ELIXIR

Building a sustainable European infrastructure for biological information, supporting life science research and its translation to medicine, agriculture, bioindustries and society.
ELIXIR unites Europe’s leading life science organisations in managing and safeguarding the massive amounts of data being generated every day by publicly funded research. It is a pan-European research infrastructure for biological information.
ELIXIR provides the facilities necessary for life science researchers - from bench biologists to cheminformaticians - to make the most of our rapidly growing store of information about living systems, which is the foundation on which our understanding of life is built.

ELIXIR https://tess.elixir-europe.org/content_providers/elixir Building a sustainable European infrastructure for biological information, supporting life science research and its translation to medicine, agriculture, bioindustries and society. ELIXIR unites Europe’s leading life science organisations in managing and safeguarding the massive amounts of data being generated every day by publicly funded research. It is a pan-European research infrastructure for biological information. ELIXIR provides the facilities necessary for life science researchers - from bench biologists to cheminformaticians - to make the most of our rapidly growing store of information about living systems, which is the foundation on which our understanding of life is built. /system/content_providers/images/000/000/050/original/38675_web.jpg?1476092978
Showing 5 materials.
The Turing Way

The Turing Way is a lightly opinionated guide to reproducible data science. Our goal is to provide all the information that researchers need at the start of their projects to ensure that they are easy to reproduce at the end. This also means making sure PhD students, postdocs, PIs, and...

Keywords: Data Science, Reproducibility, Version control, Reproducible Environment, Continuous integration

Resource type: e-learning

The Turing Way https://tess.elixir-europe.org/materials/the-turing-way The Turing Way is a lightly opinionated guide to reproducible data science. Our goal is to provide all the information that researchers need at the start of their projects to ensure that they are easy to reproduce at the end. This also means making sure PhD students, postdocs, PIs, and funding teams know which parts of the “responsibility of reproducibility” they can affect, and what they should do to nudge data science to being more efficient, effective, and understandable. Data Science, Reproducibility, Version control, Reproducible Environment, Continuous integration
ELIXIR EXCELERATE Train the Trainer

This set of course material was designed in the context of the ELIXIR EXCELERATE Train the Trainer programme. It covers four sessions: * Learning principles and how they apply to training and teaching * Teaching techniques that can be used to enhance learner engagement and participation *...

Keywords: Train the trainer, Pedagogy, Course development, Course design

Resource type: Training materials

ELIXIR EXCELERATE Train the Trainer https://tess.elixir-europe.org/materials/elixir-excelerate-train-the-trainer This set of course material was designed in the context of the ELIXIR EXCELERATE Train the Trainer programme. It covers four sessions: * Learning principles and how they apply to training and teaching * Teaching techniques that can be used to enhance learner engagement and participation * Lesson, course, and materials design * Assessment and feedback in training and teaching Train the trainer, Pedagogy, Course development, Course design Trainers Training instructors Training Designers teachers
PacBio de novo genome assembly - Hands on exercise

- Produce an assembled genomes from read file(s). - Produce genomes with : --– the awaited length, – few errors (INDELs). - Use different software packages to produce the genomes. - Understand the command line structure and some of the parameters used by the assemblers. - Polish the genome...

Resource type: PDF

PacBio de novo genome assembly - Hands on exercise https://tess.elixir-europe.org/materials/pacbio-de-novo-genome-assembly-hands-on-exercise - Produce an assembled genomes from read file(s). - Produce genomes with : --– the awaited length, – few errors (INDELs). - Use different software packages to produce the genomes. - Understand the command line structure and some of the parameters used by the assemblers. - Polish the genome to have good quality sequence.
Genome assembly with long reads

- News - PacBio read production and error patterns - Nanopore read production and error patterns - Assembly strategies - Assembly results - Conclusions

Resource type: PDF

Genome assembly with long reads https://tess.elixir-europe.org/materials/genome-assembly-with-long-reads - News - PacBio read production and error patterns - Nanopore read production and error patterns - Assembly strategies - Assembly results - Conclusions
FAIRify your data: data documentation and metadata

“Documentation is a love letter that you write to your future self.” Damian Conway (2005) Make your data as useful as possible for “your future self” and others Never forget what you did or how or why you did it Always find beck your precious data (easily) Make data understandable,...

