(The service catalogue is currently being updated. Last update28.4.2025)
The UEF Bioinformatics Center provides computing, data analysis, and consultancy services. The Bioinformatic Center has expertise especially in processing data from different omics technologies. Our services include e.g. experimental design, data analysis and visualization, and workflow development (see below).
The Bioinformatics Center offers services for the UEF research community but services are equally available for other Finnish research institutions and non-academic customers. The project requests are evaluated together with customer based on available expertise, feasibility and available resources. Computing services are available only for the UEF health sciences researchers and students.
Reports describing the analysis tools and methods used together with analysis results are provided at the end of each project. The data are analyzed using widely used freely available tools and published or in-house developed workflows.
The computing services and short consultancy services are provided free of charge, but the data analysis and longer consultancy services are charged based on project fees and actual working hours. More information on the pricing can be found here.
For the use of our services, we request you to acknowledge our contribution with either acknowledgment or authorship in the each scientific article. See more detailed information regarding authorship and citing here.
Here you can find detailed descriptions of our services. If the service you are interested in is not listed below, we encourage you to contact us for further assistance!
Our genomics services include:
GWAS: genome-wide association analysis
Conducted using an in-house pipeline for genomic data quality control and association analyses with Plink2
GWAS are available for case-control and continuous phenotypes
Genomic imputation
Quality control and filtering performed using an in-house pipeline
Performed using the Finnish Institute for Health and Welfare (THL) Biobank’s SISu reference panel (v.4.2 or v.3)
Data quality control is conducted using the nf-core/atacseq pipeline
Differential accessibility, peak calling, functional enrichment/ pathway analyses and visualization are conducted using an in-house pipeline based on the methodology developed by Reske et al.
Data quality control and analysis is conducted using the nf-core/chipseq pipeline
Our transcriptomics services include:
RNA-seq: bulk RNA-sequencing
Measures gene expression across entire samples
Data preprocessing and quality control is conducted using the nf-core/rnaseq pipeline
Differential expression, functional enrichment/ pathway analyses and visualization are conducted using an in-house pipeline built on the nf-core/differentialabundance pipeline
scRNA-seq (Single-Cell RNA-Sequencing)
Measures gene expression at the single-cell level
Single-cell data generated with 10X Genomics techologies is preprocessed using Cell Ranger
Basic analysis includes data filtering, dimensional reduction, clustering, differential expression, trajectory, functional enrichment/pathway analyses and visualization
We provide tailored analysis and consulting services, including but not limited to:
Multiomics/Multimodal Data Analyses
Integrating diverse datasets (e.g., genomics, transcriptomics, proteomics, metabolomics, clinical variables) for comprehensive insights
Metabolomics
Multivariate analysis of metabolic profiles for biological insights
Proteomics
Processing and analysis of e.g. Olink data
Customised Statistical and Machine Learning Analyses
Applying/consulting on proper statistical methods
Help in designing experiments to maximize research impact
Longitudinal modeling for analyzing data over time to identify trends and patterns
Survival analyses for modeling time-to-event data for e.g. clinical applications
Developing predictive models and automated workflows
