elixir-europe.org/events/introduction-to-fair-data-stewardship Research – in general terms – produces ever more data. It is desirable that this research data remains usable for follow-up research. In practice, this proves difficult. The FAIR principles have been formulated to address this issue. Data must be… The post Introduction to FAIR Data Stewardship appeared first on Dutch Techcentre for Life Sciences. 2021-09-08 09:00:00 UTC 2021-11-03 00:00:00 UTC Hogeschool Leiden online, Hogeschool Leiden online, Hogeschool Leiden online Hogeschool Leiden online Hogeschool Leiden online Hogeschool Leiden online [] [] [] workshops_and_courses [] []
  • Core Statistics using R (ONLINE LIVE TRAINING)

    8 - 23 September 2021

    Cambridge, United Kingdom

    Elixir node event
    Core Statistics using R (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/core-statistics-using-r-online-live-training The Bioinformatics Team are presently teaching this course live online, with tutors available to help you throughout if have any questions. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching in our training room. This [award winning](https://www.cctl.cam.ac.uk/teaching-prizes/tel-prize/2020) virtually delivered course is intended to provide a strong foundation in practical statistics and data analysis using the R software environment. The underlying philosophy of the course is to treat statistics as a practical skill rather than as a theoretical subject and as such the course focuses on methods for addressing real-life issues in the biological sciences. There are three core goals for this course: # Use R confidently for statistics and data analysis # Be able to analyse datasets using standard statistical techniques # Know which tests are and are not appropriate R is an open source programming language so all of the software we will use in the course is free. In this course, we explore classical statistical analysis techniques starting with simple hypothesis testing and building up to linear models and power analyses. The focus of the course is on practical implementation of these techniques and developing robust statistical analysis skills rather than on the underlying statistical theory. After the course you should feel confident to be able to select and implement common statistical techniques using R and moreover know when, and when not, to apply these techniques. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4001607&course-title=Core%20Statistics%20using%20R).'' 2021-09-08 13:00:00 UTC 2021-09-23 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individualsThis course is included as part of several DTP and MPhil programmesas well as other departmental training within the University of Cambridge (potentially under a different name) so participants who have attended statistics training elsewhere should check before applying. workshops_and_courses [] HDRUK
  • CIBI User Meeting 2021

    13 - 21 September 2021

    CIBI User Meeting 2021 https://tess.elixir-europe.org/events/cibi-user-meeting-2021 Educators: Timo Sachsenberg, Marcel Ehrhardt, Rene Meier, Steffen Neumann, Oliver Kohlbacher (CIBI) Date: 13. – 21.09.2021 (16:00-19:00 CEST) Location: Online Contents: The Center for Integrative Bioinformatics (CIBI) brings together expertise in genome informatics, computational mass spectrometry (proteomics, metabolomics), biological image analysis, and workflow systems from several leading German research institutions: Freie Universität Berlin, Eberhard-Karls-Universität Tübingen, Universität Konstanz, the Leibniz Institute of Plant Biochemistry Halle, and the Max Planck Institute of Molecular Cell Biology and Genetics Dresden. Its mission is to provide application users and expert data analysts with cutting-edge tools for the analysis of omics and imaging data as well as with a workflow engine to integrate these tools into coherent solutions for reproducible analysis of complex biomedical data. This year's virtual CIBI user meeting will take place in the late afternoon hours and will be spread over several days. Two exciting keynote talks on the first and last day will provide a framework for the meeting, with the other days focusing around the services and associated omics technologies of a CIBI member. We introduce novel users to key services in introductory talks, highlight some key applications & success stories, and provide short tutorials to make novel users familiar with key concepts to spark interest in our CIBI software and tools. The preliminary agenda is available from https://ogy.de/ts51 Please register at https://events.ipb-halle.de/event/90/. Zoom connection details will be provided upon registration, access to selected recorded talks will be provided to all registered participants. Looking forward to meeting you online! The CIBI Team Learning goals: CIBI tools and services and their area of application; Genome informatics; Workflows; Proteomics; Metabolomics Prerequisites: None Keywords: Sequence Analysis; Workflows; Proteomics; Metabolomics Tools: SeqAn; KNIME; Metabolite Identification and Data Sharing 2021-09-13 16:00:00 UTC 2021-09-21 19:00:00 UTC de.NBI [] [] [] workshops_and_courses [] []
  • Introduction to working with UNIX and bash (ONLINE LIVE TRAINING)

