The goals of the BioLabs group are to uncover the mechanisms underlying epigenetic regulation in humans and animals and to identify the role of these mechanisms in cell differentiation and aging. We are developing novel algorithms and methods for experimental data analysis, building scalable computational pipelines and tools, and working in collaboration with biologists on various aging studies.

Research projects

  • Epigenetic changes in aging human monocytes – joint research project dedicated to studying healthy human aging in collaboration with Maxim Artyomov’s laboratory at Washington University in St. Louis. The group creates bioinformatics pipelines and develops novel algorithms and methods for epigenetic data analysis.
  • Immune system aging - project, which studies immune system aging in mice and humans, applying single cell methods for comprehensive characterizing of cell populations development.
  • Longitudinal analysis of healthy human aging - study of healthy human aging, aiming to find major aging drivers from longitudinal multiomics data.

A full list of projects is available here.

Tools

  • SPAN Peak Analyzer – is a semi-supervised multipurpose peak caller capable of processing a broad range of ChIP-seq, ATAC-seq, and single-cell ATAC-seq datasets that robustly handles multiple replicates and noise by leveraging limited manual annotation information.
  • JBR Genome Browser – is a fast and reliable next-generation genome browser with enhanced capabilities of view-ing large sessions, semi-supervised peak and annotation functionality that is integrated with SPAN peak caller.
  • SnakeCharm – Snakemake workflow management system support plugin for IntelliJ Platform IDEs, adding syntax highlighting, code completion, on-the-fly code verifications and advanced integration with snakemake ecosystem.
  • Pubtrends – is a scientific publications exploratory tool capable of analysing intellectual structure of research field or similar papers analysis. We apply bibliometrics method for citations information and natural language processing algorithms for text analysis. Service allows to find most cited papers, explore topics, visualize citations and paper similary graphs, and generate automated literature reviews.

Source code

All the source code is available on GitHub.

Materials

Various presentations including journal club and talks are here.

Student Internship

News

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Publications