Tutorials

Video Tutorials

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

Webinar	Description
Introduction to the Genomatix Pathway System (1:06:29 minutes)	This webinar recording gives an introduction how to perform pathway and network analyses using the Genomatix Pathway System (GePS).
Comparative promoter analysis with Genomatix (1:00:46 minutes)	In silico promoter analysis can give you many transcription factor binding site (TFBS) matches in a promoter. The question is: Which of them are functional? This webinar will give you an introduction to the programs for comparative TFBS analysis in the Genomatix Software Suite.
Promoter analysis with Genomatix MatInspector (58:28 minutes)	By means of live application examples, you will gain a detailed insight into the usage of MatInspector for transcription factor binding site analysis.
Variant analysis in GeneGrid- stay up to date with continuous annotation (50:09 minutes)	By means of live application examples, you will get a detailed insight into the usage of GeneGrid for annotation and filtering of small variants. Additionally, the latest developments and the importance of continuous annotation will be shown.

Tutorial	Description
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.
ChIP-Seq case study (2.6 MB)	Shows how to analyze ChIP-Seq data using replicate data sets (PPARgamma in adipocyte differentiation).
RNA-Seq case study (1.0 MB)	Illustrates an RNA-Seq data analysis based on Ion Torrent Personal Genome Machine 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.
Genomatix Genome Browser Manual (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.
Genomatix Pathway System Tutorial (2.2 MB)	Describes the main features of the Genomatix Pathway System (GePS) with an example dataset.