    20 September 2021

    Cambridge, United Kingdom

    Elixir node event
    Introduction to working with UNIX and bash (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/introduction-to-working-with-unix-and-bash-online-live-training-74c82da1-01c4-47b1-b43a-d5c39d5fe6ec PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. Using the Linux operating system and the bash command line interface, we will demonstrate the basic structure of the UNIX operating system and how we can interact with it using a basic set of commands. Applying this, we will learn how to navigate the filesystem, manipulate text-based data and structure simple pipelines out of these commands. Building on the techniques learnt so far, we will then construct bash scripts combining the commands and structures already learnt into more complex, reusable tools. We will look at how we can apply these scripts to common problems faced in UNIX environments such as: communicating with remote servers; managing custom software installations and integrating these tools into our simple pipelines. This course is targeted at participants with no prior experience working with UNIX-like systems (OSX, Linux) or command line interfaces. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to Book or register Interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4001126&course-title=Introduction%20to%20working%20with%20Unix%20and%20bash).'' 2021-09-20 08:30:00 UTC 2021-09-20 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • High Performance Computing: An Introduction (ONLINE LIVE TRAINING)

    21 September 2021

    Cambridge, United Kingdom

    Elixir node event
    High Performance Computing: An Introduction (ONLINE LIVE TRAINING) https://tess.elixir-europe.org/events/high-performance-computing-an-introduction-online-live-training PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. Have you heard about High Performance Computing, but are not sure what it is or whether it is relevant for your work? Would you like to use a HPC, but are not sure where to start? Are you using your personal computer to run computationally demanding tasks, which take long and slow down your work? Do you need to use software that runs on Linux, but don't have access to a Linux computer? If any of these questions apply to you, then this course might be for you! Knowing how to work on a High Performance Computing system is an essential skill for applications such as bioinformatics, big-data analysis, image processing, machine learning, parallelising tasks, and other high-throughput applications. In this course we will cover the basics of High Performance Computing, what it is and how you can use it in practice. This is a hands-on workshop, which should be accessible to researchers from a range of backgrounds and offering several opportunities to practice the skills we learn along the way. As an optional session for those interested, we will also introduce the (free) HPC facilities available at Cambridge University (the course is not otherwise Cambridge-specific). Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=4001136&course-title=High%20Performance%20Computing:%20An%20Introduction).'' 2021-09-21 08:30:00 UTC 2021-09-21 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR University of Cambridge Bioinformatics Training [] This course is aimed at students and researchers of any background.We assume no prior knowledge of what a HPC is or how to use it.It may be particularly useful for those who have attended other Facility Courses and now need to process their data on a Linux server. It will also benefit those who find themselves using their personal computers to run computationally demanding analysis/simulations and would like to learn how to adapt these to run on a HPC.Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Open resources for sharing, integrating and benchmarking software tools for modelling the Interactome in 3D

    21 September 2021

    Open resources for sharing, integrating and benchmarking software tools for modelling the Interactome in 3D https://tess.elixir-europe.org/events/open-resources-for-sharing-integrating-and-benchmarking-software-tools-for-modelling-the-interactome-in-3d   Programme Shoshana Wodak (VIB-VUB, ELIXIR-BE) :  A community-wide effort to improve annotations and organize information on macromolecular assemblies in the PDB. Emmanuel Levy (Weizmann Institute, ELIXIR-IL) & Roland Dunbrack (FCCC, USA): Benchmark datasets of physiological and non-physiological protein assemblies, derived using the QSBio and ProtCID resources for structural information on protein assemblies. Hugo Schweke (Weizmann Institute, ELIXIR-IL) : Performance of classifiers & scoring methods in discriminating between physiological and non-physiological protein interfaces: work in progress. Each presentation will last around 15 minutes followed by questions. There will be an opportunity for a wider discussion at the end.  This is the second of a series of 10 webinars organised by the ELIXIR 3D-BioInfo Community. The series will present the five major aims of the Community around protein structural annotations, protein complexes, protein ligand interactions, protein nucleic acid interactions and protein engineering. See the webinar series page for details. 2021-09-21 15:00:00 UTC 2021-09-21 16:00:00 UTC [] [] [] [] [] []
  • ELIXIR 3D-Bioinfo Community Webinar: Open resources for sharing, integrating and benchmarking software tools for modelling the interactome in 3D

