Population level assessment of disease associated genetic variants with emphasis on Armenians (supplementary datasets)

This supplementary dataset contains complete results of the analysis of disease associated SNPs distribution across geographic regions.

  1. SNP_SOM_all_populations.zip - an archive with the results of SOM-portrayal of geographical diversity of disease-associated SNPs

  2. SNP_zoomSOM_armenians.zip - an archive with the results of SOM-portrayal of geographical diversity of disease-associated SNPs of selected populations from Europe, Middle East, Central-South Asia and Armenians.

Creator: Arsen Arakelyan

Submitter: Arsen Arakelyan

External Link
The Evolving Faces of the SARS-CoV-2 Genome

Abstract (Expand)

Surveillance of the evolving SARS-CoV-2 genome combined with epidemiological monitoring and emerging vaccination became paramount tasks to control the pandemic which is rapidly changing in time and … space. Genomic surveillance must combine generation and sharing sequence data with appropriate bioinformatics monitoring and analysis methods. We applied molecular portrayal using self-organizing maps machine learning (SOM portrayal) to characterize the diversity of the virus genomes, their mutual relatedness and development since the beginning of the pandemic. The genetic landscape obtained visualizes the relevant mutations in a lineage-specific fashion and provides developmental paths in genetic state space from early lineages towards the variants of concern alpha, beta, gamma and delta. The different genes of the virus have specific footprints in the landscape reflecting their biological impact. SOM portrayal provides a novel option for ‘bioinformatics surveillance’ of the pandemic, with strong odds regarding visualization, intuitive perception and ‘personalization’ of the mutational patterns of the virus genomes.

Authors: Maria Schmidt, Mamoona Arshad, Stephan H. Bernhart, Siras Hakobyan, Arsen Arakelyan, Henry Loeffler-Wirth, Hans Binder

Date Published: 3rd Sep 2021

Publication Type: Journal

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