Find your gene regulatory pathways, biomarkers, and drug targets in a few clicks




For molecular biologists and clinical researchers

Choose your training

Software demo session of Coffee Break with TRANSFAC

Download TRANSFAC and do whatever you like

Software demo: Coffee break with TRANSFAC

This webseminar will give a brief overview of TRANSFAC® with the focus on the flat file download release. In the TRANSFAC® flat file download, the Match™ tool can be used in the command line or the PWMs can be used with third-party tools or with tools of the user. The following main questions will be in the focus of this seminar:

  • Factor-site binding
  • Factor-factor interaction
  • Combinatorial gene regulation
  • Gene regulatory networks
  • Promoters & Enhancers
  • Factor classification
  • TF-binding motifs (PWMs)
  • TF-binding site prediction


  • May 28, 10 AM CEST
  • 1 hour
  • FREE online event
Online Course and Hands-on Training

Promoter hunting with TRANSFAC

Lectures and hands-on training

Become a professional promoter hunter within this four day intensive course on gene regulation analysis. Gain an understanding of the principles underlying the regulatory code of eukaryotic genes, and explore the techniques for predicting and analyzing promoters and enhancers.

TRANSFAC license is included throughout the whole course duration.

The following main questions will be in the focus of this course:

  • Principles of gene regulatory code
  • How do I find promoters and enhancers of the genes under study?
  • Basic principles of search for TFBS (Transcription Factor Binding sites)
  • Combinatorial analysis of gene regulation: complexes of TFBS acting together
  • Search for tissue-specific TF target genes
  • Working with multi-omics data: how to compile a gene set for further promoter analysis (what you can do with RNA-seq, ChIP-seq, ATAC-seq, proteomics, metabolomics, DNA methylation, genome sequencing data)
  • Mutation effect on sites: site gains and losses
  • Selection of site search profiles (collection of positional weight matrices to perform the search for TFBS)


  • June 3-6, 5 PM CEST
  • 11 hours
  • PAID online event
  • €299* per seat before VAT

* FREE for TRANSFAC licensed users

Key benefits

No-coding bioinformatics

Perform cutting edge bioinformatics analysis in a user-friendly interface with no programming skills needed


Learn how to process and integrate various omics data types in your analysis

Promoter analysis

Become the gene regulation expert with deep understanding of transcription factors interplay in various conditions

Pathway analysis

Discover the master regulators governing the studied biological processes through intracellular signaling pathways

Disease molecular mechanisms

Identify prospective biomarkers and drug targets for the pathologies of your interest by performing integrated promoter and pathway analysis

Gold standard tools and databases

Learn how to use the best-in-class knowledge bases on genes, proteins, transcription factors, pathways, drugs, and their targets, together with integrated tools


GeneXplain’s databases and software tools are very helpful for our research. The training program is absolutely amazing. It clearly shows to my students how to maximize results of analysis of our omics data! They can learn all the steps of the analysis  – from raw data preprocessing to unraveling the hidden molecular mechanisms behind the pathology we’re studying
Royal College Of Surgeons In Ireland (RCSI), Lecturer, Pharmacy And Biomolecular Sciences
The geneXplain “Click and Run” bioinformatics approach is absolutely perfect for my needs! I’ve discovered how to uncover the biological significance hidden within my data.
Maria Smetanina
Baylor College of Medicine, Houston, Texas, USA

Coming soon

My way from promoters to pathways

Paid course, €299 per seat before VAT. Date and time will be announced soon.

In this course we will:

  • review the basic principles of gene regulation
  • discuss the evolutional advantages of high plasticity of gene regulatory networks
  • look at real case examples where computational methods are applied for identification of disease biomarkers, drug discovery and personalised medicine
  • learn several techniques of finding promoters and enhancers and the principles on which these methods are based on 
  • construct workflows „From genome to drug targets“ using the geneXplain platform
Hands-on training

Our lecturers

Prof. Dr. Edgar Wingender. The originator of the TRANSFAC database and the founder of the TFClass transcription factor classification.
Prof. Dr. Alexander Kel. The author of the Walking Pathways theory and the originator of the Upstream Analysis concept (integrated promoter and pathway analysis)

What to expect

  • Interactive, live online courses taught by outstanding lecturers
  • Core bioinformatics and systems biology knowledge clearly explained
  • Hands-on trainings with real tasks of applied bioinformatics
  • Interactive Q&A sessions and continuous support from our experts 

Who is teaching

  • The lecturers are renown opinion-makers in the associated fields
  • The hands-on trainings experts have over 15 years experience 
  • All experts have solid background in biology/IT