    21 September 2021

    ELIXIR 3D-Bioinfo Community Webinar: Open resources for sharing, integrating and benchmarking software tools for modelling the interactome in 3D https://tess.elixir-europe.org/events/elixir-3d-bioinfo-community-webinar-open-resources-for-sharing-integrating-and-benchmarking-software-tools-for-modelling-the-interactome-in-3d     Programme Shoshana Wodak:  A community-wide effort to improve annotations and organize information on macromolecular assemblies in the PDB. Emmanuel Levy & Roland Dunbrack: Benchmark datasets of physiological and non-physiological protein assemblies, derived using the QSBio and ProtCID resources for structural information on protein assemblies. Hugo Schweke: Performance of classifiers & scoring methods in discriminating between physiological and non-physiological protein interfaces: work in progress. Each presentation will last around 15 minutes followed by questions. There will be an opportunity for a wider discussion at the end.  This is the second of a series of 10 webinars organised by the ELIXIR 3D-BioInfo Community. The series will present the five major aims of the Community around protein structural annotations, protein complexes, protein ligand interactions, protein nucleic acid interactions and protein engineering. See the webinar series page for details. 2021-09-21 15:00:00 UTC 2021-09-21 16:00:00 UTC [] [] [] [] [] []
  • WEBINAR: KBase - A knowledge base for systems biology

    22 September 2021

    Australia

    WEBINAR: KBase - A knowledge base for systems biology https://tess.elixir-europe.org/events/webinar-kbase-a-knowledge-base-for-systems-biology Developed for bench biologists and bioinformaticians, The Department of Energy Systems Biology Knowledgebase ([KBase](https://www.kbase.us/)) is a free, open source, software and data science platform designed to meet the grand challenge of systems biology: predicting and designing biological function. This webinar will provide an overview of the KBase mission and user community, as well as a tour of the online platform and basic functionality. You’ll learn how KBase can support your research: Upload data, run analysis tools (Apps), share your analysis with collaborators, and publish your data and reproducible workflows. We’ll highlight a brand new feature that enables users to link environment and measurement data to sequencing data. You’ll also find out how KBase supports findable, accessible, interoperable, and reusable (FAIR) research by providing open, reproducible, shareable bioinformatics workflows. **Who the webinar is for** Anyone interested in hearing about KBase. **Presenters**: Ellen Dow, PhD - KBase Communications and Outreach Specialist Elisha Wood-Charlson, PhD - KBase User Engagement Lead **Date/time:** 22 September 2021 - 9:00-10:00 AEST / 830 - 9:30 ACST / 7:00-8:00 AWST **How to join** This webinar is free to join but you must register for a place in advance. **[Register here](https://unimelb.zoom.us/webinar/register/WN_uEqSBotLTQ-19cqr2nP99w)** 2021-09-22 09:00:00 UTC 2021-09-22 10:00:00 UTC Australian BioCommons Australia Australia Data management Systems biology [] Melissa Burke (melissa@biocommons.org.au) [] [] 500 workshops_and_courses first_come_first_served Systems biologyMicrobiome
  • Statistical Analysis of Biological Data in R

    22 September 2021

    United Kingdom

    Statistical Analysis of Biological Data in R https://tess.elixir-europe.org/events/statistical-analysis-of-biological-data-in-r-fa12838b-29b4-40a8-9e69-ab3d6609c0a5 This course provides a refresher on the foundations of statistical analysis. 2021-09-22 12:00:00 UTC 2021-09-22 16:00:00 UTC Online, United Kingdom Online United Kingdom S10 2HQ [] bioinformatics-core@sheffield.ac.uk [] [] workshops_and_courses [] []
  • Genome Engineering and Synthetic Biology (4th edition)

