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
Free online seminars on Thursdays related to rare epilepsies
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: Webinar, e-learning
Educational webinars on rare and complex epilepsies (EpiCARE ERN)https://epi-care.eu/webinars/http://tess.elixir-uk.org/materials/epicare-ern-educational-webinarsFree online seminars on Thursdays related to rare epilepsiesRare diseasesRare Diseases & ResearchHealth Care Professionals health professionalsBiomedical researchers
ERKNet Postgraduate Curriculum in Rare Kidney Diseases / ESPN – IPNA Curriculum in Pediatric Nephrology
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: Webinar, e-learning
Postgraduate Curriculum in Rare Kidney Diseases developed by ERKNethttps://erknet.org/index.php?id=10http://tess.elixir-uk.org/materials/erknet-education-and-trainingERKNet Postgraduate Curriculum in Rare Kidney Diseases / ESPN – IPNA Curriculum in Pediatric NephrologyRare diseasesRare Diseases & Research
Target audience for the webinars are clinicians, genetic counsellors, clinical scientists and other genetics health professionals. The presentation itself lasts approximately 20-30 minutes, and viewers have the opportunity to send questions on the subject area which will be addressed in a...
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: Webinar, e-learning
Education and Training webinars on genetic tumor risk syndromes (ERN GENTURIS)https://www.genturis.eu/l=eng/Education-and-Training/Webinars.htmlhttp://tess.elixir-uk.org/materials/genturis-education-and-training-webinarsTarget audience for the webinars are clinicians, genetic counsellors, clinical scientists and other genetics health professionals. The presentation itself lasts approximately 20-30 minutes, and viewers have the opportunity to send questions on the subject area which will be addressed in a question & answer session afterwards.Rare diseasesRare Diseases & ResearchCliniciansClinical Scientists health professionalsgeneticists
Educational videos on rare and low prevalence complex diseases of the heart (ERN GUARD-Heart)https://guardheart.ern-net.eu/experts/educational-videos/http://tess.elixir-uk.org/materials/ern-guard-heart-educational-videosEducational videos for expertsRare diseasesRare Diseases & Research health professionalsHealth Care Professionals
ERN ReCONNET proposes free online training and education.
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: Webinar, Video, e-learning
Educational webinars on Rare and Complex Connective Tissue and Musculoskeletal Diseases (ERN ReCONNET)https://reconnet.ern-net.eu/webinar/http://tess.elixir-uk.org/materials/ern-reconnet-educational-webinarsERN ReCONNET proposes free online training and education.Rare diseasesRare Diseases & ResearchHealth Care Professionals health professionals
This course is available on FutureLearn and developed by Health Education England (NHS).
The course has been designed for healthcare professionals and science/medical students who have limited or no understanding of the who genome sequencing process and its many varied uses. Non-specialists who...
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
Whole Genome Sequencing: Decoding the Language of Life and Healthhttps://www.futurelearn.com/courses/whole-genome-sequencinghttp://tess.elixir-uk.org/materials/whole-genome-sequencing-decoding-the-language-of-life-and-healthThis course is available on FutureLearn and developed by Health Education England (NHS).
The course has been designed for healthcare professionals and science/medical students who have limited or no understanding of the who genome sequencing process and its many varied uses. Non-specialists who want to learn more about sequencing and genomic medicine are also very welcome.Rare diseasesRare Diseases & ResearchHealth Care Professionals health professionalsmedical studentsscience students
This course is available on FutureLearn and developed by St George's University of London.
This postgraduate-level course will help you understand these new and established genetic technologies, and their application to clinical practice.
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
Genomic Technologies in Clinical Diagnostics: Next Generation Sequencinghttps://www.futurelearn.com/courses/next-generation-sequencinghttp://tess.elixir-uk.org/materials/genomic-technologies-in-clinical-diagnostics-next-generation-sequencingThis course is available on FutureLearn and developed by St George's University of London.
This postgraduate-level course will help you understand these new and established genetic technologies, and their application to clinical practice.Rare diseasesRare Diseases & ResearchpostgradScientistsHealthcare
This course is available on FutureLearn and developed by St George’s, University of London.
This postgraduate-level course, in combination with Genomic Technologies in Clinical Diagnostics: Next Generation Sequencing Technologies, will help you understand these new and established genetic...
