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20 events found

Content provider: Birmingham Metabolomics Tra...  or ELIXIR Hungary  or Jalview 

  • Quality Assurance and Quality Control in Metabolomics

    12 - 13 October 2017

    Birmingham, United Kingdom

    Elixir node event
    Quality Assurance and Quality Control in Metabolomics https://tess.elixir-europe.org/events/quality-assurance-and-quality-control-in-metabolomics-ea29a17f-d41e-4488-808b-b137b7c82b93 This 2-day course will provide a comprehensive theoretical overview and hands-on experience of the application of quality assurance (QA) and quality control (QC) in metabolomics. It will include both theoretical and practical components to provide hands-on experience of using the mass spectrometer (a maximum of 4 people working on the instrument in a session) and the analysis of data. Experts who have developed the application of QA and QC procedures within the field will lead the course. 2017-10-12 09:00:00 UTC 2017-10-13 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • NERC-MDIBL Environmental Genomics and Metabolomics 2018

    4 - 9 March 2018

    Birmingham, United Kingdom

    Elixir node event
    NERC-MDIBL Environmental Genomics and Metabolomics 2018 https://tess.elixir-europe.org/events/nerc-mdibl-environmental-genomics-and-metabolomics-2018 This NERC funded short course will provide a hands-on approach to guide genomics and metabolomics research applied to the environmental scientists. Participation in the course is open to everyone but priority is given to NERC-funded PhD students and early-career scientists. The course will include ~1.5 days generic environmental omics training and ~3.5 days specialized genomics or metabolomics training. Case studies using multi-omics data will be provided so that you gain practical experience of analyzing and interpreting multi-omics data. Distinguished visiting academics will provide keynote lectures on each day of the course to highlight environmental omics applictions that draw on the expertise of the guest faculty. 2018-03-04 09:00:00 UTC 2018-03-09 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT Genomics Metabolomics [] [] [] [] [] []
  • 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
  • Metabolomics: Understanding Metabolism in the 21st Century

    23 July - 17 August 2018

    Birmingham, United Kingdom

    Elixir node event
    Metabolomics: Understanding Metabolism in the 21st Century https://tess.elixir-europe.org/events/metabolomics-understanding-metabolism-in-the-21st-century Metabolomics is an emerging field that aims to measure the complement of metabolites (the metabolome) in living organisms. The metabolome represents the downstream effect of an organism’s genome and its interaction with the environment. Metabolomics has a wide application area across the medical and biological sciences. The course provides an introduction to metabolomics, describes the tools and techniques we use to study the metabolome and explains why we want to study it. By the end of the course you will understand how metabolomics can revolutionise our understanding of metabolism. 2018-07-23 09:00:00 UTC 2018-08-17 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • RNA Seq Data Analysis by using the Galaxy platform

    17 - 18 November 2018

    Debrecen, Hungary

    RNA Seq Data Analysis by using the Galaxy platform https://tess.elixir-europe.org/events/rna-seq-data-analysis-by-using-the-galaxy-platform Galaxy is an open source, web-based platform for data intensive biomedical research (more info here: https://usegalaxy.org/). Galaxy is accessible on various servers word-wide for academic researchers. RNA Sequencing is one of the most frequently used method to charachterize the transcriptional status of a cell or a system. Galaxy provides a straightforward, GUI (Graphical User Inferface) based access to a wide series of bioinformatic programs needed for genomic investigations. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics of bioinformatics and GUI based tools to unix based programs and R programming.  Trainer of the course is Dr Beata Scholtz. The course is free but registration is mandatory. The language of the course is English. This will be a two days, hands on computer course. Zero prior bioinformatic knowledge is needed.  We inviting life science researchers who are dealing with genomic datasets and would like to understand basic concepts of NGS data analysis. The course will be run on local computers while Galaxy itself runs on servers, in this case our server.  Venue: This is a computer room of the Medical Faculty located in the Dean's Office Building Shared with the International Student Coordination Center. The place can be easily accessed by Tram no 1, "Egyetem tér" station.  This building is on the left of the main building, the second building on the left of the university church. (On GoogleMaps is called OEC Erasmus Office) GPS coordinates: 47°33'16.3"N 21°37'26.4"E, alternative format: 47.554517, 21.624006 We plan to provide coffee and refreshments including a sandwich lunch.  By the end of the course attendees should understand basic steps of NGS data analysis on RNA Seq and CHIP-Seq datasets.  We can not provide you lodging but if needed use booking.com for your convenience.  Programme: 2018. 11. 17.  Saturday 9:30-10:00 Coffee and Welcome! 10:00-12:00 Introduction to Galaxy.  Loading data into Galaxy from different sources.  Quality assessment: FASTQC (Colon cc data). Data preprocessing-quality correction: Trimmomatic.  Alignment to reference sequence. 12:00-13:00 Lunch break 13:00- 15:00 Post-alignment quality control.  Build a workflow. Transcript and gene level differential expression.   15:00-15:30 Coffee break 15:30-17:00 Transcript and gene level differential expression (continued). 2018. 11. 18.  Sunday 9:00-10:00 Transcript and gene level differential expression (continued). 10:00-10:30 Coffee break 10:30-12:30 Mutation analysis of RNAseq data.  Peeking out of Galaxy: annotation of mutations (VEP).   12:30-13:30  Lunch break 13:30-14:30 Visualization of aligned data in Integrated Genomic Viewer.  Single nucleotide variant quality assessment in IGV. Transcript assembly visualization in IGV (Sashimi plot). 14:30-15:00 Coffee Break 15:30-17:00 ChIP-seq data analysis in Galaxy. 2018-11-17 08:00:00 UTC 2018-11-18 16:30:00 UTC ELIXIR Hungary OEC ERASMUS Office , Debrecen, Hungary OEC ERASMUS Office Debrecen Hungary 4032 [] [] [] workshops_and_courses [] []
  • Software Carpentry - First Hungarian Carpentry Workshop