Scientific topics: Data management

Keywords: data documentation, metadata

Resource type: Presentation

FAIRify your data: data documentation and metadata https://tess.elixir-europe.org/materials/fairify-your-data-data-documentation-and-metadata “Documentation is a love letter that you write to your future self.” Damian Conway (2005) Make your data as useful as possible for “your future self” and others Never forget what you did or how or why you did it Always find beck your precious data (easily) Make data understandable, reproducible and reusable by “your future self” and others Avoid misinterpretation Data management data documentation, metadata life scientists
Showing 8 upcoming events. Found 256 past events. View all results.
  • 3D-Bioinformatics 2021 Annual Workshop

    2 - 4 November 2021

    3D-Bioinformatics 2021 Annual Workshop https://tess.elixir-europe.org/events/3d-bioinformatics-2021-annual-workshop ELIXIR Communities enable the participation of communities of practice in different areas of the life sciences in the activities of ELIXIR, which underpin the evolution of a data, tools, interoperability, compute and training infrastructure for European life science informatics (see www.elixir-europe.org/use-cases). Structural bioinformatics has a broad impact across the life sciences and provides tools to archive, visualise, analyse, annotate, and predict molecular structures. Structural bioinformatics is traditionally very strong in Europe offering many software tools, methodologies, and databases, as well as community-wide prediction challenges. Its applications cover research activities from structural biology to drug discovery and personalised medicine that are all well represented within the national ELIXIR nodes. The meeting will be virtual this year due to the COVID-19 pandemic. Details of a Zoom link will be sent closer to the time.  Submission of abstracts for posters is encouraged, as researchers with accepted posters will be offered the opportunity to pre-record short talks for their poster. Authors of selected poster talks will be invited to give longer talks during the main meeting sessions.   To find out more about the 3D-BioInfo Community, please go to the website: www.elixir-europe.org/communities/3d-bioinfo   Overview of Programme: The meeting will start with a brief overview of the aims of the 3DBioInfo Community. This will be followed by Breakout sessions for each of the major 3D-BioInfo Activities described below. These breakout sessions will be held sequentially, allowing participants to attend any number of sessions they want. Next will come a Plenary session, at which coordinators of the different Activities will present their reports. Some slots for short presentations and posters will be available for some of the activities. If you are interested in contributing, please submit an abstract together with your application. The application deadline is: September 15th (for poster/short talk) and October 31st (for attendance only). Some slots for short presentations and posters will be available for some of the activities. If you are interested in contributing, please submit an abstract together with your regsitration or send an email to our Communities Coordinator Katharina Heil: katharina.heil@elixir-europe.org The application deadline is: 27th September (for poster/short talk) and 1st November (for attendance only). All the sessions and talks will be recorded, with the recordings made available after the event. 2021-11-02 13:00:00 UTC 2021-11-04 17:00:00 UTC [] [] [] [] [] []
  • 3D-BioInfo 2021 Annual Meeting