    23 - 24 September 2021

    Gent, Belgium

    Elixir node event
    Genome Engineering and Synthetic Biology (4th edition) https://tess.elixir-europe.org/events/genome-engineering-and-synthetic-biology-4th-edition Genome Engineering and Synthetic Biology are revolutionizing Life Sciences. Driven by advances in the CRISPR-toolbox for rapid, cheap, multiplex modification of genomes and breakthroughs in DNA synthesis technologies, the pace of progress enabled by these tools in the last years has been breathtaking. The first three editions (September 2013, January 2016, January 2018) were a roaring success and we are pleased to announce the 4th edition of GESB in beautiful Ghent in September, 2020. Travel Grants We offer 5 travel grants to international attendees, which will reimburse travel costs up to 400 Euros. Are you interested in attending GESB20 and want to have a chance on a travel grant? Submit your motivation below by clicking on the 'Apply for a grant' button before 24 June 2021. The organizing committee will notify you of your travel grant acceptance by the end of June. No registration is needed before submitting a travel grant proposal. When you’re awarded with a travel grant you will receive a practical email containing the next steps. Note that being awarded a travel grant does not mean being registered for the conference. Poster information: Format: A0 (841 x 1189 mm / 33.1 x 46.8 in), portrait orientation Deadlines: • Early Bird: 30 July 2020 • Late Registration: 26 August 2020 • Abstract deadline: 2 July 2020 Speakers: • Edward Lemke - Institute of Molecular Biology (IMB), DE, Johannes Gutenberg University (JGU), DE & EMBL, DE • Sarah Christine Heilshorn - Stanford University, US • Jane Langdale - University of Oxford, UK • George Guo-Qiang Chen - Tsinghua University, CN • Jason Gammack - Inscripta, US • Janice Chen - Mammoth Biosciences, US • Dan Voytas - University of Minnesota, US & Co-Founder & CSO, Calyxt, US • Alexis Komor - University of California, US • Fred Van Ex - Inari Agriculture, BE • Ross Sozzani - NC State Univeristy, US • Bruno Correia - EPFL, CH • Patrick Yizhi Cai - Manchester Institute of Biotechnology, University of Manchester, UK • Tilmann Buerckstuemmer - Aelian Biotechnology, AT • Peter Smibert - New York Genome Center, Techn Innovation lab, US • Tara Deans - University of Utah, US • Jonathan Gootenberg - McGovern Institute, MIT, US • Steve Harvey - CEO Camena Biosciences, UK • Rob Marchmont - VP Sphere Fluidics, UK • Charlie Silver - CEO Mission Bio, US • Bryan Dickinson - The University of Chicago, US • Holger Puchta - Botanical Institute, Karlsruhe Institute of Technology (KIT), DE • Ping-Wei Ho - VIB-KU Leuven Center for Microbiology, BE • And more to come! 2021-09-23 08:00:00 UTC 2021-09-24 18:00:00 UTC VIB De Bijloke, Bijlokekaai 7, 7, Bijlokekaai, Gent, Belgium De Bijloke, Bijlokekaai 7, 7, Bijlokekaai Gent Oost-Vlaanderen Belgium 9000 [] VIB Conferences team - +32(0)92446611 - conferences@vib.be TakaraTwist Bioscience IndustryPhD studentsAcademics 400 meetings_and_conferences [] genome engineeringSynthetic biologycrisprdna synthetistechnologies
  • WORKSHOP: Working with genomic sequences and features in R with Bioconductor

