This training session will provide the basics of protein structure determination and how this information is stored in databases. We will explore and search in online databases containing protein structure information. With the aid of the Yasara View program we will visualize the structure....
Operations: Visualisation
Keywords: Protein structure visualisation
Resource type: e-learning
Introduction to Protein Structure Analysishttps://elearning.bits.vib.be/courses/protein-structure-analysis/http://tess.elixir-uk.org/materials/introduction-to-protein-structure-analysisThis training session will provide the basics of protein structure determination and how this information is stored in databases. We will explore and search in online databases containing protein structure information. With the aid of the Yasara View program we will visualize the structure. Different hands-on exercises will allow you to compare the structure of homologues, to predict a structural model of proteins (without any structure information) and to find homologous structures. We will use online tools to quantify various interactions in the structures.
## Objectives
* Get to know the data generated from protein structure determination experiments (high-resolution NMR spectroscopy, X-ray crystallography, electron microscopy, ...) and where to get it.
* Display protein structure data and compare structures, through the use of Yasara.
* Create high-quality graphical representations of the structures.
* Calculate the effect of mutations on the stability of your protein.Alexander BotzkiJoost Van DurmeJanick MathysProtein structure visualisationLife Science Researchers
The EURORDIS Open Academy currently encompasses the Winter School on Scientific Innovation and Translational Research, the Summer School on Medicines Research and Development, the Leadership School and the Digital School
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research, Rare Diseases
Resource type: course materials, e-learning
Eurordis Open Academyhttps://openacademy.eurordis.orghttp://tess.elixir-uk.org/materials/eurordis-online-trainning-modulesThe EURORDIS Open Academy currently encompasses the Winter School on Scientific Innovation and Translational Research, the Summer School on Medicines Research and Development, the Leadership School and the Digital SchoolRare diseasesRare Diseases & Research, Rare DiseasesPatient Advocates Life Science ResearchersBiomedical researchers
Writing a Data Management Plan can be new to you. ‘Learn to write your Data Management Plan’, an online self-study course, can help you decide how to take good care of your valuable research data.
During the course you are writing your DMP step by step. As a result you have written a DMP for...
Keywords: Data management plan, data management
Resource type: e-learning
Online course 'Learn to write your Data Management Plan'https://www.uu.nl/en/research/research-data-management/training-workshops/online-training-learn-to-write-your-dmphttp://tess.elixir-uk.org/materials/online-course-learn-to-write-your-data-management-planWriting a Data Management Plan can be new to you. ‘Learn to write your Data Management Plan’, an online self-study course, can help you decide how to take good care of your valuable research data.
During the course you are writing your DMP step by step. As a result you have written a DMP for you research project. While you are training, you can write your DMP in DMPonline. You can do the whole course or just parts of it. That is all up to you.Data management plan, data managementLife Science Researchers
Background
The rapid identification of pathogens infecting livestock is essential to appropriately respond to the threat. The number and the variety of pathogen sequenced genomes have been growing more dramatically these recent years, because of the new sequencing technologies. This wealth of...
Keywords: Blast, E learning, Multiple sequence alignment
Resource type: e-learning
BLAST and multiple sequence alignment (MSA) programshttps://www.mygoblet.org/training-portal/materials/blast-and-multiple-sequence-alignment-msa-programshttp://tess.elixir-uk.org/materials/blast-and-multiple-sequence-alignment-msa-programs-0b2b34d0-a157-49d4-a065-3dcad67ff99dBackground
The rapid identification of pathogens infecting livestock is essential to appropriately respond to the threat. The number and the variety of pathogen sequenced genomes have been growing more dramatically these recent years, because of the new sequencing technologies. This wealth of new data is very useful to the research field through the development of bioinformatics tools and databases that deal with large amount of sequences. Among them, BLAST (Basic Local Alignment Search Tool) and MSA () programs are very efficient for protein or nucleotide sequence similarity search.
The present course introduces the main biological databases, alignment tool BLAST and Multiple sequence alignments (MSA) programs, and interpretation of results.
Goal
The ultimate aim is the better management of animal diseases by preparing laboratory technicians, veterinarians and molecular epidemiologists from diagnostic and research laboratories of developing FAO and IAEA member states, to be self-sufficient in the data analysis by interpreting the phylogenetic trees and their relationships.
Target audience
Researchers, Laboratory technicians, veterinarians, epidemiologists from diagnostic and research laboratories of member states of IAEA and FAO. The concepts are explained in generalized way to help all academicians, researchers, students from all countries working in the field of molecular genetics and epidemiology.
AuthorsViral-zone, Swiss-Prot group at the SIB Swiss Institute of Bioinformatics
Patricia PalagiBlast, E learning, Multiple sequence alignmentBench biologistsBiologistsLaboratory techniciansResearchersVeterinarians2014-04-28
Background
The vast diversity of the pathogens affecting livestock demands a very specific diagnostic procedure in identification and characterization of each pathogen. In this context, the enormous amount of sequence and genotype data is being generated on animal pathogens, which is further...
