Register training material
10 materials found

Scientific topics: Epigenomics 


Hands-on for 'ATAC-Seq data analysis' tutorial

The questions this addresses are:
- Which DNA regions are accessible in the human lymphoblastoid cell line GM12878?
- How to analyse and visualise ATAC-Seq data?

\nThe objectives are:
- Apply appropriate analysis and quality control steps for ATAC-Seq
- Generate a heatmap of transcription...

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: hands-on tutorial

Hands-on for 'Formation of the Super-Structures on the Inactive X' tutorial

The questions this addresses are:
- Histone modification?
- How is a raw set of ChIP-seq data processed and analyzed?
- Where are the enriched regions for H3K27me3, H3K4me3 and CTCF on the chrX?

\nThe objectives are:
- Inspect the read quality
- Trim low quality bases
- Map reads on a...

Scientific topics: Epigenomics

Keywords: epigenetics, ChIP-seq

Resource type: hands-on tutorial

Hands-on for 'Hi-C analysis of Drosophila melanogaster cells using HiCExplorer' tutorial

The questions this addresses are:
- 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?

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: hands-on tutorial

Hands-on for 'DNA Methylation data analysis' tutorial

The questions this addresses are:
- 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?

\nThe objectives are:
- Learn how to analyse...

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: hands-on tutorial

Hands-on for 'Identification of the binding sites of the Estrogen receptor' tutorial

The questions this addresses are:
- How is raw ChIP-seq data processed and analyzed?
- What are the binding sites of the Estrogen receptor?

\nThe objectives are:
- Inspect read quality with FastQC
- Map reads with Bowtie2
- Assess the quality of an ChIP-seq experiments
- Extract coverage...

Scientific topics: Epigenomics

Keywords: epigenetics, ChIP-seq, work-in-progress

Resource type: hands-on tutorial

Hands-on for 'Infinium Human Methylation BeadChip' tutorial

The questions this addresses are:
- Which DNA regions and positions are diffrentialy methylated in pre MAPKi treatment and post MAPKi resistance Melanomas GSE65183?
- How to analyse and visualise Infinium Human Methylation BeadChip's?

\nThe objectives are:
- Learn how to perform reproducible...

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: hands-on tutorial

Hands-on for 'Identification of the binding sites of the T-cell acute lymphocytic leukemia protein 1 (TAL1)' tutorial

The questions this addresses are:
- How is raw ChIP-seq data processed and analyzed?
- What are the binding sites of TAL1?
- Which genes are regulated by TAL1?

\nThe objectives are:
- Inspect read quality with FastQC
- Perform read trimming with Trimmomatic
- Align trimmed reads with BWA
...

Scientific topics: Epigenomics

Keywords: epigenetics, ChIP-seq

Resource type: hands-on tutorial

Slides for 'Introduction to ATAC-Seq data analysis' tutorial

The questions this addresses are:
- What is ATAC-Seq?
- What are the quality parameters to check for each dataset?
- How to analyse ATAC-Seq data?

\nThe objectives are:
- Understand ATAC-Seq
- Quality Parameters for ATAC-Seq
- Understand Peak calling for ATAC-Seq

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: slides

Slides for 'ChIP-seq data analysis' tutorial

The questions this addresses are:
- What is ChIP-seq?

\nThe objectives are:
- Identify ChIP-seq data

Scientific topics: Epigenomics

Keywords: epigenetics

Resource type: slides

Introduction to 'Epigenetics'

Slides for Epigenetics

Scientific topics: Epigenomics

Resource type: slides