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Related resources: Variant Analysis dataset  or Epigenetics dataset 


Variant Analysis - Mapping and molecular identification of phenotype-causing mutations

Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - What is mapping-by-sequencing? - How can it help you identify the causative mutation in phenotypic mutants isolated from genetic screens? Objectives of the tutorial: - Use joint...

Resource type: Tutorial

Variant Analysis - Mapping and molecular identification of phenotype-causing mutations https://tess.elixir-europe.org/materials/variant-analysis-mapping-by-sequencing Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - What is mapping-by-sequencing? - How can it help you identify the causative mutation in phenotypic mutants isolated from genetic screens? Objectives of the tutorial: - Use joint variant calling and extraction to facilitate variant comparison across samples - Perform variant linkage analyses for phenotypically selected recombinant progeny - Filter, annotate and report lists of variants
Epigenetics - Hi-C analysis of Drosophila melanogaster cells using HiCExplorer

DNA methylation is an epigenetic mechanism used by higher eukaryotes and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and gene silencing of germline specific gene and repetitive elements. Questions of the tutorial: - Why is a Hi-C analysis useful? - What is...

Resource type: Tutorial

Epigenetics - Hi-C analysis of Drosophila melanogaster cells using HiCExplorer https://tess.elixir-europe.org/materials/epigenetics-hi-c-analysis-of-drosophila-melanogaster-cells-using-hicexplorer DNA methylation is an epigenetic mechanism used by higher eukaryotes and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and gene silencing of germline specific gene and repetitive elements. Questions of the tutorial: - Why is a Hi-C analysis useful? - What is 'chromosome conformation capture'? - What are main steps in order to generate and plot a Hi-C contact matrix?
Variant Analysis - Calling variants in non-diploid systems

Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How does frequency of mitochondrial polymorphisms change from mother to child? Objectives of the tutorial: - Using Galaxy's main site we will see how to call variants in bacteria,...

Resource type: Tutorial

Variant Analysis - Calling variants in non-diploid systems https://tess.elixir-europe.org/materials/variant-analysis-calling-variants-in-non-diploid-systems Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How does frequency of mitochondrial polymorphisms change from mother to child? Objectives of the tutorial: - Using Galaxy's main site we will see how to call variants in bacteria, viruses, and organelles.
Variant Analysis - Exome sequencing data analysis

Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How to identify the genetic variation with the use of exome sequencing? - What is the pipeline of the process of finding genetic variation which caused the disease? Objectives of the...

Resource type: Tutorial

Variant Analysis - Exome sequencing data analysis https://tess.elixir-europe.org/materials/variant-analysis-exome-sequencing-data-analysis Exome sequencing means that all protein-coding genes in a genome are sequenced Questions of the tutorial: - How to identify the genetic variation with the use of exome sequencing? - What is the pipeline of the process of finding genetic variation which caused the disease? Objectives of the tutorial: - Identification of the genetic variation using the exome sequencing - Using FreeBayes calls for variants generating - Variant analysis and GEMINI queries
Epigenetics - DNA Methylation data analysis

DNA methylation is an epigenetic mechanism used by higher eukaryotes and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and gene silencing of germline specific gene and repetitive elements. Questions of the tutorial: - What is methylation and why it cannot be...

Resource type: Tutorial

Epigenetics - DNA Methylation data analysis https://tess.elixir-europe.org/materials/epigenetics-dna-methylation-data-analysis DNA methylation is an epigenetic mechanism used by higher eukaryotes and involved in e.g. gene expression, X-Chromosome inactivating, imprinting, and gene silencing of germline specific gene and repetitive elements. Questions of the tutorial: - What is methylation and why it cannot be recognised by a normal NGS procedure? - Can a different methylation influence the expression of a gene? How? - Which tools you can use to analyse methylation data? Objectives of the tutorial: - Learn how to analyse methylation data - Get a first intuition what are common pitfalls.