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
Genomic Technologies in Clinical Diagnostics: Molecular Techniqueshttps://www.futurelearn.com/courses/molecular-techniqueshttp://tess.elixir-uk.org/materials/genomic-technologies-in-clinical-diagnostics-molecular-techniquesThis course is available on FutureLearn and developed by St George’s, University of London.
This postgraduate-level course, in combination with Genomic Technologies in Clinical Diagnostics: Next Generation Sequencing Technologies, will help you understand these new and established genetic technologies, and their application to clinical practice. This course focuses on molecular techniques.Rare diseasesRare Diseases & ResearchScientistshealthcare professionals
e-learning platform which hosts online courses as well as recordings of webinar series.
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning, Webinar
EATRIS Transmed Academy - course on translational medicinehttps://eatris.eu/services/education/http://tess.elixir-uk.org/materials/eatris-transmed-academye-learning platform which hosts online courses as well as recordings of webinar series.Rare diseasesRare Diseases & ResearchPhD Studentshealthcare professionalspostdocs
Webinar Series on Integrated DEsign and AnaLysis of small population group trials
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning, Webinar
Integrated DEsign and AnaLysis of clinical trials in small population group (IDeAl) resourceshttps://www.ideal.rwth-aachen.de/?page_id=1732http://tess.elixir-uk.org/materials/integrated-design-and-analysis-of-clinical-trials-in-small-population-group-ideal-resourcesWebinar Series on Integrated DEsign and AnaLysis of small population group trialsRare diseasesRare Diseases & Research
Three informative webinars for those researchers involved in ERNs
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: Webinar, e-learning
RD-Connect Webinarshttps://ern-euro-nmd.eu/rd-connect-webinars/http://tess.elixir-uk.org/materials/euro-nmd-and-rd-connect-webinarsThree informative webinars for those researchers involved in ERNsRare diseasesRare Diseases & Research
Online course available on FutureLearn and developed by St George’s, University of London on genomic technologies.
Scientific topics: Rare diseases
Keywords: Rare Diseases & Research
Resource type: e-learning
Genomics in Healthcarehttps://www.futurelearn.com/programs/genomics-in-healthcarehttp://tess.elixir-uk.org/materials/genomics-in-healthcareOnline course available on FutureLearn and developed by St George’s, University of London on genomic technologies.Rare diseasesRare Diseases & Researchhealthcare professionalsScientists
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 Wayhttps://the-turing-way.netlify.com/introduction/introductionhttp://tess.elixir-uk.org/materials/the-turing-wayThe 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.Becky ArnoldLouise BowlerSarah GibsonPatricia HerterichRosie HigmanKirstie WhitakerData Science, Reproducibility, Version control, Reproducible Environment, Continuous integration
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
This self-learning tutorial aims to present the UNIX environment and to provide the most basic commands to users with no or very little UNIX knowledge.
The examples are taken from various Biological fields but have been chosen carefully to be easily accessible to a wide audience.
At the end of...
Keywords: Problem based learning, Programming, Unix
Resource type: e-learning
UNIX Fundamentalshttps://www.mygoblet.org/training-portal/materials/unix-fundamentalshttp://tess.elixir-uk.org/materials/unix-fundamentals-35adf82d-ae32-449d-9627-43b5d18da8ccThis self-learning tutorial aims to present the UNIX environment and to provide the most basic commands to users with no or very little UNIX knowledge.
The examples are taken from various Biological fields but have been chosen carefully to be easily accessible to a wide audience.
At the end of the course, participants are expected to be able to:
Have some understanding on UNIX systems
Navigate through the UNIX filesystem
Execute and understand some UNIX process commands
Correctly set file permissions
Perform basic file management
Participants are encouraged to follow the tutorial sections sequentially.
The tutorial content is sometimes an oversimplification of the Truth - yes, we know!
Due to the diversity of computer systems, we will just assume that participants do have access to a terminal.
For help, please contact your IT support - or a good friend!Authors are affiliated to the SIB Swiss Institute of Bioinformatics:
Vassilios IoannidisWith some content provided by Frédéric Schütz, Volker Flegel and Heinz StockingerContent integration by Grégoire Rossier and Vassilios IoannidisVassilios IoannidisGrégoire RossierVolker FlegelHeinz StockingerFrédéric SchützProblem based learning, Programming, UnixBench biologistsClinical ScientistsGraduate Studentsbeginner bioinformaticiansbiocurators2014-01-132017-10-09