    23 September 2021

    Australia

    WORKSHOP: Working with genomic sequences and features in R with Bioconductor https://tess.elixir-europe.org/events/workshop-working-with-genomic-sequences-and-features-in-r-with-bioconductor Explore the many useful functions that the Bioconductor environment offers for working with genomic data and other biological sequences. DNA and proteins are often represented as files containing strings of nucleic acids or amino acids. They are associated with text files that provide additional contextual information such as genome annotations. This workshop provides hands-on experience with tools, software and packages available in R via Bioconductor for manipulating, exploring and extracting information from biological sequences and annotation files. We will look at tools for working with some commonly used file formats including FASTA, GFF3, GTF, methods for identifying regions of interest, and easy methods for obtaining data packages such as genome assemblies. **Date/time:** 10am-1pm AEST, Thursday 23 September 2021 **Lead Trainer:** Dr Paul Harrison, Monash Bioinformatics Platform **Learning outcomes** After attending this workshop, participants will be able to: 1. Work with data types in R representing DNA and amino-acid sequences, and genomic ranges (representing things such as genes, transcripts, exons, motif matches, or results of peak-calling). 2. Perform useful operations on genomic ranges such as finding overlaps between two sets of ranges. 3. Load and save data in commonly used file formats, appreciate some of the advantages and disadvantages of different formats. 4. Install Bioconductor packages, find relevant documentation, and be aware of differences between the Bioconductor and base R ways of doing things. **Who the workshop is for** This workshop is open to Australian students and researchers who are using Bioconductor to analyse their life science data. It is not suitable for absolute beginners. Some familiarity with R is assumed (prospective participants should already be comfortable with [basic R concepts](https://monashdatafluency.github.io/r-intro-2)). Participants will need to have [RStudio](https://rstudio.com/products/rstudio/download/) and[ R](https://cran.r-project.org/) ready for use on their laptop. Participants should have used a few Bioconductor packages, perhaps having worked through a tutorial vignette to perform a standard data analysis task. This workshop will assist those who are now interrogating their data in a way that requires going off the beaten path, or perhaps needing to better understand package vignettes mentioning things like "GRanges" and "TxDb". **How to apply** This workshop is free but participation is subject to application with selection. Applications close at 5pm AEST Thursday 9 Sep 2021. You must be associated with an Australian organisation and provide an appropriate organisational email address for your application to be considered. Applications will be reviewed by the organising committee and all applicants will be informed of the status of their application (successful, waiting list, unsuccessful) by Monday 13 Sep 2021. Successful applicants will be provided with a Zoom meeting link closer to the date. **[Apply here](https://bioconductor-genomics.eventbrite.com.au/)** This workshop is presented by the [Australian BioCommons](https://www.biocommons.org.au/) and[ Monash Bioinformatics Platform](https://www.monash.edu/researchinfrastructure/bioinformatics/home) with the assistance of a network of facilitators from the national [Bioinformatics Training Cooperative](https://www.biocommons.org.au/training-cooperative). To hear when registrations open for other events, please [subscribe](https://www.biocommons.org.au/subscribe) to the Australian BioCommons’ eNewsletter. 2021-09-23 10:00:00 UTC 2021-09-23 13:00:00 UTC Australian BioCommons Australia Australia DNA Sequence analysis Genomics Australian Biocommons Melissa Burke melissa@biocommons.org.au [] [] 50 workshops_and_courses registration_of_interest RBioconductorGenomic sequences
  • ZIDAS 2021

    27 September - 1 October 2021

    ZIDAS 2021 https://tess.elixir-europe.org/events/zidas-2021 # ZIDAS 2021: switZerland’s Image and Data Analysis School - When: 27th September-1st October 2021 - Where: Online event - **Application deadline: 2021-07-01 (23:59 CET)** - Website: [https://2021.zidas.org](https://2021.zidas.org) ## About the school: This one-week school provides a hands-on introduction to image processing and analysis, with an emphasis on biologically relevant examples. ## Lectures on - Image Formation - Denoising - Segmentation - Reproducibility & Ethics ## Hands-ons with - ImageJ/Fiji Macros - GoogleColab for Python notebooks - ZeroCostDL4Mic - Ilastik ## Further tools and topics - Each day will feature 3 parallel sessions with demos of the awesome tools developed by the BioImage Analysis community such as #QuPath, #CLIJ, #CellProfiler, #TrackMate, #FigureJ, #StarDist and more! - This year will have a strong "work on your own project" component, so you can take advantage of all our great trainers to help you work with your own data! **_Find us at [https://2021.zidas.org](https://2021.zidas.org)_** 2021-09-27 09:00:00 UTC 2021-10-01 17:00:00 UTC ETHZ, EPFL ETH ZurichEPFL Center for Experimental and Clinical Imaging Technologies Zurich (EXCITE Zurich) Life Science ResearchersBiologists workshops_and_courses registration_of_interest image processingbioinformatics
  • 1st de.NBI Summer School 2021 - Analysis and integration of Mass Spectrometry based omics data in Proteomics, Metabolomics and Lipidomics

    27 - 30 September 2021

    1st de.NBI Summer School 2021 - Analysis and integration of Mass Spectrometry based omics data in Proteomics, Metabolomics and Lipidomics https://tess.elixir-europe.org/events/de-nbi-summer-school-2021-proteomics-lipidomics TBA 2021-09-27 09:00:00 UTC 2021-09-30 17:00:00 UTC de.NBI [] [] [] workshops_and_courses [] []
  • Fast, scalable, free, & user-friendly Galaxy workflows for reference genome assembly

