Discover pathogens in diverse samples

Next generation sequencing (NGS) is a cutting-edge technology that sequences large quantities of DNA and RNA from biological samples and converts it into digital data. The typical size of a single raw sequencing file reaches up to several gigabytes.

I have developed a computational workflow which efficiently identifies viruses and micro-organisms from NGS data. The workflow is very powerful as it reveals what organisms are present in samples (eg. blood, body fluid, tissues, food, water, soil, meat, etc).

The workflow can be used to quantitatively measure the activities (gene expression) of organisms, when RNA sequencing data (RNA-seq) is used. The workflow is suitable for detecting DNA/RNA viruses, bacteria, and fungi.

The workflow can be used as a diagnostic tool by identifying pathogens present in hosts (human, animals, plants), and it is suitable for investigating host-pathogen interactions. Profiling of the complex biodiversity in environmental, agricultural and industrial samples is also possible. It can also be used as a quality control measure in NGS experiments themselves, by identifying laboratory contaminants associated with commercial laboratory kits.

If you are interested in this pathogen discovery technology, please contact me. I can help you find solutions to your data analysis problems. Consultation on your next generation sequencing projects is available.