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168 materials found

Target audience: Biologists, Genomicists, Co... 


Plant Phenotyping Data managment Webinar (MIAPPE)

The Minimal Information About Plant Phenotyping Experiment, MIAPPE (www.miappe.org), has been designed by ELIXIR, EMPHASIS and Bioversity international, to guide plant scientist in the management of experimental data. Furthermore, since genetic studies relies on the integration and the linking...

Scientific topics: Data submission, annotation, and curation, Data quality management, Phenomics, Plant biology

Operations: Standardisation and normalisation

Resource type: Video, Slides

Plant Phenotyping Data managment Webinar (MIAPPE) https://tess.elixir-europe.org/materials/plant-phenotyping-data-managment-webinar-miappe The Minimal Information About Plant Phenotyping Experiment, MIAPPE (www.miappe.org), has been designed by ELIXIR, EMPHASIS and Bioversity international, to guide plant scientist in the management of experimental data. Furthermore, since genetic studies relies on the integration and the linking between phenotype and genotype datasets, relevant section of MIAPPE are beginning to be used for genotyping standards. This Webinar will give an overview of the current practices and methods for plant phenotyping data standardization, and how to deal with the variability and heterogeneity inherent to research and breeding data sets. Data management approaches at some of the major research organizations will be given as examples. The recording is available [here](https://youtu.be/4FOQPAWl6_M) and the slides are [here](https://drive.google.com/file/d/1FORlCX662T9dxiG4uzQwVXDXnq-sP0FP/view?usp=sharing) Cyril Pommier Anne-Françoise Adam-Blondon Célia Michotey Data submission, annotation, and curation Data quality management Phenomics Plant biology Researchers Biologists, Genomicists, Computer Scientists Biologists software developers, bioinformaticians
How to use V-pipe (SARS-CoV-2 data)

How to use V-pipe bioinformatics virus NGS Pipeline - (specifically for SARS-CoV-2 data)

Scientific topics: Workflows, Genetic variation, Virology

Operations: Read pre-processing, Alignment, Variant calling

Keywords: coronavirus, NGS bioinformatics, Variant-calling

Resource type: Computer Software, workflow

How to use V-pipe (SARS-CoV-2 data) https://tess.elixir-europe.org/materials/how-to-use-v-pipe-sars-cov-2-data How to use V-pipe bioinformatics virus NGS Pipeline - (specifically for SARS-CoV-2 data) Workflows Genetic variation Virology coronavirus, NGS bioinformatics, Variant-calling bioinformaticians Biologists, Genomicists, Computer Scientists
Constraint-based reconstruction and analysis toolbox tutorials

A suite of >50 tutorials to enable beginners, as well as intermediate and advanced users to practice a wide variety of COBRA methods.

Keywords: Biomodelling

Resource type: Tutorial

Constraint-based reconstruction and analysis toolbox tutorials https://tess.elixir-europe.org/materials/constraint-based-reconstruction-and-analysis-toolbox-tutorials A suite of >50 tutorials to enable beginners, as well as intermediate and advanced users to practice a wide variety of COBRA methods. Biomodelling Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 7-Data Visualization

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 7-Data Visualization https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-7-data-visualization Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 6-Emerging Pathogen Detection and Identification Using Metagenomics Samples

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 6-Emerging Pathogen Detection and Identification Using Metagenomics Samples https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-6-emerging-pathogen-detection-and-identification-using-metagenomics-samples Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 5-Phylogeographic Analysis

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 5-Phylogeographic Analysis https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-5-phylogeographic-analysis Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
Infectious Disease Genomic Epidemiology 2018 Module 4-Antimicrobial Resistance Genes

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 4-Antimicrobial Resistance Genes https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-4-antimicrobial-resistance-genes Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 3-Pathogen Genomic Analysis 2

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 3-Pathogen Genomic Analysis 2 https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-3-pathogen-genomic-analysis-2 Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 2-Pathogen Genomic Analysis 1

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 2-Pathogen Genomic Analysis 1 https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-2-pathogen-genomic-analysis-1 Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Infectious Disease Genomic Epidemiology 2018 Module 1-Introduction to Public Health Microbiology and Genomic Epidemiology

Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools.

Infectious Disease Genomic Epidemiology 2018 Module 1-Introduction to Public Health Microbiology and Genomic Epidemiology https://tess.elixir-europe.org/materials/infectious-disease-genomic-epidemiology-2018-module-1-introduction-to-public-health-microbiology-and-genomic-epidemiology Course providing an introduction to genomic epidemiology analysis followed by hands-on practical tutorials demonstrating the use of selected analysis tools. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics data 2018 Module 6-Regulatory Network Analysis

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics data 2018 Module 6-Regulatory Network Analysis https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-6-regulatory-network-analysis Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics data 2018 Module 5-Gene Function Prediction

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics data 2018 Module 5-Gene Function Prediction https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-5-gene-function-prediction Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics data 2018 Module 4-More Depth on Network and Pathway Analysis

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics data 2018 Module 4-More Depth on Network and Pathway Analysis https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-4-more-depth-on-network-and-pathway-analysis Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics data 2018 Module 3-Network Visualization and Analysis with Cytoscape

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics data 2018 Module 3-Network Visualization and Analysis with Cytoscape https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-3-network-visualization-and-analysis-with-cytoscape Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Graduate students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics Data 2018 Module 2-Finding Over-Represented Pathways

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics Data 2018 Module 2-Finding Over-Represented Pathways https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-2-finding-over-represented-pathways Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Graduate students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Pathways and Network Analysis of -Omics Data 2018 Module 1-Introduction to Pathway and Network Analysis

Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information.