    1 - 2 December 2018

    Debrecen, Hungary

    Software Carpentry - First Hungarian Carpentry Workshop https://tess.elixir-europe.org/events/software-carpentry-first-hungarian-carpentry-workshop R programing is one of the most comprehensive tool used for data analysis by life scientists. It is a framework to use hundreds of free academic data analysis tools. While anyone can learn is and use it, learning it from experienced users is of great advantage.We are organizing the First Hungarian Software Carpentry Course as a full week-end, two days, hands-on intro into R programming for novices. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics of bioinformatics and GUI based tools to unix based programs and R programming. The Course is part of a longer series of bioinformatic training events that covers various topics from very basics off bioinformatics and GUI based tools to unix based programms and R programming.  The course is free but registration is mandatory. The language of the course is English. This will be a two days, hands on computer course. Zero prior bioinformatic knowledge is needed.  We encourage life science researchers from any field who are dealing with larger datasets and would like to immerse into Data Handling and R programming.  We encourage you to bring your own laptop in order to use your most friendly environment. If you need a laptop to be provided, please contact the local organizer (balintblaszlo at gmail dot com). Venue: This is a seminar room of the Medical Faculty located in the Dean's Office Building Shared with the International Student Coordination Center. The place can be easily accessed by Tram no 1, "Egyetem tér" station.  The second building on the left of the university church.  GPS coordinates: 47°33'16.3"N 21°37'26.4"E, alternative format: 47.554517, 21.624006 We plan to provide coffee and refreshments including a sandwich lunch.  By the end of the course attendees should understand best practices of Data Handling and have a basic knowledge in using R for data analysis and data visualization. Before registering please complete the preregistering survey here. Further details about the workshop on the Github here. We can not provide you lodging but if needed use booking.com for your convenience.  2018-12-01 08:00:00 UTC 2018-12-02 16:30:00 UTC ELIXIR Hungary OEC ERASMUS Office , Debrecen, Hungary OEC ERASMUS Office Debrecen Hungary 4032 [] [] [] workshops_and_courses [] []
  • Introduction to Metabolomics for the Microbiologist

    30 January - 1 February 2019

    Birmingham, United Kingdom

    Elixir node event
    Introduction to Metabolomics for the Microbiologist https://tess.elixir-europe.org/events/introduction-to-metabolomics-for-the-microbiologist This three-day course will introduce the attendees in how untargeted metabolomics can be applied to study microbial systems in academic and industrial research. The course will provide an overview of the metabolomics pipeline from experimental design to sample preparation and data acquisition to data analysis/interpretation. The course will be led by experts in the field of metabolomics and will include lectures, hands-on laboratory sessions in sample preparation and data acquisition and computer workshops focused on data processing and data analysis. 2019-01-30 09:00:00 UTC 2019-02-01 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Introduction to Metabolomics for the Environmental Scientist

    28 February - 1 March 2019

    Birmingham, United Kingdom

    Elixir node event
    Introduction to Metabolomics for the Environmental Scientist https://tess.elixir-europe.org/events/introduction-to-metabolomics-for-the-environmental-scientist This 2-day NERC-funded Advanced Training Short Course will provide environmental scientists with an overview of the metabolomics pipeline. The course is intended for environmental scientist with little or no previous experience of metabolomics and who are interested to discover how this relatively new and powerful approach could be integrated into their research. Experts working in the NERC Metabolomics facility-NBAF-Birmingham will teach the course. 2019-02-28 09:00:00 UTC 2019-03-01 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Introduction to Metabolomics for the Clinical Scientist

