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  • RNA-seq data analysis using Chipster

    31 January 2017

    Elixir node event
    RNA-seq data analysis using Chipster https://tess.elixir-europe.org/events/rna-seq-data-analysis-using-chipster ELIXIR tutorial “RNA-seq data analysis using Chipster”, Jan 31, 2017 2017-01-31 09:00:00 UTC 2017-01-31 17:00:00 UTC IOCB Prague, University of Ljubljana, Faculty of Medicine, ELIXIR-FI Transcriptomics Genomics IOCB PragueUniversity of Ljubljana, Faculty of Medicine [] Researchers workshops_and_courses registration_of_interest transcriptomics RNA-SeqeLearningEeLP
  • Nanosafety and the semantic web: from natural language to computational processing

    8 - 9 December 2021

    Nanosafety and the semantic web: from natural language to computational processing https://tess.elixir-europe.org/events/nanosafety-and-the-semantic-web-from-natural-language-to-computational-processing On Wednesday 8th & Thursday 9th December 2021, the NanoCommon team, in a joint initiative with the EU NanoSafety Cluster, will offer an online workshop/hackathon on “Nanosafety and the semantic web: from natural language to computational processing”. The web is a large interlinked resource of information, which is largely represented in natural language. One of the main goals of the semantic web is to convert this data into formats suitable for computational processing. Within the nanosafety projects that the Department of Bioinformatics at Maastricht University (BiGCaT) is involved in, we talk a lot about Semantic Approaches and terms like the Web Ontology Language (OWL), Resource Description Framework (RDF), SPARQL queries and SPARQL endpoints are used regularly by members of our team. We have given workshops/tutorials/worksessions in the past, but always with a focus on the knowledge needed for a specific task we were working on. This means that many of our project partners understand part of the picture. We are therefore organizing a workshop covering the whole range of Semantic Approaches that we use within the nanosafety-projects. Starting with more general questions like “what is a triple and what is the link with ontologies and RDF?” all the way to writing SPARQL queries and exploring their capabilities, which by the end of the workshop everyone will be able to do and possibly implement in their own work. We will practice using and extending the eNanoMapper ontology and we will look at the SPARQL endpoints, semantic web applications and tools developed and used by BiGCaT within these nanosafety projects. The workshop will be spread out over two afternoons on the Thursday December 8th & 9th from 13:00 till 17:00 h CET. The afternoons will be filled with a mixture of lectures, tutorials, hands-on and Q&A sessions. Expectation: Willing to learn new things and active participation in the interactive webinar. Feel free to join and please do not forget to register here: https://ukri.zoom.us/meeting/register/tJMvcO2orzgrGdCjCCUSrDOkxGib4ZvgWOo5 After registering, you will receive a confirmation email containing information about joining the workshop. Please, be aware that some personal information may be collected for statistical purposes, however, in a blinded and anonymous way. The workshop will be partially recorded for educational purposes. You will find updates with more information about NanoCommons and training materials here. Feel free to redistribute this information within your projects and networks. We are happy to have as many participants as possible and to help the community with the FAIRification of their data by offering insight into fully exploring and linking available data resources in a more straightforward way. The NanoCommons team will be happy to answer your questions and to guide you in your requests! 2021-12-08 13:00:00 UTC 2021-12-09 17:00:00 UTC Martin Himly, PLUS, Chair of EU NanoSafety Cluster WG-A Maastricht University NanocommonsNanoSolveIT mixed audience 80 workshops_and_courses [] data FAIRnessmetadata completenessscientific quality assurancelinked datalife sciences
  • Electronic Lab Notebooks - Demo of NanoCommons-powered Features

    13 January 2022

    Electronic Lab Notebooks - Demo of NanoCommons-powered Features https://tess.elixir-europe.org/events/electronic-lab-notebooks-demo-of-nanocommons-powered-features On Thursday, January 13th 2022, the NanoCommons team, in a joint initiative with the NanoSafety Cluster, is offering an interactive online workshop on implementing Electronic Laboratory Notebooks (ELNs) for nanosafety assessment. Under the subtitle “Electronic Lab Notebooks - Demo of NanoCommons-powered Features”, you will learn how to establish a experimental workflows using electronic lab notebooks (ELNs). This starts with an introduction to the NanoCommons-powered features on how to manage, modify, create, and import protocols for assays. Tasks can be defined and assigned to different users and/or groups. Finally, data (incl. all relevant metadata) can be exported resulting in reports that facilitate data FAIRness. Technology advancement, the emergence of nanoinformatics and FAIR data principles implementation have increased the need for high-quality datasets. To achieve this, the data produced through academia, industry and regulatory bodies needs to be properly curated, to contain sufficient metadata and to be semantically annotated. In this way, data can be accessible and readable from both humans and machines, making it possible to be queried and mined using appropriate systems. One of the main objectives of NanoCommons is to promote the FAIR data principles, cross-project collaboration and data interoperability. This will make it possible to offer the nanosafety community high quality data that can be combined to produce big datasets and be used in novel modelling, machine learning, deep learning and AI techniques. We aim to achieve this by implementing data management processes covering the entire data lifecycle, and by moving the data curation process to the data generators, in line with the concept of Data Shepherding. Capturing the data and metadata as they are produced will save substantial time and resources, while resulting in higher quality datasets. ELNs can be implemented, through cloud services or locally, into everyday experimental practice streamlining and simplifying experimental and computational workflows, practices and data capturing. Target audience: Bench and computational scientists looking into automated ways to capture and retrieve data and making them available to the community. Expectation: Willing to learn new things and active participation in the interactive training session. The hackathon will take place on Thursday, January 13th from 15:00 till 17:00 h CET. Feel free to join and please do not forget to register here asap so we can tailor the workshop for your needs. Please, be aware that some personal information may be collected for statistical purposes, however, in a blinded and anonymous way. The workshop will be partially recorded for educational purposes. You will find updates with more information about NanoCommons and training materials here. Feel free to redistribute this information within your projects and networks. We are happy to have as many participants as possible and to help the community with the FAIRification of their data by using ELNs allowing nanosafety data annotation in a more straightforward way. The NanoCommons team will be happy to answer your questions and to guide you in your requests! 2022-01-13 15:00:00 UTC 2022-01-13 17:00:00 UTC Martin Himly, PLUS, Chair of EU NanoSafety Cluster WG-A University of Brimingham NanoCommons mixed audience 50 workshops_and_courses [] data FAIRnessmetadata completenesslife sciencesnanosafety assessment

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