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Analysis of two mechanisms of telomere maintenance based on the theory of g-Networks and stochastic automata networks

BMC genomics, 2020-09, Vol.21 (Suppl 9), p.587-587, Article 587

2020

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Cell fate in antiviral response arises in the crosstalk of IRF, NF-κB and JAK/STAT pathways

Nature communications, 2018-02, Vol.9 (1), p.493-14, Article 493

2018

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Bioinformatics

1, 2007

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Chronic Infection Depletes Hematopoietic Stem Cells through Stress-Induced Terminal Differentiation

Cell reports (Cambridge), 2016-12, Vol.17 (10), p.2584-2595

2016

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Factors influencing ascertainment bias of microsatellite allele sizes: impact on estimates of mutation rates

Genetics (Austin), 2013-10, Vol.195 (2), p.563-572

2013

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Prediction of missense mutation functionality depends on both the algorithm and sequence alignment employed

Human mutation, 2011-06, Vol.32 (6), p.661-668

2011

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Mathematical model predicts response to chemotherapy in advanced non-resectable non-small cell lung cancer patients treated with platinum-based doublet

PLoS computational biology, 2020-10, Vol.16 (10), p.e1008234

2020

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Detection and characterization of constitutive replication origins defined by DNA polymerase epsilon

BMC biology, 2023-02, Vol.21 (1), p.41-41, Article 41

2023

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Genomic Analysis of SARS-CoV-2 Alpha, Beta and Delta Variants of Concern Uncovers Signatures of Neutral and Non-Neutral Evolution

Viruses, 2022-10, Vol.14 (11), p.2375

2022

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Correction: Kurpas et al. Genomic Analysis of SARS-CoV-2 Alpha, Beta and Delta Variants of Concern Uncovers Signatures of Neutral and Non-Neutral Evolution. Viruses 2022, 14 , 2375

Viruses, 2023-04, Vol.15 (5), p.1047

2023

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Mathematical modelling reveals unexpected inheritance and variability patterns of cell cycle parameters in mammalian cells

PLoS computational biology, 2019-06, Vol.15 (6), p.e1007054-e1007054

2019

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Evolutionary action and structural basis of the allosteric switch controlling β2AR functional selectivity

Nature communications, 2017-12, Vol.8 (1), p.1-12, Article 2169

2017

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Interferon Gamma Mediates Hematopoietic Stem Cell Activation and Niche Relocalization through BST2

Cell reports (Cambridge), 2020-12, Vol.33 (12), p.108530-108530, Article 108530

2020

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Modes of Selection in Tumors as Reflected by Two Mathematical Models and Site Frequency Spectra

Frontiers in ecology and evolution, 2022-08, Vol.10

2022

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Coalescence computations for large samples drawn from populations of time-varying sizes

PloS one, 2017-02, Vol.12 (2), p.e0170701-e0170701

2017

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NF-κB and IRF pathways: cross-regulation on target genes promoter level

BMC genomics, 2015-04, Vol.16 (1), p.307-307, Article 307

2015

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RRAD, IL4I1, CDKN1A, and SERPINE1 genes are potentially co-regulated by NF-κB and p53 transcription factors in cells exposed to high doses of ionizing radiation

BMC genomics, 2018-11, Vol.19 (1), p.813-13, Article 813

2018

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Impact of Reduced Tobacco Smoking on Lung Cancer Mortality in the United States During 1975―2000

JNCI : Journal of the National Cancer Institute, 2012-04, Vol.104 (7), p.541-548

2012

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Application of the Moran Model in Estimating Selection Coefficient of Mutated CSF3R Clones in the Evolution of Severe Congenital Neutropenia to Myeloid Neoplasia

Frontiers in physiology, 2020-09, Vol.11, p.806-806

2020

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Evolutionary Action Score of TP53 Coding Variants Is Predictive of Platinum Response in Head and Neck Cancer Patients

