Pavel Skums

Orcid: 0000-0003-4007-5624

According to our database1, Pavel Skums authored at least 71 papers between 2005 and 2024.

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Bibliography

2024
Community Structure and Temporal Dynamics of Viral Epistatic Networks Allow for Early Detection of Emerging Variants with Altered Phenotypes.
Proceedings of the Research in Computational Molecular Biology, 2024

2023
<i>Special Issue, Part 2</i> 18th International Symposium on Bioinformatics Research and Applications (ISBRA 2022).
J. Comput. Biol., September, 2023

<i>Special Issue, Part I</i> 18th International Symposium on Bioinformatics Research and Applications (ISBRA 2022).
J. Comput. Biol., August, 2023

Special Issue: 11th International Computational Advances in Bio and Medical Sciences (ICCABS 2021).
J. Comput. Biol., April, 2023

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
IEEE ACM Trans. Comput. Biol. Bioinform., 2023

Graph-Based Motif Discovery in Mimotope Profiles of Serum Antibody Repertoire.
Proceedings of the Bioinformatics Research and Applications - 19th International Symposium, 2023

2022
Computational Approaches to Detect Illicit Drug Ads and Find Vendor Communities Within Social Media Platforms.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
IEEE ACM Trans. Comput. Biol. Bioinform., 2022

17th International Symposium on Bioinformatics Research and Applications (ISBRA 2021).
J. Comput. Biol., 2022

Primary case inference in viral outbreaks through analysis of intra-host variant population.
BMC Bioinform., 2022

SOPHIE: Viral Outbreak Investigation and Transmission History Reconstruction in a Joint Phylogenetic and Network Theory Framework.
Proceedings of the Research in Computational Molecular Biology, 2022

2021
Scale-Free Spanning Trees and Their Application in Genomic Epidemiology.
J. Comput. Biol., 2021

Scalable Reconstruction of SARS-CoV-2 Phylogeny with Recurrent Mutations.
J. Comput. Biol., 2021

From Alpha to Zeta: Identifying Variants and Subtypes of SARS-CoV-2 Via Clustering.
J. Comput. Biol., 2021

Special Issue: 9th International Computational Advances in Bio and Medical Sciences (ICCABS 2019).
J. Comput. Biol., 2021

Special Issue: 10th International Computational Advances in Bio and Medical Sciences (ICCABS 2020).
J. Comput. Biol., 2021

Special Issue: 16th International Symposium on Bioinformatics Research and Applications (ISBRA 2020).
J. Comput. Biol., 2021

Epidemiological data analysis of viral quasispecies in the next-generation sequencing era.
Briefings Bioinform., 2021

A Novel Network Representation of SARS-CoV-2 Sequencing Data.
Proceedings of the Bioinformatics Research and Applications - 17th International Symposium, 2021

2020
Inference of mutability landscapes of tumors from single cell sequencing data.
PLoS Comput. Biol., 2020

Preface Special Issue: 15th International Symposium on Bioinformatics Research and Applications (ISBRA 2019).
J. Comput. Biol., 2020

Graph fractal dimension and the structure of fractal networks.
J. Complex Networks, 2020

Clustering Based Identification of SARS-CoV-2 Subtypes.
Proceedings of the Computational Advances in Bio and Medical Sciences, 2020


2019
Guest Editors' Introduction to the Special Section on Bioinformatics Research and Applications.
IEEE ACM Trans. Comput. Biol. Bioinform., 2019

12 Grand Challenges in Single-Cell Data Science.
PeerJ Prepr., 2019

Preface: 14th International Symposium on Bioinformatics Research and Applications (ISBRA 2018).
J. Comput. Biol., 2019

Graph fractal dimension and structure of fractal networks: a combinatorial perspective.
CoRR, 2019

Inference of clonal selection in cancer populations using single-cell sequencing data.
Bioinform., 2019

Python Scrapers for Scraping Cryptomarkets on Tor.
Proceedings of the Security, Privacy, and Anonymity in Computation, Communication, and Storage, 2019

Characteristics of Bitcoin Transactions on Cryptomarkets.
Proceedings of the Security, Privacy, and Anonymity in Computation, Communication, and Storage, 2019

Detecting Illicit Drug Ads in Google+ Using Machine Learning.
Proceedings of the Bioinformatics Research and Applications - 15th International Symposium, 2019

Workshop on Computational Advances in Molecular Epidemiology.
Proceedings of the 10th ACM International Conference on Bioinformatics, 2019

2018
<i>Special Issue</i>Preface: 13th International Symposium on BioinformaticsResearch and Applications (ISBRA 2017).
J. Comput. Biol., 2018

