Genomatix Tutorials

Tutorials

With their unique combination of proprietary algorithms and comprehensive data background, all our solutions do more than enable you to efficiently and effectively analyze and interpret biological data.

To get you started quickly with our technologies, you can find some video tutorials and PDF documents below introducing our tools and how to use them.

Video tutorials

Introductory Tutorials

Tutorial	Programs shown
RNA-seq data analysis Mapping of RNA-seq reads Differential expression analysis, network analysis, ...	Genomatix Mapper (GMS) RegionMiner, GePS, Transckriptome Viewer, Genome Browser (GGA)
Small RNA-seq data analysis Mapping of small RNA-seq reads to a small RNA library Network analysis of micro RNAs	Genomatix Mapper (GMS) GePS (GGA)
Analysis of NGS DNA methylation data Mapping of bisulfite sequences Visualization of methylation patterns	Genomatix Mapper (GMS) Genome Browser (GGA)

Application Examples

Tutorial	Programs used
Biological classification of genes	GeneRanker, GePS
Regulatory target prediction by next neighbor analysis	RegionMiner (Annotation & Statistics)
Transcription factor binding site overrepresentation (e.g. in ChIP-seq peaks)	RegionMiner (Overrepresented TF binding sites)
Distance correlation of genomic elements	RegionMiner (GenomeInspector)
Conserved TF binding site patterns in orthologous regions	RegionMiner (Orthologous Regions), Genome Browser, FrameWorker
Comparative Promoter Analysis	Gene2Promoter, FrameWorker, ModelInspector
Conserved TF binding sites in orthologous promoters	ElDorado, DiAlignTF
De novo transcription factor binding site definition with MatDefine	MatDefine
De novo transcription factor binding site definition with CoreSearch	CoreSearch
Basic promoter analysis with MatInspector	MatInspector

PDF tutorials

Tutorial	Description
Quickstart Guide for the Genomatix Mining Station (GMS) (1.3 MB)	Introduction to the graphical user interface of the Genomatix Mining Station (GMS).
Quickstart Guide for the Genomatix Genome Analyzer (GGA) (3.4 MB)	Overview of the various analysis types that can be performed using the Genomatix Genome Analyzer. Two NGS examples (RNA-seq and ChIP-seq analysis) are shown.
mygenomatix - secure cloud for NGS analysis (3.3 MB)	Description of the mygenomatix service model for analysis of NGS data.
BiblioSphere to GePS Transition Guide (2.2 MB)	Helps BiblioSphere users to get accommodated with the Genomatix Pathway System (GePS). It shows some of the most common usage scenarios in BiblioSphere and how these can be performed in GePS.
Introduction to the Genomatix Genome Browser (1.4 MB)	Describes the main features of Genome Browser, a tool for visualizing regions of the genome and the associated annotation overlaid with user-specific positional data.