    27 September - 2 October 2021

    Fast, scalable, free, & user-friendly Galaxy workflows for reference genome assembly https://tess.elixir-europe.org/events/fast-scalable-free-amp-user-friendly-galaxy-workflows-for-reference-genome-assembly 2021-09-27 09:00:00 UTC 2021-10-02 00:00:00 UTC [] Brandon Pickett [] [] [] [] []
  • EATRIS-Plus workshop on Theory and Practice of Industry and Academia Collaboration

    27 - 28 September 2021

    Online, Online

    Elixir node event
    EATRIS-Plus workshop on Theory and Practice of Industry and Academia Collaboration https://tess.elixir-europe.org/events/eatris-plus-workshop-on-theory-and-practice-of-industry-and-academia-collaboration The EATRIS-Plus workshop on Theory and Practice of Industry and Academia Collaboration. is a two-day workshop which will take place online on 27-28 September 2021. EATRIS-Plus workshop on Industry and Academia Collaboration has been developed within the framework of EATRIS-Plus H2020… The post EATRIS-Plus workshop on Theory and Practice of Industry and Academia Collaboration appeared first on Dutch Techcentre for Life Sciences. 2021-09-27 09:00:00 UTC 2021-09-28 00:00:00 UTC Online, Online, Online Online Online Online [] [] [] workshops_and_courses [] []
  • Mathematics of life (Virtual)

    27 September - 1 October 2021

    Hinxton, United Kingdom

    Elixir node event
    Mathematics of life (Virtual) https://tess.elixir-europe.org/events/mathematics-of-life-virtual This course will provide participants with an introduction to network analysis as well as modelling resources, tools and approaches used in systems biology. 2021-09-27 09:00:00 UTC 2021-10-01 17:00:00 UTC Virtual, Hinxton, United Kingdom Virtual Hinxton United Kingdom CB10 1SD [] Jane Reynolds [] [] [] [] HDRUK
  • First Steps with UNIX in Life Sciences - Streamed

    27 September 2021

    Streamed from Lausanne, Switzerland

    Elixir node event
    First Steps with UNIX in Life Sciences - Streamed https://tess.elixir-europe.org/events/first-steps-with-unix-in-life-sciences-streamed This course will be streamed only for the registered participants. Registered participants will receive specific information directly from the respective course’s organizers. 2021-09-27 09:00:00 UTC 2021-09-27 00:00:00 UTC SIB, Streamed from Lausanne, Switzerland SIB Streamed from Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • Introduction to high-performance computing (sciCORE cluster)

    28 September 2021

    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-08f393f3-a813-4e56-a574-7e419ca77f34 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 2021-09-28 09:00:00 UTC 2021-09-28 00:00:00 UTC SIB, Streamed from Basel, Switzerland SIB Streamed from Basel Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • NBIS Snakemake "bring-your-own-code" workshop (ONLINE)

    29 September - 2 October 2021

    Elixir node event
    NBIS Snakemake "bring-your-own-code" workshop (ONLINE) https://tess.elixir-europe.org/events/nbis-snakemake-bring-your-own-code-workshop-online #url: https://www.scilifelab.se/event/snakemake-byoc-bring-your-own-code-workshop-online/ 2021-09-29 09:00:00 UTC 2021-10-02 00:00:00 UTC [] jessica.lindvall@scilifelab.se [] [] [] [] []
  • First Steps with Python in Life Sciences - streamed

    29 September - 1 October 2021

    Streamed from Basel and Lausanne, Switzerland

    Elixir node event
    First Steps with Python in Life Sciences - streamed https://tess.elixir-europe.org/events/first-steps-with-python-in-life-sciences-streamed-fad56994-b647-446e-b022-090a6af0090b We are sorry but this course is oversubscribed, with a long waiting list. Sign up here to be informed of the next course. 2021-09-29 09:00:00 UTC 2021-10-01 00:00:00 UTC SIB, Streamed from Basel and Lausanne, Switzerland SIB Streamed from Basel and Lausanne Switzerland [] training@sib.swiss [] Graduate studentsIndustryAcademicsPhDPhD students workshops_and_courses [] []
  • WEBINAR: Launching the new Apollo Service: collaborative genome annotation for Australian researchers