    11 March 2019

    Birmingham, United Kingdom

    Elixir node event
    Introduction to Metabolomics for the Clinical Scientist https://tess.elixir-europe.org/events/introduction-to-metabolomics-for-the-clinical-scientist The 1-day course in partnership with the Phenome Centre Birmingham will provide clinicians with an overview of the metabolomics pipeline highlighting the benefits of this technique to the medical field and an introduction to the Phenome Centre Birmingham and the MRC-NIHR National Phenome Centre. The course will provide a suitable introduction to metabolomics prior to taking additional training courses at either the Birmingham Metabolomics Training Centre or the Imperial International Phenome Training Centre. 2019-03-11 09:00:00 UTC 2019-03-11 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolomics Data Processing and Data Analysis

    18 March - 12 April 2019

    Birmingham, United Kingdom

    Elixir node event
    Metabolomics Data Processing and Data Analysis https://tess.elixir-europe.org/events/metabolomics-data-processing-and-data-analysis This online course will explore the tools and approaches that are used to process and analyse metabolomics data, we will investigate the challenges that are typically encountered in the analysis of metabolomics data and provide solutions to overcome these problems. The course will be delivered using a combination of short videos, articles, discussions, and online workshops with step-by-step instructions and test data sets. 2019-03-18 09:00:00 UTC 2019-04-12 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolomics with the Q Exactive

    1 - 3 April 2019

    Birmingham, United Kingdom

    Elixir node event
    Metabolomics with the Q Exactive https://tess.elixir-europe.org/events/metabolomics-with-the-q-exactive This 3-day course will introduce you to using the Q Exactive mass spectrometer in your metabolomics investigations. The course will be led by experts in the field of metabolomics and include lectures, laboratory sessions and computer workshops to provide a detailed overview of the metabolomics pipeline applying the Q Exactive mass spectrometer. 2019-04-01 09:00:00 UTC 2019-04-03 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolite identification with the Q Exactive and LTQ Orbitrap Elite

    4 - 5 April 2019

    Birmingham, United Kingdom

    Elixir node event
    Metabolite identification with the Q Exactive and LTQ Orbitrap Elite https://tess.elixir-europe.org/events/metabolite-identification-with-the-q-exactive-and-ltq-orbitrap This 2-day course will provide a hands-on approach to teach the attendees about the latest techniques and tools available to perform metabolite identification in non-targeted metabolomics studies. The course will be led by experts working within the fields of metabolomics and chemical analysis and will include a significant proportion of hands-on experience of using mass spectrometers, software tools and databases. A maximum of four people will be working on each mass spectrometer in a session. We will apply these tools on the Q Exactive and LTQ-Orbitrap family of mass spectrometers. 2019-04-04 09:00:00 UTC 2019-04-05 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolomics: Understanding Metabolism in the 21st Century

    13 May - 7 June 2019

    Edgbaston, United Kingdom

    Elixir node event
    Metabolomics: Understanding Metabolism in the 21st Century https://tess.elixir-europe.org/events/metabolomics-understanding-metabolism-in-the-21st-century-8c9cebe4-268d-4e19-9073-3a9d99e51df5 This online course explores metabolomics, an emerging field that aims to measure the complement of metabolites (the metabolome) in living organisms. The metabolome represents the downstream effect of an organism's... 2019-05-13 09:00:00 UTC 2019-06-07 23:59:00 UTC Online, Edgbaston, United Kingdom Online Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Multiple biofluid and tissue types, from sample preparation to analysis strategies for metabolomics

    25 - 27 September 2019

    Birmingham, United Kingdom

    Elixir node event
    Multiple biofluid and tissue types, from sample preparation to analysis strategies for metabolomics https://tess.elixir-europe.org/events/multiple-biofluid-and-tissue-types-from-sample-preparation-to-analysis-strategies-for-metabolomics This 3-day course will provide a comprehensive theoretical overview and hands-on training for the range of methods applied for sample preparation of complex biological samples for analysis applying LC-MS analysis. The course will be led by experts in the field to illustrate the different approaches that are available to analyse a range of biological samples and apply complementary liquid chromatography approaches to maximise the coverage of the metabolome. The course will be taught by experts in metabolomics who have experience of the analysis of microbial, plant and mammalian samples. 2019-09-25 09:00:00 UTC 2019-09-27 00:00:00 UTC Birmingham Metabolomics Training Centre, Birmingham, United Kingdom Birmingham Metabolomics Training Centre Birmingham United Kingdom B15 2TT [] [] [] [] [] []
  • Multiple Biofluid and Tissue Types, From Sample Preparation to Analysis Strategies for Metabolomics

