geneXplain platform API

Software Demo

This event was held on April 30, 2024

FREE online seminar

Seminar Description

geneXplain platform API

This session is dedicated to the topic of Application Programming Interfaces (APIs). We will discuss what an API is, when it is used and what advantages does it offer to your analysis pipeline. It will be demonstrated how to download and install geneXplain platform API for R programming language.

Together we will upload files to the platform, launch analysis with a newly added file as an input, export results, and visualise the results in RStudio.

The event will be hosted by Prof. Dr. Alexander Kel and Kamilya Altynbekova.

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

  • What is an API and why is it used?
  • What kind of APIs are available for the geneXplain platform?
  • Where can you get the geneXplainR package? 
  • How to connect to your existing account in geneXplain platform via API?
  • How can I use the functionalities of geneXplain platform in my R scripts?

The following examples will be shown

  • Data import into the platform
  • Upload of a gene list and a table with metadata from RNA-seq experiment
  • Workflow launch. Identification of differentially expressed genes
  • Data manipulation. Table annotation
  • Export of the obtained results
  • Visualization of the obtained results with ggplot2 (volcano plot, scatter plot)
  • Brief intro to the construction of gene regulatory networks and MEALR search

What you will learn in this webseminar 

  • What is the geneXplain platform API
  • How to download and install geneXplainR package
  • How to import and export files to your project in the platform via API
  • How to launch the geneXplain platform analysis or workflow via API
  • Some ways to use geneXplainR together with other R packages in your script

Seminar Schedule

The session was held on April 30th 2024 in a format of a 1.5 hour interactive software demo given by Prof. Dr. Alexander Kel and the software developer Kamilya Altynbekova.

What You Will Get

  • 1.5 hour interactive software demo with full immersion to the geneXplain platform API functionality
  • Q&A session addressing your questions regarding the geneXplain platform API abilities and applications
  • Time-unlimited access to the video record of the session

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The Speakers

  • Alexander Kel received his Ph.D. in Bioinformatics, Molecular Biology and Genetics in 1990 and has has over 35 years of research experience in Bioinformatics
  • He studied at Novosibirsk State University, obtaining an M.S. in biology with a focus on mathematical biology in 1985
  • His work spans numerous bioinformatics branches (sequence analysis, gene recognition, promoter/enhancer analysis and prediction, prediction of RNA secondary structure, analysis of signal transduction pathways, identification of drug targets, systems biology and systems medicine)
  • He is the originator of the “fuzzy puzzle” concept for gene regulatory regions modeling
  • Developed “upstream analysis” for identifying biomarkers and drug targets in various diseases
  • Participated in over 20 national and international research projects
  • Author of more than 130 scientific publications and several book chapters on bioinformatics and systems biology
  • CEO and CSO of geneXplain GmbH, Wolfenbüttel, Germany
  • Visiting Professor at Royal College of Surgeons in Ireland (RCSI), Dublin, Ireland
Kamilya Altynbekova
  • Blending her Computer Science background with a passion for life sciences, Kamilya Altynbekova works as software developer at geneXplain
  • Kamilya’s main responsibility is the development for geneXplain platform, maintenance of the existing tools and integration of the new analysis
  • As a part of geneXplain team, Kamilya also participates in research projects by conducting data analysis to extract valuable insights from biological data, often dealing with large datasets


Basic knowledge of biochemistry and molecular biology. Basic programming skills.

To Whom It Might Be Interesting

  • Students and Researchers working with biological data and seeking for ways to deal with it


That’s ok! All registered session attendees will receive access to the video record of the webinar together with the presentation materials. 

You can ask your questions live during the online event using the Q&A section of the online webinar, or you can send us your questions via [email protected]

Sure! Anyone holding an active geneXplain platform account will be able to repeat the demonstrated analysis. Register your free geneXplain platform account here.

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