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8 materials found

Contributors: Björn Grüning  or Oliver Davis  or PhD BSc FSB  or Jan Slifka  or Michael Krone  or Ajay Pillai  or Nicola Mulder  or Dr. Nils Gehlenborg 


MATHEMATICS BOOT CAMP: Introduction to Complex Systems Tools

This repository contains didactic material used in an introductory course of mathematics at the Center for Complex Systems and Brain Sciences in Florida Atlantic University by Viktor K. Jirsa.

Scientific topics: Computational biology, Mathematics

Keywords: ComputationalBiology, Neuroscience, complex systems, Mathematics

Resource type: Notes, Scripts

MATHEMATICS BOOT CAMP: Introduction to Complex Systems Tools https://tess.elixir-europe.org/materials/mathematics-boot-camp-introduction-to-complex-systems-tools This repository contains didactic material used in an introductory course of mathematics at the Center for Complex Systems and Brain Sciences in Florida Atlantic University by Viktor K. Jirsa. Felix Almonte Collins Assisi Frederick Carver Gautam Vallabha Jaime Morris Ajay Pillai Armin Fuchs Computational biology Mathematics ComputationalBiology, Neuroscience, complex systems, Mathematics Undergraduate students
Galaxy Proteomics workshop Prague 2018

Materials from the ELIXIR workshop “Galaxy Proteomics workshop Prague 2018”, Oct 4-5 2018 at the IOCB, Prague, Czech Republic

Scientific topics: Proteomics

Keywords: Galaxy, training, proteomics, eLearning, EeLP

Resource type: course materials, Training materials, Slides

Galaxy Proteomics workshop Prague 2018 https://tess.elixir-europe.org/materials/galaxy-proteomics-workshop-prague-2018 Materials from the ELIXIR workshop “Galaxy Proteomics workshop Prague 2018”, Oct 4-5 2018 at the IOCB, Prague, Czech Republic Andrea Argentini Frederik Coppens Pavel Dvorak Matthias Fahrner Melanie Foell Björn Grüning Martin Hubalek Hana Pergl Sustkova Marek Vrbacky Proteomics Galaxy, training, proteomics, eLearning, EeLP life scientists Researchers PhD Students
ELIXIR eLearning definitions

Materials from the asynchronous learning course "ELIXIR eLearning definitions"

Keywords: eLearning, training, EeLP

Resource type: course materials, Training materials, Documentation

ELIXIR eLearning definitions https://tess.elixir-europe.org/materials/elixir-elearning-definitions Materials from the asynchronous learning course "ELIXIR eLearning definitions" Brane Leskosek Jure Dimec Eija Korpelainen Teresa Attwood Sarah Morgan Nicola Mulder Celia van Gelder Patricia Palagi eLearning, training, EeLP Researchers teachers Trainers
Implementation of Data Management Plans & Data Stewardship in practice

Materials from the ELIXIR workshop “Implementation of Data Management Plans & Data Stewardship in practice”, Sept 11, 2018 at ECCB2018, Athens, Greece.

Scientific topics: Data submission, annotation and curation, Data management

Keywords: data management, data stewardship, eLearning, EeLP

Resource type: course materials, Training materials, Slides

Implementation of Data Management Plans & Data Stewardship in practice https://tess.elixir-europe.org/materials/implementation-of-data-management-plans-data-stewardship-in-practice Materials from the ELIXIR workshop “Implementation of Data Management Plans & Data Stewardship in practice”, Sept 11, 2018 at ECCB2018, Athens, Greece. Celia van Gelder Roland Krause Mateusz Kuzak Brane Leskosek Marko Vidak Robert Pergl Marek Suchanek Jan Slifka Vojtech Knaisl Data submission, annotation and curation Data management data management, data stewardship, eLearning, EeLP bioinformaticians data stewards
BiVi Genomes theme

Prof David Burt introduces the Genomes theme in bio-visualisation. Created at: 1st BiVi Annual Meeting.