    29 September 2021

    Australia

    WEBINAR: Launching the new Apollo Service: collaborative genome annotation for Australian researchers https://tess.elixir-europe.org/events/webinar-launching-the-new-apollo-service-collaborative-genome-annotation-for-australian-researchers Genome annotation is crucial to defining the function of genomic sequences. Apollo is a popular tool for facilitating real-time collaborative curation and genome annotation editing. The technical obstacles faced by Australian researchers wanting to access and maintain this software have now been solved. The new Apollo Service can host your genome assembly and supporting evidence files, taking care of all the system administration so you and your team can focus on the annotation curation itself. The Australian BioCommons and partners at [QCIF](https://www.qcif.edu.au/) and [Pawsey](https://pawsey.org.au/) are now offering the [Apollo Service](https://apollo-portal.genome.edu.au/) free to use for [Australian-based](https://apollo-portal.genome.edu.au/termsofuse#AusUni) research groups and research consortia. As part of this launch, you’ll hear what’s possible from some of the early adopters who helped guide the development of the service. These Australian researchers will highlight the benefits that Apollo is bringing to their genome annotation and curation workflows. Join us to find out how you can get access to the Apollo Service. **Who the webinar is for** Anyone with an interest in genome annotation, editing and curation. **Presenters:** Dr Tiffanie Nelson, Australian BioCommons Featuring case studies from: - Dr Rahul Rane, CSIRO - Prof Sandie Degnan and Prof Bernie Degnan, University of Queensland - Dr Ramil ‘Mau’ Mauleon and Julia Voelker, Southern Cross University **Date/time:** 29 September 2021 12pm - 1 pm AEST / 11:30am - 12:30pm ACST / 10am - 11am AWST **How to join** This webinar is free to join but you must register for a place in advance. **[Register here](https://unimelb.zoom.us/webinar/register/WN_0bDQZvP9RJ2hqGK0R2ulxg)** 2021-09-29 12:00:00 UTC 2021-09-29 13:00:00 UTC Australian BioCommons Australia Australia Genomics [] Melissa Burke (melissa@biocommons.org.au) [] [] 500 workshops_and_courses first_come_first_served genome annotationgenome curation
  • Using the Ensembl Genome Browser (ONLINE TRAINING)

    30 September 2021

    Cambridge, United Kingdom

    Elixir node event
    Using the Ensembl Genome Browser (ONLINE TRAINING) https://tess.elixir-europe.org/events/using-the-ensembl-genome-browser-online-training-f8a26f20-facb-424d-9f7b-6fd21fdf3d5c PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. The [Ensembl Project](http://www.ensembl.org) provides a comprehensive and integrated source of annotation of, mainly vertebrate, genome sequences. This workshop offers a comprehensive practical introduction to the use of the Ensembl genome browser as well as essential background information. This course will focus on the vertebrate genomes in Ensembl, however much of what will be covered is also applicable to the non-vertebrates (plants, bacteria, fungi, metazoa and protists) in Ensembl Genomes. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=3997805&course-title=Using%20the%20Ensembl%20Genome%20Browser).'' 2021-09-30 08:30:00 UTC 2021-09-30 16:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Gene transcripts Gene structure Bioinformatics University of Cambridge Bioinformatics Training [] Graduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK
  • Introduction to the analysis of NGS data, online

    30 September - 14 October 2021

    Leuven, Belgium

    Elixir node event
    Introduction to the analysis of NGS data, online https://tess.elixir-europe.org/events/introduction-to-the-analysis-of-ngs-data-online-fe44ff0a-a9a4-4d39-b81b-2648bbb12681 This training is an introduction to a series of trainings on the analysis of Next Generation Sequencing data. This training is intended for newbies to the field and will teach them all background knowledge required to successfully complete the advanced NGS analysis trainings. To this end the training will give an overview of: - The Illumina platform - NGS data formats and file handling - Quality control of NGS data - Mapping of NGS data - Supporting IT: Galaxy platform 2021-09-30 09:00:00 UTC 2021-10-14 00:00:00 UTC VIB Bioinformatics Core Park Inn by Radisson Leuven, Leuven, Belgium Park Inn by Radisson Leuven Leuven Belgium 3010 [] [] [] [] [] []
  • Elearning: Basic statistics theory

    1 - 31 October 2021

    Elixir node event
    Elearning: Basic statistics theory https://tess.elixir-europe.org/events/elearning-basic-statistics-theory After this training, you should be able to: Understand basic statistical concepts and methods for statistical analysis of life sciences data Choose the correct statistical test for analyzing your data Create the appropriate graph for visualizing your data Interpret and critically assess the results of basic statistical analyses Topics handled: Which statistical test should you choose? How to describe your data? How to visualize your data? The do's and don'ts of reporting statistics  Tips and tricks to improve the power of your tests  Examples   2021-10-01 09:00:00 UTC 2021-10-31 00:00:00 UTC VIB Bioinformatics Core [] [] [] [] [] []
  • [ONLINE] Hybrid CPU programming with OpenMP and MPI @ CSC

