- Computational Biologist. Ph.D. in Medical Genetics, University of British Columbia.
- Contact: artem[AT]rRNA.ca
Bioinformatics is not one-size-fits all. First and foremost I am a biologist, which means I can understand your biological question and help you find and implement the correct computational solution suited to your needs.
My specialisation is in RNA biology, human genetics and transposable element biology. I am currently working on intra-species sequence variation of ribosomal RNA, in particular oncogenic ribosomal variants.
- Loss of macpPsi ribosomal RNA modification is a major feature of cancer. Pre-print
- LIONS: analysis suite for detecting and quantifying transposable element initiated transcription from RNA-seq. Bioinformatics
- bioSyntax: syntax highlighting for computational biology*. BMC Bioinformatics
- Endogenous retroviral promoter exaptation in human cancer*. Mobile DNA
- Onco-exaptation of an endogenous retroviral LTR drives IRF5 expression in Hodgkin lymphoma. Oncogene
- Distinct isoform of FABP7 revealed by screening for retroelement-activated genes in diffuse large B-cell lymphoma. PNAS
I specialize in developing custom-analysis which require biological/biochemical insight into the underlying proccesses. If you have a custom project or need a standard analysis done accurately, I can help.
- NGS Quality Control
- DNA-seq: Alignment, standard and polyploidy variant calling
- RNA-seq: Ab initio assembly and differential expression
- Ribo-seq: QC, alignment and translational quantification
- RNA-Mod-seq: DMS-seq and similar
- Parallel/Cloud computing pipelines (
qstat,AWS,) - Data visualization