Cancer research (Chicago, Ill.), 2015-04, Vol.75 (7), p.1205-1215

2015

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Loss of LPAR6 and CAB39L dysregulates the basal-to-luminal urothelial differentiation program, contributing to bladder carcinogenesis

Cell reports (Cambridge), 2024-05, Vol.43 (5), p.114146-114146, Article 114146

2024

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Mutation, drift and selection in single-driver hematologic malignancy: Example of secondary myelodysplastic syndrome following treatment of inherited neutropenia

PLoS computational biology, 2019-01, Vol.15 (1), p.e1006664-e1006664

2019

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Pro-inflammatory cytokine and high doses of ionizing radiation have similar effects on the expression of NF-kappaB-dependent genes

Cellular signalling, 2018-06, Vol.46, p.23-31

2018

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Evolution and cancer: a mathematical biology approach

Biology direct, 2010-04, Vol.5 (1), p.29-29

Kimmel, Marek

2010

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A mathematical model as a tool to identify microRNAs with highest impact on transcriptome changes

BMC genomics, 2019-02, Vol.20 (1), p.114-114, Article 114

2019

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Analysis of two mechanisms of telomere maintenance based on the theory of g-Networks and stochastic automata networks

Cell fate in antiviral response arises in the crosstalk of IRF, NF-κB and JAK/STAT pathways

Bioinformatics

Chronic Infection Depletes Hematopoietic Stem Cells through Stress-Induced Terminal Differentiation

Factors influencing ascertainment bias of microsatellite allele sizes: impact on estimates of mutation rates

Prediction of missense mutation functionality depends on both the algorithm and sequence alignment employed

Mathematical model predicts response to chemotherapy in advanced non-resectable non-small cell lung cancer patients treated with platinum-based doublet

Detection and characterization of constitutive replication origins defined by DNA polymerase epsilon

Genomic Analysis of SARS-CoV-2 Alpha, Beta and Delta Variants of Concern Uncovers Signatures of Neutral and Non-Neutral Evolution

Correction: Kurpas et al. Genomic Analysis of SARS-CoV-2 Alpha, Beta and Delta Variants of Concern Uncovers Signatures of Neutral and Non-Neutral Evolution. Viruses 2022, 14 , 2375

Mathematical modelling reveals unexpected inheritance and variability patterns of cell cycle parameters in mammalian cells

Evolutionary action and structural basis of the allosteric switch controlling β2AR functional selectivity

Interferon Gamma Mediates Hematopoietic Stem Cell Activation and Niche Relocalization through BST2

Modes of Selection in Tumors as Reflected by Two Mathematical Models and Site Frequency Spectra

Coalescence computations for large samples drawn from populations of time-varying sizes

NF-κB and IRF pathways: cross-regulation on target genes promoter level

RRAD, IL4I1, CDKN1A, and SERPINE1 genes are potentially co-regulated by NF-κB and p53 transcription factors in cells exposed to high doses of ionizing radiation

Impact of Reduced Tobacco Smoking on Lung Cancer Mortality in the United States During 1975―2000

Application of the Moran Model in Estimating Selection Coefficient of Mutated CSF3R Clones in the Evolution of Severe Congenital Neutropenia to Myeloid Neoplasia

Evolutionary Action Score of TP53 Coding Variants Is Predictive of Platinum Response in Head and Neck Cancer Patients

Loss of LPAR6 and CAB39L dysregulates the basal-to-luminal urothelial differentiation program, contributing to bladder carcinogenesis

Mutation, drift and selection in single-driver hematologic malignancy: Example of secondary myelodysplastic syndrome following treatment of inherited neutropenia

Pro-inflammatory cytokine and high doses of ionizing radiation have similar effects on the expression of NF-kappaB-dependent genes

Evolution and cancer: a mathematical biology approach

A mathematical model as a tool to identify microRNAs with highest impact on transcriptome changes

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