Articles by Pavel Skums

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SARS-CoV-2 Wastewater Genomic Surveillance: Approaches, Challenges, and Opportunities

2 March 2025 by Viorel Munteanu and others

Genomics

A rigorous benchmarking of methods for SARS-CoV-2 lineage abundance estimation in wastewater

22 January 2024 by Viorel Munteanu and others at

University of Southern California

Genomics

Antigenic cooperation in Viral Populations: Transformation of Functions of Intra-Host Viral Variants

5 April 2023 by Leonid Bunimovich and others

Populations and Evolution, Dynamical Systems

SOPHIE: viral outbreak investigation and transmission history reconstruction in a joint phylogenetic and network theory framework

19 October 2022 by Pavel Skums and others at

Georgia State University

Bioinformatics

An investigation of spatial-temporal patterns and predictions of the COVID-19 pandemic in Colombia, 2020-2021

4 March 2022 by Anoshka Tariq and others at

Georgia State University

Epidemiology

Primary case inference in viral outbreaks through analysis of intra-host variant population

8 February 2022 by J. Gussler and others at

Centers for Disease Control and Prevention

Bioinformatics

From Alpha to Zeta: Identifying variants and subtypes of SARS-CoV-2 via clustering

26 October 2021 by Andrii Melnyk and others at

Georgia State University

Bioinformatics

Investigating the first wave of the COVID-19 pandemic in Ukraine using epidemiological and genomic sequencing data

27 September 2021 by Yuriy Gankin and others at

Georgia State University

Epidemiology

SARS-CoV-2 transmission dynamics in Belarus revealed by genomic and incidence data analysis

16 September 2021 by A. Nemira and others at

Georgia State University

Epidemiology

Transmission dynamics and forecasts of the COVID-19 pandemic in Mexico, March 20-November 11, 2020.

21 July 2021 by Anoshka Tariq and others

Epidemiology

CliqueSNV: Scalable Reconstruction of Intra-Host Viral Populations from NGS Reads

18 June 2021 by Sergey Knyazev and others at

Georgia State University

Bioinformatics

Unlocking capacities of viral genomics for the COVID-19 pandemic response

4 May 2021 by Sergey Knyazev and others

Genomics, Populations and Evolution

Development of an interactive, agent-based local stochastic model of COVID-19 transmission and evaluation of mitigation strategies illustrated for the state of Massachusetts, USA

17 February 2021 by A. Kirpich and others

Epidemiology

Quantitative differences between intra-host HCV populations from persons with recently established and persistent infections

30 December 2020 by P. B. Icer Baykal and others at

Georgia State University

Bioinformatics

Analysis of Heterogeneous Genomic Samples Using Image Normalization and Machine Learning

21 December 2020 by Sunitha Basodi and others

Bioinformatics

Using Earth Mover’s Distance for Viral Outbreak Investigations

16 December 2020 by Andrii Melnyk and others at

Georgia State University

Bioinformatics

Scale-free spanning trees: complexity, bounds and algorithms

27 May 2020 by Yury Orlovich and others

Combinatorics

Technology dictates algorithms: Recent developments in read alignment

14 April 2020 by Mohammed Alser and others

Genomics, Quantitative Methods

Graph fractal dimension and structure of fractal networks: a combinatorial perspective

23 December 2019 by Pavel Skums and Leonid Bunimovich

Combinatorics, Discrete Mathematics

Inference of clonal selection in cancer populations using single-cell sequencing data

9 May 2019 by V. Tsivina and others at

Georgia State University

Bioinformatics

Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants

22 October 2018 by V. Tsyvina and others at

Georgia State University

Bioinformatics

Graph Hausdorff dimension, Kolmogorov complexity and construction of fractal graphs

23 July 2016 by Leonid Bunimovich and Pavel Skums

Combinatorics

Krausz dimension and its generalizations in special graph classes

18 July 2011 by Olga Glebova and others

Combinatorics

H-product and H-threshold graphs

11 June 2011 by Pavel Skums at

Centers for Disease Control and Prevention

Combinatorics

Reconstruction of p-disconnected graphs

25 April 2008 by Pavel Skums

Combinatorics

Topics

Bioinformatics Combinatorics Epidemiology Genomics Populations and Evolution Dynamical Systems Quantitative Methods Discrete Mathematics Social and Information Networks General Topology Molecular Networks