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7 events found

City: Bogota  or Brussels  or Nijmegen  or Liverpool  or Gent or Leuven 

and

Content provider: OpenRiskNet  or VIB Bioinformatics Core  or Jalview 

  • Multiple Sequence Alignment with Jalview and Protein Structure and Function Modelling

    14 - 15 May 2018

    Liverpool, United Kingdom

    Elixir node event
    Multiple Sequence Alignment with Jalview and Protein Structure and Function Modelling https://tess.elixir-europe.org/events/multiple-sequence-alignment-with-jalview-and-protein-structure-and-function Date: Monday 14th to Tuesday 15th May 2018 Time: 9.00 to 17.00 Location: MSTC, Sherrington Building, University of Liverpool, L69 3BX Overview This two day hands-on training course is aimed at students and researchers who want to gain practical understanding of the tools and approaches for protein sequence, structure and function prediction and analysis. In day 1, participants will be introduced to Jalview - a free desktop application for the visualisation and comparative analysis of protein, DNA and RNA sequences. Jalview can integrate data from Ensembl, Uniprot, PDBe, Rfam and Pfam, and can access a range of tools for multiple sequence alignment, conservation analysis and secondary structure and disorder prediction, including the widely used JPred4. On the second day, participants will learn to use Jalview’s 3D structure visualisation capabilities in conjunction with UCSF Chimera, and take a whistle-stop tour of the methodologies and tools for prediction and analysis of Protein 3D structure and function. Participants are encouraged to bring their own protein analysis problems and time will be reserved at the end of day 2 for discussion. Register using the link on the Jalview website: http://www.jalview.org/training/training-courses/Multiple-Sequence-Alignment-with-Jalview-and-Protein-Structure-and Day 1: Multiple Sequence Alignment and Analysis with Jalview Workshop trainers: Dr Jim Procter and Dr Suzanne Duce 9 9.15 Introduction to the Workshop 9.15 10.30 Session 1.Loading sequences, structures and alignments with Jalview Coffee break 11 12.30 Session 2. Multiple alignment Creation and Alignment Reliability Lunch 1.30 3pm Session 3. Phylogenetic trees and subfamily analysis of Proteins and CDS Coffee break 3.30 5pm Session 4. Protein secondary structure and disorder prediction, and working with annotation Day 2: Protein Structure Analysis and Modelling Workshop trainers: Dr Jim Procter and Dr Dan Rigden 9 9.15 Introduction to Workshop Day 2 9.15 9.30 Introduction to Protein 3D Structure 9.30 10 Viewing and Comparing 3D structures with Jalview and UCSF Chimera 10 10.30 Mapping sequence conservation to Biological Assemblies with Jalview Coffee Break 11 12.30 Functional analysis of Protein Structures Lunch 1.30 2.30 Homology modelling and model quality evaluation 2.30 3.15 Ab initio models and searching for fold matches 3.15 3.30 Wrap up: Function Analysis and 3D models Coffee Break 4pm 5pm Analyse your own protein sequences and structures. 2018-05-14 09:00:00 UTC 2018-05-15 17:00:00 UTC Dr Jim Procter and Dr Dan Rigden MSTC, Sherrington Building, University of Liverpool, Liverpool, United Kingdom MSTC, Sherrington Building, University of Liverpool Liverpool Merseyside United Kingdom L69 3BX University of Liverpool Dr Jim Procter and Dr Suzanne Duce, School of Life Sciences, University of Dundee, Dundee University of Dundee PhD studentspostdoctoral researchersprinciple investigatorsLife Science Researchersbioinformaticians 45 workshops_and_courses registration_of_interest Jalviewmultiple sequence alignmentMSAprotein sequence protein structure protein predictionHomology modellingAb initio modelsChimerasubfamily analysisPhylogenetic treesProtein secondary structureUniversity of DundeeUniversity of Liverpool
  • Data Carpentry June 2018