    2 - 4 November 2021

    3D-BioInfo 2021 Annual Meeting https://tess.elixir-europe.org/events/3d-bioinfo-2021-annual-meeting ELIXIR Communities enable the participation of communities of practice in different areas of the life sciences in the activities of ELIXIR, which underpin the evolution of a data, tools, interoperability, compute and training infrastructure for European life science informatics (see https://elixir-europe.org/communities). Structural bioinformatics has a broad impact across the life sciences and provides tools to archive, visualise, analyse, annotate, and predict molecular structures. Structural bioinformatics is traditionally very strong in Europe offering many software tools, methodologies, and databases, as well as community-wide prediction challenges. Its applications cover research activities from structural biology to drug discovery and personalised medicine that are all well represented within the national ELIXIR nodes. The meeting will be virtual this year due to the COVID-19 pandemic. Details of a Zoom link will be sent closer to the time.  Submission of abstracts for posters is encouraged, as researchers with accepted posters will be offered the opportunity to pre-record short talks for their poster. Authors of selected poster talks will be invited to give longer talks during the main meeting sessions.   To find out more about the 3D-BioInfo Community, please go to the website: www.elixir-europe.org/communities/3d-bioinfo.   Overview of Programme: The meeting will start with a brief overview of the aims of the 3DBioInfo Community. This will be followed by Breakout sessions for each of the major 3D-BioInfo Activities described below. These breakout sessions will be held sequentially, allowing participants to attend any number of sessions they want. Next will come a Plenary session, at which coordinators of the different Activities will present their reports. Some slots for short presentations and posters will be available for some of the activities. If you are interested in contributing, please submit an abstract together with your application. Abstracts shall be submitted as a pdf document, maximum of one page; text, including references/figure if desired.    The application deadline is: 27th September (for poster/short talk) and 1st November (for attendance only). Or you can send an email to our Communities Coordinator Katharina Heil: katharina.heil@elixir-europe.org. All the sessions and talks will be recorded, with the recordings made available to meeting attendees after the event. 2021-11-02 13:00:00 UTC 2021-11-04 17:00:00 UTC [] [] [] [] [] []
  • ELIXIR Fluxomics Training School

    4 - 8 October 2021

    ELIXIR Fluxomics Training School https://tess.elixir-europe.org/events/elixir-fluxomics-training-school The first ELIXIR Fluxomics Training School is organised by ELIXIR-GR (FORTH/ICE-HT) in collaboration with ELIXIR-ES (UB), in the context of the ELIXIR Metabolomics Community-lead Implementation Study “Standardizing the fluxomics workflows”. This five-day course, will take place in virtual mode on 4-8  October 2021, from 9:00 to 17:00 Central European Time (CET). It will provide an introduction to the field of fluxomics and the experimental and computational methods used to estimate and predict metabolic fluxes. The course is addressed mainly to graduate students and junior post-docs, of either experimental or computational background. Learning outcomes include familiarity with the basic concepts, experimental techniques, data deposition standards and computational methods and software tools in fluxomics. The course includes hands-on experience in computational methods and software tools and mini team projects that will help the students apply the taught concepts. The course will involve up to 30 students and the selection will be made based on an application package submitted by August 27 2021.  Sponsored by ELIXIR, the course is free of charge for personnel of academic/research/non-profit institutions in ELIXIR Nodes. Registration fees apply for the rest. ECTS credits may be granted to graduate students of European Institutions upon request after approval of the involved Graduate Programs. More information on the school can be found on the school website. 2021-10-04 09:00:00 UTC 2021-10-08 17:00:00 UTC [] [] [] [] [] []
  • ELIXIR 3D-Bioinfo Community Webinar: Open resources for sharing, integrating and benchmarking software tools for modelling the interactome in 3D

    19 October 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-f029e1c2-f19c-4ddc-979c-c76776c22264   Programme Vincent Zoete: Development of models for protein-ligand interactions Ute Röhrig: Development of reliable Benchmark Sets for Structure-Based Drug Design: Focus on Metalloproteins and Covalent Interactions ​Each presentation will last around 20 minutes followed by questions. There will be an opportunity for a wider discussion at the end.  This is the third 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. 2021-10-19 15:00:00 UTC 2021-10-19 16:00:00 UTC [] [] [] [] [] []
  • ELIXIR 3D-Bioinfo Community Webinar: Development of models for protein-ligand interactions

