Introduction to Protein Structure Analysis
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 Analysis
https://elearning.bits.vib.be/courses/protein-structure-analysis/
http://tess.elixir-uk.org/materials/introduction-to-protein-structure-analysis
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. 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 Botzki
Joost Van Durme
Janick Mathys
Protein structure visualisation
Life Science Researchers
Bioinformatics Summer School 2019
This one-week intensive summer school in bioinformatics will focus on data analysis and high throughput biology, with a special focus on R/Bioconductor and its application to a wide range of topics across bioinformatics and computational biology. The course is intended for researchers who are...
Scientific topics: Statistics and probability, Omics, RNA-Seq, Proteomics
Operations: Data handling
Bioinformatics Summer School 2019
https://uclouvain-cbio.github.io/BSS2019/#schedule
http://tess.elixir-uk.org/materials/bioinformatics-summer-school-2019
This one-week intensive summer school in bioinformatics will focus on data analysis and high throughput biology, with a special focus on R/Bioconductor and its application to a wide range of topics across bioinformatics and computational biology. The course is intended for researchers who are familiar with omics experimental technologies and their applications in biology, have had some exposure with R, and who want to learn or expand their bioinformatics skills.
Martin Morgan
Laurent Gatto
Janick Mathys
Lieven Clement
Charlotte Soneson
Koen Van den Berge
Oliver Crook
Statistics and probability
Omics
RNA-Seq
Proteomics
PhD students
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://bivi.co/presentation/visualization-approaches-biomedical-omics-data-putting-it-all-together
http://tess.elixir-uk.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
