Statistical genomics and bioinformatics

We offer specialized support in various areas of genomics and bioinformatics to help you to both generate and analyze high-quality data.

Below are the key genomic applications we work with:

(Epi)-genomics

We specialize in a variety of genomic sequencing methods to explore DNA and its modifications:

• Whole genome sequencing (Illumina)
• Long-read whole genome sequencing (Nanopore) – Provides enhanced genomic assemblies and structural variation identification
• Direct DNA sequencing – Ideal for analyzing DNA methylation and other DNA modifications
• ChIP sequencing – Focuses on transcription factors and chromatin modifications
• Customized approaches – Tailored solutions for your specific research needs

(Epi)-transcriptomics

We offer comprehensive RNA sequencing methods to study gene expression and RNA modifications:

• RNA sequencing (Illumina)
• Long-read RNA sequencing (Nanopore) – Provides better resolution for identifying isoforms
• Direct RNA sequencing – Used to study RNA modifications directly
• Special classes of RNAs – Includes small RNAs, non-coding RNAs, short RNAs, and others
• RIP sequencing – For studying RNA-protein interactions
• Customized approaches – Solutions customized to your research goals

Single-cell omics

We provide single-cell analysis to uncover cellular heterogeneity:

• Single-cell transcriptomics (10X)
• Customized approaches – Tailored single-cell analyses for your specific needs

For custom analysis approaches or further information, please contact us.

We offer a range of bioinformatics services to help you integrate, visualize, and analyze complex data.

Below are the key services we provide:

Data integration

• Cross-platform/species/studies genomic data integration
• Multi-omics integration
• Multi-modal integration (e.g., medical imaging + omics data)

Data visualization

• Standard visuals (e.g., graphs, charts, tables, etc.)
• Complex, custom-made visuals (e.g., Circos plot, network map, etc.)

Data mining

• Differential genomic features (gene, miRNA, CpG, etc.) analysis
• Pathway and network analysis
• Artificial intelligence and machine learning (e.g., clustering, multi-dimensional scaling, classifiers)

For customized bioinformatics services, please contact us.

We help you design robust studies tailored to your research needs. Our services cover a variety of study designs, including:

• Family-based and population-based case-control studies
• Analysis of discrete or quantitative traits
• Addressing population stratification to ensure reliable results
• Exploring haplotype associations in both related and unrelated individuals
• Genotype imputation to enhance study accuracy

Quality control

Ensuring the integrity of your data is critical. We provide comprehensive quality control services, including:

• Analysis of missing data and minor allele frequency
• Hardy-Weinberg equilibrium testing to assess genetic consistency
• Evaluating population stratification to minimize bias

Genetic linkage mapping studies

Our expertise in genetic linkage mapping enables us to uncover important genetic markers associated with traits. We offer:

• Homozygosity mapping to identify shared genetic regions
• Assessment of covariate effects on linkage signals to refine your findings

Association studies

We support a range of association studies to help you identify genetic variants tied to specific traits or diseases, including:

• Genome-wide association studies (GWAS) to explore genetic influences
• Rare variant studies using whole-genome or exome sequencing data
• Copy number variation analysis to detect structural variations
• Transcriptome-wide association studies (TWAS) and expression/splicing quantitative trait locus (e/sQTL) mapping to uncover gene expression links
• Epigenome-wide association studies (EWAS) and methylation quantitative trait locus (mQTL) mapping to explore epigenetic influences

Causal variant discovery

Understanding the functional role of genetic variants is essential for advancing scientific knowledge. We offer:

• Variant annotation to interpret genetic findings
• Prioritization of variants, genes, and loci based on their potential impact
• Mendelian randomization studies to assess causal relationships
• Polygenic risk score analysis and its potential clinical applications

For more information or to discuss how we can support your research, please contact us.