    12 - 13 June 2018

    Brussels, Belgium

    Elixir node event
    Data Carpentry June 2018 https://tess.elixir-europe.org/events/data-carpentry-june-2018 2018-06-12 09:30:00 UTC 2018-06-13 17:00:00 UTC ELIXIR Belgium Brussels, Belgium Brussels Belgium 1050 [] [] [] [] [] []
  • VIB Community Meeting - Bioinformatics and Computational Biology

    6 September 2018

    Brussels, Belgium

    Elixir node event
    VIB Community Meeting - Bioinformatics and Computational Biology https://tess.elixir-europe.org/events/vib-community-meeting-bioinformatics-and-computational-biology b'\r\n\r\n\n \r\n\r\n\n \r\n\n' 2018-09-06 09:30:00 UTC 2018-09-06 16:00:00 UTC VIB Bioinformatics Core U-Residence, Brussels, Belgium U-Residence Brussels Belgium 1050 [] [] [] [] [] []
  • OpenRiskNet/NanoCommons ontology meeting

    13 - 14 December 2018

    Brussels, Belgium

    OpenRiskNet/NanoCommons ontology meeting https://tess.elixir-europe.org/events/openrisknet-nanocommons-ontology-meeting The goal of this meeting is to get a picture of the ongoing ontology activities in the toxicology area, harmonize these efforts and the developed ontologies therein, and extend the existing toxicology ontology to support OpenRiskNet and NanoCommons tasks. Part of this will be the ontological annotation of OpenRiskNet Application Programming Interfaces (APIs) as used on their cloud. Other goals include extension of the ontology with missing terms (if any), potentially write up guidance documents, and annotation of data sets (possible via OpenRiskNet data APIs). 2018-12-13 13:00:00 UTC 2018-12-14 14:00:00 UTC University of Birmingham office in Brussels, Brussels, Belgium University of Birmingham office in Brussels Brussels Belgium Ontology and terminology Toxicology [] NanoCommonsOpenRiskNetH2020 [] workshops_and_courses [] risk assessmentnanosafetydata annotationservice descriptions
  • VIB Bioinformatics Core Meeting

    19 February 2019

    Gent or Leuven, Belgium

    Elixir node event
    VIB Bioinformatics Core Meeting https://tess.elixir-europe.org/events/vib-bioinformatics-core-meeting 2019-02-19 09:00:00 UTC 2019-02-19 00:00:00 UTC VIB Bioinformatics Core Residential, Gent or Leuven, Belgium Residential Gent or Leuven Belgium 0000 [] [] [] [] [] []
  • Bioinformatics tools to predict protein properties from sequence

    10 September 2019

    Brussels, Belgium

    Elixir node event
    Bioinformatics tools to predict protein properties from sequence https://tess.elixir-europe.org/events/bioinformatics-tools-to-predict-protein-properties-from-sequence In this workshop, we address how to predict features of proteins from their sequence only, using Python scripts to access APIs of web services available online. We will introduce single-sequence based predictions of biophysical characteristics of proteins (e.g. DynaMine for backbone dynamics), methods that use multiple sequence alignments (e.g. I-TASSER), and methods that determine the difference between a protein and its mutant form (e.g. DEOGEN2). We will also show how the results of these predictions can be combined and analysed using a protein case study. 2019-09-10 09:00:00 UTC 2019-09-10 00:00:00 UTC VIB Bioinformatics Core U-Residence Brussels, Brussels, Belgium U-Residence Brussels Brussels Belgium 1050 [] [] [] [] [] []
  • Research Data Management & Data Stewardship: much more than a FAIRytale

    12 December 2019

    Brussels, Belgium

    Elixir node event
    Research Data Management & Data Stewardship: much more than a FAIRytale https://tess.elixir-europe.org/events/research-data-management-data-stewardship-much-more-than-a-fairytale Anyone interested in Research Data Management, Data Stewardship and FAIR Data is warmly invited to register for this event. Our aim is to provide you with ready-to-use knowledge to get started working on these topics within your organization.  2019-12-12 09:00:00 UTC 2019-12-12 00:00:00 UTC VIB Bioinformatics Core Hendrik Conscience Building - Brussels, Brussels, Belgium Hendrik Conscience Building - Brussels Brussels Belgium 1210 [] [] [] [] [] []
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