Keywords: Animal pathogens, E learning, Phylogenetics
Resource type: e-learning
Phylogenetics of animal viral pathogenshttps://www.mygoblet.org/training-portal/materials/phylogenetics-animal-viral-pathogenshttp://tess.elixir-uk.org/materials/phylogenetics-of-animal-viral-pathogens-428432a3-67ca-4284-8962-fefc2ade75dbBackground
The vast diversity of the pathogens affecting livestock demands a very specific diagnostic procedure in identification and characterization of each pathogen. In this context, the enormous amount of sequence and genotype data is being generated on animal pathogens, which is further useful in understanding their pathogenicity and molecular epidemiology. The usage of this data in developing efficient molecular diagnostic tools needs basic understanding of the phylogenetic analysis. Phylogenetic classification, construction of trees, interpretation unveils the geographical distribution and migration of pathogens which helps in better management of animal diseases.
The present course is designed with introduction to phylogenetics, tools, building and interpreting trees and finally its application to veterinary diagnostics. Though the course is driven in veterinary aspects, the same implicates to the human and plant pathogen study.
Goal
The ultimate aim is the better management of animal diseases by preparing laboratory technicians, veterinarians and molecular epidemiologists from diagnostic and research laboratories of developing FAO and IAEA member states, to be self-sufficient in the data analysis by interpreting the phylogenetic trees and their relationships.
Target audience
Researchers, Laboratory technicians, veterinarians, epidemiologists from diagnostic and research laboratories of member states of IAEA and FAO. The concepts are explained in generalized way to help all academicians, researchers, students from all countries working in the field of molecular genetics and epidemiology.
AuthorsViral-Zone, Swiss-Prot Group at SIB Swiss Institute of Bioinformatics
Patricia PalagiAnimal pathogens, E learning, PhylogeneticsBench biologistsBiologistsLaboratory techniciansResearchersVeterinarians2014-04-28
This course will provide learners with an introduction to research data management and sharing. After completing this course, learners will understand the diversity of data and their management needs across the research data lifecycle, be able to identify the components of good data management...
Scientific topics: Data management
Resource type: e-learning
Research Data Management and Sharinghttps://www.coursera.org/learn/data-managementhttp://tess.elixir-uk.org/materials/research-data-management-and-sharingThis course will provide learners with an introduction to research data management and sharing. After completing this course, learners will understand the diversity of data and their management needs across the research data lifecycle, be able to identify the components of good data management plans, and be familiar with best practices for working with data including the organization, documentation, and storage and security of data. Learners will also understand the impetus and importance of archiving and sharing data as well as how to assess the trustworthiness of repositories.
Today, an increasing number of funding agencies, journals, and other stakeholders are requiring data producers to share, archive, and plan for the management of their data. In order to respond to these requirements, researchers and information professionals will need the data management and curation knowledge and skills that support the long-term preservation, access, and reuse of data. Effectively managing data can also help optimize research outputs, increase the impact of research, and support open scientific inquiry. After completing this course, learners will be better equipped to manage data throughout the entire research data lifecycle from project planning to the end of the project when data ideally are shared and made available within a trustworthy repository.
This course was developed by the Curating Research Assets and Data Using Lifecycle Education (CRADLE) Project in collaboration with EDINA at the University of Edinburgh.
This course was made possible in part by the Institute of Museum and Library Services under award #RE-06-13-0052-13. The views, findings, conclusions or recommendations expressed in this Research Data Management and Sharing MOOC do not necessarily represent those of the Institute of Museum and Library Services.Data managementLife Science Researchers
Welcome to Research Data Management Training for Information Professionals!
This course will provide you with training on the research data management (RDM) topics listed below in a biomedical context. The material presented began as an NIH-funded research study to assess material for teaching...
Scientific topics: Data management
Resource type: e-learning
Research Data Managementhttp://compass.iime.cloud/mix/G3X5E/http://tess.elixir-uk.org/materials/research-data-managementWelcome to Research Data Management Training for Information Professionals!
This course will provide you with training on the research data management (RDM) topics listed below in a biomedical context. The material presented began as an NIH-funded research study to assess material for teaching RDM to librarians. It is designed to prepare you to understand and subsequently teach RDM at your own institution, and offers strategies for identifying opportunities to teach RDM in your own environment.
At the end of each module there is a link to a Teaching Toolkit that provides librarians with a script, slides, and evaluation materials to teach RDM at your institution.Kevin ReadC LarsonS OhC GillespieK YacobucciA SurkisData managementLife Science Researchers
High-throughput sequencing data analysis requires new technical competencies and HPC is one of them. SIB has developed an e-learning module in HPC, as part of the ELIXIR-EXCELERATE project. e-learning has the potential to reach a wider audience, in any location and any time, and can be used...
Keywords: High performance computing, high-performance computing
Resource type: Tutorial, Slideshow, e-learning
High Performance Computing (HPC) in Life Scienceshttps://edu.sib.swiss/course/view.php?name=HPCelhttp://tess.elixir-uk.org/materials/high-performance-computing-hpc-in-life-sciencesHigh-throughput sequencing data analysis requires new technical competencies and HPC is one of them. SIB has developed an e-learning module in HPC, as part of the ELIXIR-EXCELERATE project. e-learning has the potential to reach a wider audience, in any location and any time, and can be used either as the electronic component of a blended training format or as a self-running learning product.Robin EnglerVassilios IoannidisGrégoire RossierVolker FlegelHeinz StockingerBiologyBioinformaticsComputer scienceHigh performance computing, high-performance computingPhD studentsAll postgraduatesLife Science Researchers