Scientific topics: Phylogenetics

Keywords: Genome, Phylogenetics

Resource type: Video

BiVi Genomes theme https://tess.elixir-europe.org/materials/bivi-genomes-theme Prof David Burt introduces the Genomes theme in bio-visualisation. Created at: 1st BiVi Annual Meeting. Prof. David Willaim Burt PhD BSc FSB Phylogenetics Genome, Phylogenetics 2016-12-08
Visualization Approaches for Biomedical Omics Data: Putting It All Together

Dr Nils Gehlenborg gives his keynote at 1st BiVi in 2014. The rapid proliferation of high quality, low cost genome-wide measurement technologies such as whole-genome and transcriptome sequencing, as well as advances in epigenomics and proteomics, are enabling researchers to perform studies that...

Keywords: Genome, Molecular

Resource type: Video

Visualization Approaches for Biomedical Omics Data: Putting It All Together https://tess.elixir-europe.org/materials/visualization-approaches-for-biomedical-omics-data-putting-it-all-together Dr Nils Gehlenborg gives his keynote at 1st BiVi in 2014. The rapid proliferation of high quality, low cost genome-wide measurement technologies such as whole-genome and transcriptome sequencing, as well as advances in epigenomics and proteomics, are enabling researchers to perform studies that generate heterogeneous datasets for cohorts of thousands of individuals. A common feature of these studies is that a collection of genome-wide, molecular data types and phenotypic or clinical characterizations are available for each individual. These data can be used to identify the molecular basis of diseases and to characterize and describe the variations that are relevant for improved diagnosis, prognosis and targeted treatment of patients. An example for a study in which this approach has been successfully applied is The Cancer Genome Atlas project (http://cancergenome.nih.gov).In this talk Dr Gehlenborg discusses how visualization approaches can be applied to enable exploration and support analysis of data generated by such studies. Specifically, he reviews techniques and tools for visual exploration of individual omics data types, their ability to scale to large numbers of individuals or samples, and emerging techniques that integrate multiple omics data types for interactive visual analysis. He also examines technical and legal challenges that developers of such visualization tools are facing. To conclude the talk, he outlines research opportunities for the biological data visualization community that address major challenges in this domain. Created at: 1st BiVi Annual Meeting. Dr. Nils Gehlenborg Genome, Molecular 2017-02-02
Visualization of Biomolecular Structures: State of the Art

Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on...

Keywords: Molecular, Information visualisation

Resource type: Slideshow

Visualization of Biomolecular Structures: State of the Art https://tess.elixir-europe.org/materials/visualization-of-biomolecular-structures-state-of-the-art Structural properties of molecules are of primary concern in many fields. This report provides a comprehensive overview on techniques that have been developed in the fields of molecular graphics and visualization with a focus on applications in structural biology. The field heavily relies on computerized geometric and visual representations of three-dimensional, complex, large, and time-varying molecular structures. The report presents a taxonomy that demonstrates which areas of molecular visualization have already been extensively investigated and where the field is currently heading. It discusses visualizations for molecular structures, strategies for efficient display regarding image quality and frame rate, covers different aspects of level of detail, and reviews visualizations illustrating the dynamic aspects of molecular simulation data. The report concludes with an outlook on promising and important research topics to enable further success in advancing the knowledge about interaction of molecular structures.Categories and Subject Descriptors (according to ACM CCS): I.3.5 [Computer Graphics]: Computational Geometry and Object Modeling-Curve, surface, solid, and object representations Created at: EuroVis 2015. Barbara Kozlikova Michael Krone Molecular, Information visualisation 2017-02-28
Visualising dynamic genetics in human populations

Genetic and environmental variation affect all complex human traits and disorders. Recent large-scale genome-wide association studies have identified some of the specific genetic variants, and we often assume these associations will hold true irrespective of context. However, our research shows...

Keywords: Populations

Resource type: Video

Visualising dynamic genetics in human populations https://tess.elixir-europe.org/materials/visualising-dynamic-genetics-in-human-populations Genetic and environmental variation affect all complex human traits and disorders. Recent large-scale genome-wide association studies have identified some of the specific genetic variants, and we often assume these associations will hold true irrespective of context. However, our research shows that the relationship between genotype and phenotype can change across a lifetime or in different environments. For example, some genetic variants may have larger effects in adulthood or in the centre of cities. Data visualisation plays a vital role in bringing researchers together across disciplines to understand these dynamic patterns of gene-environment interaction. Created at: 3rd BiVi Annual Meeting (2017). Oliver Davis Populations 2017-05-15