Fast estimation of genetic relatedness between members of heterogeneous populations of closely related genomic variants.
BMC Bioinform., 2018

QUENTIN: reconstruction of disease transmissions from viral quasispecies genomic data.
Bioinform., 2018

Predicting Opioid Epidemic by Using Twitter Data.
Proceedings of the Bioinformatics Research and Applications - 14th International Symposium, 2018

ACM-BCB 2018 Computational Advances in Molecular Epidemiology (CAME) Chairs' Welcome.
Proceedings of the 2018 ACM International Conference on Bioinformatics, 2018

2017
Modeling the Spread of HIV and HCV Infections Based on Identification and Characterization of High-Risk Communities Using Social Media.
Proceedings of the Bioinformatics Research and Applications - 13th International Symposium, 2017

Agent-Based in Silico Evolution of HCV Quasispecies.
Proceedings of the Bioinformatics Research and Applications - 13th International Symposium, 2017

Efficient filtering algorithm for detection of genetic similarity between large genomic datasets.
Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017

Assessment of HCV infection stage as recent or chronic using multi-parameter analysis and machine learning.
Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017

Classification of HCV infections through sequence image normalization.
Proceedings of the 7th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2017

CAME 2017: 6th Workshop on Computational Advances in Molecular Epidemiology.
Proceedings of the 8th ACM International Conference on Bioinformatics, 2017

2015
Computational framework for next-generation sequencing of heterogeneous viral populations using combinatorial pooling.
Bioinform., 2015

Algorithms for prediction of viral transmission using analysis of intra-host viral populations.
Proceedings of the 5th IEEE International Conference on Computational Advances in Bio and Medical Sciences, 2015

2014
Detection of genetic relatedness between viral samples using EM-based clustering of next-generation sequencing data.
Proceedings of the IEEE 4th International Conference on Computational Advances in Bio and Medical Sciences, 2014

New computational methods for assessing the genetic relatedness of close viral variants.
Proceedings of the IEEE 4th International Conference on Computational Advances in Bio and Medical Sciences, 2014

2013
Krausz dimension and its generalizations in special graph classes.
Discret. Math. Theor. Comput. Sci., 2013

<i>H</i>H-product of graphs, <i>H</i>H-threshold graphs and threshold-width of graphs.
Discret. Math., 2013

Reconstruction of viral population structure from next-generation sequencing data using multicommodity flows.
BMC Bioinform., 2013

Alignment of DNA Mass-Spectral Profiles Using Network Flows.
Proceedings of the Bioinformatics Research and Applications, 9th International Symposium, 2013

Optimizing pooling strategies for the massive next-generation sequencing of viral samples.
Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

Computational analysis and modelling of intra-host adaptation of hepatitis C virus: The role of immune cross-reactivity of HCV quasispecies.
Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

Estimation of viral population structure from amplicon-based reads.
Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

Mutational robustness of hepatitis C virus intra-host variants.
Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

kGEM: An EM-based algorithm for local reconstruction of viral quasispecies.
Proceedings of the IEEE 3rd International Conference on Computational Advances in Bio and Medical Sciences, 2013

2012
Numerical detection, measuring and analysis of differential interferon resistance for individual HCV intra-host variants and its influence on the therapy response.
Silico Biol., 2012

Reconstructing viral quasispecies from NGS amplicon reads.
Silico Biol., 2012

Evaluation of viral heterogeneity using next-generation sequencing, end-point limiting-dilution and mass spectrometry.
Silico Biol., 2012

Efficient error correction for next-generation sequencing of viral amplicons.
BMC Bioinform., 2012

Workshop: A maximum likelihood method for quasispecies spectrum assembly.
Proceedings of the IEEE 2nd International Conference on Computational Advances in Bio and Medical Sciences, 2012

2011
Modelling differential interferon resistance of HCV quasispecies.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011

Viral quasispecies reconstruction from amplicon 454 pyrosequencing reads.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011

Assessments of intra- and inter-host diversity of hepatitis C virus using Next Generation Sequencing and Mass spectrometry.
Proceedings of the 2011 IEEE International Conference on Bioinformatics and Biomedicine Workshops, 2011

2007
Bipartite operator decomposition of graphs and the reconstruction conjecture.
Electron. Notes Discret. Math., 2007

Operator Decomposition of Graphs and the Reconstruction Conjecture.
Electron. Notes Discret. Math., 2007

2006
Reconstruction of graphs with special homogeneous sets.
Electron. Notes Discret. Math., 2006

Squares of Intersection Graphs and Induced Matchings.
Electron. Notes Discret. Math., 2006

2005
Edge intersection graphs of linear 3-uniform hypergraphs.
Electron. Notes Discret. Math., 2005


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