    4 - 5 October 2021

    [ONLINE] Hybrid CPU programming with OpenMP and MPI @ CSC https://tess.elixir-europe.org/events/online-hybrid-cpu-programming-with-openmp-and-mpi-csc This course will be delivered as an ONLINE COURSE for remote participation  due to the COVID-19 measures enforced by most European governments. Description The course introduces the basics of parallel programming with the OpenMP paradigm, and discusses how to combine OpenMP with MPI. OpenMP is a threading based approach which enables one to parallelize a program over a single shared memory machine, such as a single node in Mahti, Puhti or LUMI (CPU partition). By using OpenMP together with MPI, parallel scalability with large number of nodes can be improved. The course consists of lectures and hands-on exercises on parallel programming. This course is part of CSC Autumn of HPC 2021, a set of five two day modules teaching essential skills in parallel programming for modern GPU-accelerated supercomputers and organised by CSC – IT Center for Science Ltd (Finland) under PRACE Training Centres activity. Learning outcome After the course the participants should be able to write simple parallel programs and parallelize existing programs with basic features of OpenMP, combine OpenMP, and understand also more advanced OpenMP topics such as OpenMP Tasks. Prerequisites and content level The participants are assumed to have working knowledge of Fortran and/or C/C++ programming languages and skills discussed in the course "Parallel programming with MPI". The content level of the course is broken down as: beginner's - 60%, intermediate - 40%, advanced - 0%, community-targeted content - 0%. Preliminary agenda Day 1, Monday October 4 Introduction to OpenMP Data and work sharing Reductions and execution control Combining OpenMP with MPI Day 2, Tuesday October 5 OpenMP tasks Thread/process affinity Lecturers Jussi Enkovaara (CSC), Martti Louhivuori (CSC) Language:  English Price:           Free of charge (2 training days) REGISTRATION is OBLIGATORY since the details to access the online course will be provided to the registered and accepted attendees only. If you have registered to this course and you are not able to attend, please CANCEL your registration in advance by sending an email to patc@csc.fi https://events.prace-ri.eu/event/1225/ 2021-10-04 06:00:00 UTC 2021-10-05 13:30:00 UTC [] [] [] workshops_and_courses [] []
  • Ensembl REST API workshop (ONLINE TRAINING)

    4 October 2021

    Cambridge, United Kingdom

    Elixir node event
    Ensembl REST API workshop (ONLINE TRAINING) https://tess.elixir-europe.org/events/ensembl-rest-api-workshop-online-training-7f1575d1-0b50-4e85-b3ab-78e4fdd97932 PLEASE NOTE The Bioinformatics Team are presently teaching many courses live online, with tutors available to help you work through the course material on a personal copy of the course environment. We continue to monitor advice from the UK government and the University of Cambridge on resuming in-person teaching back in the training room. The [Ensembl project](http://www.ensembl.org/) provides a comprehensive and integrated source of annotation of mainly vertebrate genome sequences. This workshop is aimed at researchers and developers interested in exploring Ensembl beyond the website. The workshop covers how to use the Ensembl [REST APIs](http://rest.ensembl.org/), including understanding the major endpoints and how to write scripts to call them. Please note that if you are not eligible for a University of Cambridge [Raven](http://www.ucs.cam.ac.uk/docs/faq/raven/n5) account you will need to book or register your interest by linking [here](http://bioinfotraining.bio.cam.ac.uk/booking-form/?event-id=3997816&course-title=Ensembl%20REST%20API%20Workshop).'' 2021-10-04 08:30:00 UTC 2021-10-04 15:30:00 UTC University of Cambridge Craik-Marshall Building, Cambridge, United Kingdom Craik-Marshall Building Cambridge United Kingdom CB2 3AR Bioinformatics University of Cambridge Bioinformatics Training [] Bioinformaticians and wet-lab biologists who can programGraduate studentsPostdocs and Staff members from the University of CambridgeInstitutions and other external Institutions or individuals workshops_and_courses [] HDRUK

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