Focus on the group's mission

The Vital-IT group acts as a key sustainable bioinformatics resource serving national and international projects and collaborations, with academic and industry partners. Thanks to its diverse expertise in computational biology, data management and software engineering, the team is able to find custom-made solutions to answer complex biological questions including biomedical & omics data. The value it delivers to its partners is a deep commitment to advancing science effectively and independently. 

Knowledge management

Our knowledge management and data stewardship competencies enable us to get novel and faster insights into complex datasets. We organize, clean & control the quality of your datasets for subsequent analysis. In addition, we process, transform and align your datasets to existing standards and make them available as a database. We are specialized in handling different types of omics data (e.g. RNA-Seq, metabolomics, lipidomics, proteomics, transcriptomics, microbiomics) including sensitive data, for which we can provide bespoke solutions  (e.g. federated analysis or secure dedicated servers for remote analysis). Our specialties include: 

  • FAIR Data management  
  • Data and literature curation 
  • Knowledge representation 

In practice: 

  • Set up of a federated database for biomarker discovery in type 2 diabetes (T2D) as part of the IMI RHAPSODY consortium. In this database, 10 observational clinical cohorts with a combined total of 50K patients were standardized, harmonized and made available for statistical analysis. We developed data mining and statistical tools in an analysis package for researchers to use within the consortium. Read more and watch the video 
  • Set up of a database composed of ~100 clinical trials as part of the IMI Hypo-RESOLVE consortium. The work has involved setting up ETL (extract, transform, load) pipeline for feeding trial data into a secure Oracle database and the creation of a virtual analysis environment accessible via remote desktop and secured by 2 factor authentication. 
  • Set up of secure pipelines to process and analyse exome sequencing data in various cancers, in order to identify the factors responsible for resistance to immunotherapy, as part of the IMI IMMUcan project.  

More about SIB’s role in European public-private partnerships 

Data mining and analysis

We propose analysis pipelines adapted to each research context, including multi-omics models and results interpretation. Our specialties include: 

  • Omics analysis 
  • Integrative and network analysis 
  • Machine learning 

In practice: 

  • Development of a method for interpreting gene expression data with metabolic models which has helped to identify key genes in obesity-related inflammation in adipose tissue (read the paper) 
  • Integrative analysis of mouse and human lipidomics data which led to the discovery of novel lipid biomarker candidates for T2D (read the paper) 
  • Transcript assembly and functional characterization of heart-specific lncRNAs in collaboration with the University of Lausanne Medical School (read the paper) 
  • Transcriptomics data analysis from muscle biopsies in a human clinical trial investigating the effect of Urolithin A on muscle function (read the paper) 

Bioinformatics tools

We develop tailored web applications and software tools to present, analyze, visualize and interpret data and results. We use various standards as appropriate to ensure interoperability and reusability (e.g. W3C standards such as RDF).

In practice:

  • Development, in collaboration with EMBO, of SourceData - a web-based platform for curating and annotating figures in scientific publications (read the paper).
  • Development, in collaboration with the SIB Clinical Bioinformatics Group and the Geneva University Hospitals (HUG), of Oncobench ® - a software platform to help cancer diagnosis (read the news)

Access our software stack

Software tools & web applications

Our approach

We strive to establish partnerships: even for one-off collaborations, we seek to deeply understand the data and the objectives of the project we work on. Our partners appreciate our reliability, commitment and team spirit. 

Our track record spans biomedical research projects of different sizes - from punctual help to long-term European projects. 

We are recognized for our flexibility and independence, allowing us to tailor efficient solutions and propose advisory services to each situation. For example, the collaboration can be customized to include our partner's own ontologies, provide support to validate internal approaches or integrate large and complex amounts of data of various types and origins. 

We train both beginners and experts in bioinformatics methods, languages and best practices. 

Our highly qualified team of 30 people has an average experience of over 10 years in the bioinformatics field. 


View our group members here