Partek Training: tools for Methylation analysis, including NGS analysis

Course date: 06 February 2018 - 07 February 2018
Location: Erasmus MC, Ee 15.28

Click here for details of programme
Click here to register for this course


Hands-on two-day course in a computer room at the Erasmus MC.

The workshop is an introductory level course intended for those with novice or intermediate skills in the subject matter

Teacher:

Ivan Lukic, PhD

Alison Hargreaves, PhD

Registration fee

Thanks to Partek this course, including lunch, will be free of charge for all participants. 

Detailed program

Start 9:30 - 16:30 hours
Morning break: 10;45 - 11:00 hours
Lunch: 12:30 - 13:00 hours
Afternoon break: 14:30 - 15:00 hours

Tuesday, 6 February: Microarray Analysis

Day 1 6thFebruary 

Analysis of NGS Data with Partek® Flow®

1.       Single-cell RNA-Seq Analysis (live demo)

2.       RNA-Seq Analysis (hands on)

a.       Data import and annotation

b.      QA/QC for NGS data

c.       Trimming and alignment

d.      Quantification

e.      Exploratory data analysis - Principle Components Analysis

f.        Differential expression analysis, Introduction to Gene Specific Analysis

g.       Visualizations of RNA-Seq data: Dot Plots, Chromosome Viewer and Hierarchical Clustering

h.      Biological Interpretation with Gene Ontology Analysis

i.        Save and Automate your analysis pipeline

3.       DNA-Seq Analysis (hands on)

a.       Alignment

b.      Variant calling

c.       Variant filtering and prioritization of variants

d.      Visualizing variants

 

Day 2 7th February

Analysis of Microarray Data with Partek®Genomics Suite®

1.       Gene Expression Analysis - Basic Session (hands on)

a.       Data import

b.      QA/QC

c.       Exploratory data analysis

d.      Differential expression analysis

e.      Data visualisations: volcano plot, heat map, Venn diagram

f.        Pathway analysis

2.       Methylation Analysis and Integration with Gene Expression Advanced Session (hands on)

a.       QA/QC

b.      Annotating data

c.       Exploratory analysis

d.      Differential methylation analysis

e.      Methylation signatures

f.        Biological interpretation: detecting methylation targets

 

g.       Integration of methylation data with gene expression data

 




Click here for details of programme
Click here to register for this course


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