Pathways and Network Analysis of -Omics Data 2018 Module 1-Introduction to Pathway and Network Analysis https://tess.elixir-europe.org/materials/pathways-and-network-analysis-of-omics-data-2018-module-1-introduction-to-pathway-and-network-analysis Course covers the bioinformatics concepts and tools available for interpreting a gene list using pathway and network information. Researchers Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists Graduate Students
Epigenomic Data Analysis 2018 Module 4-Downstream Analyses and Integrative Tools

Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages.

Epigenomic Data Analysis 2018 Module 4-Downstream Analyses and Integrative Tools https://tess.elixir-europe.org/materials/epigenomic-data-analysis-2018-module-4-downstream-analyses-and-integrative-tools Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages. Researchers Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists Graduate Students
Epigenomic Data Analysis 2018 Module 3-Introduction to WGBS and Analysis

Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages.

Epigenomic Data Analysis 2018 Module 3-Introduction to WGBS and Analysis https://tess.elixir-europe.org/materials/epigenomic-data-analysis-2018-module-3-introduction-to-wgbs-and-analysis Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages. Researchers Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists Graduate Students
Epigenomic Data Analysis 2018 Module 2-ChIP-Seq Alignment, Peak Calling, and Visualization

Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages.

Epigenomic Data Analysis 2018 Module 2-ChIP-Seq Alignment, Peak Calling, and Visualization https://tess.elixir-europe.org/materials/epigenomic-data-analysis-2018-module-2-chip-seq-alignment-peak-calling-and-visualization Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages. Researchers Graduate students Post-Doctoral Fellows Biologists, Genomicists, Computer Scientists
Epigenomic Data Analysis 2018 Module 1-Introduction to ChIP Sequencing and Analysis

Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages.

Epigenomic Data Analysis 2018 Module 1-Introduction to ChIP Sequencing and Analysis https://tess.elixir-europe.org/materials/epigenomic-data-analysis-2018-module-1-introduction-to-chip-sequencing-and-analysis Course providing an introduction to histone ChiP-Seq and WGBS data analysis followed by integrated tutorials demonstrating the use of open source ChiP-Seq and WGBS analysis packages. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 7-Identifying Integrative Subtypes and Building Classifiers

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 7-Identifying Integrative Subtypes and Building Classifiers https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-7-identifying-integrative-subtypes-and-building-classifiers Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 6-Epigenetic Profiling in Disease

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 6-Epigenetic Profiling in Disease https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-6-epigenetic-profiling-in-disease Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 5-Available Epigenetics Data and Resources

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 5-Available Epigenetics Data and Resources https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-5-available-epigenetics-data-and-resources Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 4-Translating Research Workflows into Clinical Tests

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 4-Translating Research Workflows into Clinical Tests https://tess.elixir-europe.org/materials/bioinformatic-of-genomic-medicine-2018-module-4-translating-research-workflows-into-clinical-tests Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 3-Variant Annotation

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 3-Variant Annotation https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-3-variant-annotation Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Bioinformatics of Genomic Medicine 2018 Module 2-Introduction to Tools, Computing Infrastructure, and Data

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 2-Introduction to Tools, Computing Infrastructure, and Data https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-2-introduction-to-tools-computing-infrastructure-and-data Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Graduate students Biologists, Genomicists, Computer Scientists Post-Doctoral Fellows
Bioinformatics of Genomic Medicine 2018 Module 1-Introduction to Genetic Disorders

Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field.

Bioinformatics of Genomic Medicine 2018 Module 1-Introduction to Genetic Disorders https://tess.elixir-europe.org/materials/bioinformatics-of-genomic-medicine-2018-module-1-introduction-to-genetic-disorders Course will explore various aspects of genomic medicine, covering and teaching popular tools and methods in the field. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics 2018 Module 6-Future of Metabolomics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 6-Future of Metabolomics https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-6-future-of-metabolomics Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Post-Doctoral Fellows Graduate students Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics 2018 Module 5-MetaboAnalyst

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics 2018 Module 5-MetaboAnalyst https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-2018-module-5-metaboanalyst Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists
Informatics and Statistics for Metabolomics Module 4-Backgrounder in Statistics

Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases.

Informatics and Statistics for Metabolomics Module 4-Backgrounder in Statistics https://tess.elixir-europe.org/materials/informatics-and-statistics-for-metabolomics-module-4-backgrounder-in-statistics Course covers many topics ranging from understanding metabolomics technologies, data collection and analysis, using pathway databases, performing pathway analysis, conducting univariate and multivariate statistics, working with metabolomics databases, and exploring chemical databases. Researchers Post-Doctoral Fellows Graduate Students Biologists, Genomicists, Computer Scientists