    19 October 2021

    ELIXIR 3D-Bioinfo Community Webinar: Development of models for protein-ligand interactions https://tess.elixir-europe.org/events/elixir-3d-bioinfo-community-webinar-development-of-models-for-protein-ligand-interactions   Programme Vincent Zoete: Development of models for protein-ligand interactions Ute Röhrig: Development of reliable Benchmark Sets for Structure-Based Drug Design: Focus on Metalloproteins and Covalent Interactions ​Each presentation will last around 20 minutes followed by questions. There will be an opportunity for a wider discussion at the end.  This is the third 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. 2021-10-19 15:00:00 UTC 2021-10-19 16:00:00 UTC [] [] [] [] [] []
  • Heads of Nodes teleconference

    9 December 2021

    Heads of Nodes teleconference https://tess.elixir-europe.org/events/heads-of-nodes-teleconference-0d88b72a-dc49-4e00-b647-52002b23af26 The ELIXIR Heads of Nodes Teleconference is scheduled to take place on Thursday, 9 December 2021 from 10:00 - 13:00 (GMT) / 11:00 - 14:00 (CET) / 12:00 - 15:00 (EET). This is a closed meeting and intended for ELIXIR Heads of Nodes. 2021-12-09 10:00:00 UTC 2021-12-09 10:00:00 UTC [] [] [] [] [] []
  • BioHackathon Europe 2021

    8 - 12 November 2021

    Barcelona, Spain

    BioHackathon Europe 2021 https://tess.elixir-europe.org/events/biohackathon-europe-2021 Each November ELIXIR organises BioHackathon Europe, which brings together bioinformaticians from around the world. The event takes place in different locations around Europe. This year it will be at the Campus La Mola near Barcelona. The BioHackathon offers an intense week of hacking, with over 160 international participants who work on diverse and exciting projects. This year there will be 37 hacking projects. For details of this year's event see the BioHackathon website. To find out what happened in previous BioHackathons, see the BioHackathon Europe page. 2021-11-08 09:00:00 UTC 2021-11-12 17:00:00 UTC Campus La Mola, Barcelona, Spain Campus La Mola Barcelona Spain [] [] [] [] [] []
  • ELIXIR-FR : 4th Workshop Single-Cell 2022 (Roscoff-FRANCE)

    9 - 14 January 2022

    Roscoff, France

    ELIXIR-FR : 4th Workshop Single-Cell 2022 (Roscoff-FRANCE) https://tess.elixir-europe.org/events/elixir-fr-4th-workshop-single-cell-2022-roscoff-france Training : Single-Cell : Transcriptomics, Spatial and Multi-Omics (sincellTE) Deadline pre-registration: 15th September 2021 This one-week class focuses on the large-scale study of heterogeneity across individual cells from the genomic, transcriptomic and epigenomic points of view. New technological developments enable the characterization of molecular information at a single cell resolution for large numbers of cells. The high dimensional omics data that these technologies produce comes with novel methodological challenges for the analysis. In this regard, specific bioinformatics and statistical methods have been developed in order to extract robust information. This course is directed towards engineers and researchers who regularly need to undertake single-cell data analysis as well as PhD Student and Post Doc in computational biology or bioinformatics that are interested in the development of methods and pipelines for highly dimensional single-cell data analysis. A wide range of single cell topics will be covered in lectures, demonstrations and practical classes. Among others, the areas and issues to be addressed will include the choice of the most appropriate single-cell sequencing technology, the experimental design and the bioinformatics and statistical methods and pipelines. For this edition, new courses/practicals will focus on spatial transcriptomics, cell phenotyping and additional multi-omics. Requirements : Participants must have prior experience on NGS data analysis  with everyday use of R and good knowledge of Unix command line. Before the training, participants will be asked to familiarize themselves with the processing and primary analyses steps of scRNA-seq datasets with provided pedagogic material. It is not necessary to have personal single-cell data to analyse. All information and pre-registration: https://www.france-bioinformatique.fr/formation/single-cell-2022/ 2022-01-09 18:00:00 UTC 2022-01-14 16:00:00 UTC Place Georges Teissier, Roscoff, France Place Georges Teissier Roscoff France 29680 [] [] [] [] [] []