    25 - 27 September 2019

    Edgbaston, United Kingdom

    Elixir node event
    Multiple Biofluid and Tissue Types, From Sample Preparation to Analysis Strategies for Metabolomics https://tess.elixir-europe.org/events/multiple-biofluid-and-tissue-types-from-sample-preparation-to-analysis-strategies-for-metabolomics-243914d0-27d4-46a1-bc95-4e513ae0fbb3 This 3-day course provides a theoretical overview and hands-on training to apply multiple sample preparation and UPLC-MS methods to characterise the metabolomes of complex biological samples using the mass spec... 2019-09-25 09:00:00 UTC 2019-09-27 15:30:00 UTC School of Biosciences - University of Birmingham, Edgbaston, United Kingdom School of Biosciences - University of Birmingham Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Introduction to Metabolomics for the Microbiologist

    9 - 11 October 2019

    Edgbaston, United Kingdom

    Elixir node event
    Introduction to Metabolomics for the Microbiologist https://tess.elixir-europe.org/events/introduction-to-metabolomics-for-the-microbiologist-610da160-7cff-4be4-8e8d-5fdb5dda50c5 This three-day course introduces how untargeted metabolomics can be applied to study microbial systems in academic and industrial research. The course provides an overview of the metabolomics pipeline, experimental... 2019-10-09 09:15:00 UTC 2019-10-11 16:00:00 UTC School of Biosciences - University of Birmingham, Edgbaston, United Kingdom School of Biosciences - University of Birmingham Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolomics Data Processing and Data Analysis

    21 October - 15 November 2019

    Edgbaston, United Kingdom

    Elixir node event
    Metabolomics Data Processing and Data Analysis https://tess.elixir-europe.org/events/metabolomics-data-processing-and-data-analysis-e8f98f61-45aa-432d-b65a-b94867d6886d This online course explores the tools and approaches that are used to process and analyse metabolomics data. You will investigate the challenges that are typically encountered in the analysis of metabolomics data... 2019-10-21 09:00:00 UTC 2019-11-15 23:59:00 UTC Online, Edgbaston, United Kingdom Online Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Introduction to Metabolomics for the Clinical Scientist

    25 October 2019

    Edgbaston, United Kingdom

    Elixir node event
    Introduction to Metabolomics for the Clinical Scientist https://tess.elixir-europe.org/events/introduction-to-metabolomics-for-the-clinical-scientist-b43defc4-bb00-4b8e-9a15-3a2f7e634bc0 This 1-day course in partnership with the Phenome Centre Birmingham provides clinicians with an overview of the metabolomics pipeline, highlighting the benefits of this technique to the medical field. 2019-10-25 09:45:00 UTC 2019-10-25 16:15:00 UTC School of Biosciences - University of Birmingham, Edgbaston, United Kingdom School of Biosciences - University of Birmingham Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolomics with the Q Exactive

    4 - 6 November 2019

    Edgbaston, United Kingdom

    Elixir node event
    Metabolomics with the Q Exactive https://tess.elixir-europe.org/events/metabolomics-with-the-q-exactive-b48060e4-345d-43be-be3f-ea24fb58b55c This 3-day course introduces you to using the Q Exactive mass spectrometer in your metabolomics investigations. The course is led by experts in the field of metabolomics and includes lectures, laboratory sessions... 2019-11-04 09:00:00 UTC 2019-11-06 15:45:00 UTC School of Biosciences - University of Birmingham, Edgbaston, United Kingdom School of Biosciences - University of Birmingham Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
  • Metabolite Identification with the Q Exactive and LTQ Orbitrap Elite

    7 - 8 November 2019

    Edgbaston, United Kingdom

    Elixir node event
    Metabolite Identification with the Q Exactive and LTQ Orbitrap Elite https://tess.elixir-europe.org/events/metabolite-identification-with-the-q-exactive-and-ltq-orbitrap-elite This 2-day course provides a hands-on approach to teach attendees about the latest techniques and tools available to perform metabolite identification in non-targeted metabolomics studies. The course is led by experts... 2019-11-07 09:00:00 UTC 2019-11-08 17:30:00 UTC School of Biosciences - University of Birmingham, Edgbaston, United Kingdom School of Biosciences - University of Birmingham Edgbaston United Kingdom B15 2TT [] [] [] [] [] []
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