Publications by authors named "Alexander Spirov"

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Languages of Hereditary Information Unfolding in Development: Linguistic Analogies and Semiotic Aspects.
Alexander Spirov

Biosystems· October 2025

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Body plan evolvability: The role of variability in gene regulatory networks.
Alexander V Spirov, Ekaterina M Myasnikova, David M Holloway

J Bioinform Comput Biol· June 2024

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Evolution of the RNA world: From signals to codes.
Alexander Spirov

Biosystems· December 2023

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Problem of Domain/Building Block Preservation in the Evolution of Biological Macromolecules and Evolutionary Computation.
Alexander V Spirov, Ekaterina M Myasnikova

IEEE/ACM Trans Comput Biol Bioinform· April 2023

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Heuristic algorithms in evolutionary computation and modular organization of biological macromolecules: Applications to in vitro evolution.
Alexander V Spirov, Ekaterina M Myasnikova

PLoS One· February 2022

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Quantification reveals early dynamics in Drosophila maternal gradients.
Alex Shlemov, Theodore Alexandrov, Nina Golyandina, David Holloway, Stefan Baumgartner, Alexander V Spirov

PLoS One· November 2021

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Quantitative Analysis of the Dynamics of Maternal Gradients in the Early Drosophila Embryo.
Ekaterina M Myasnikova, Marat A Sabirov, Alexander V Spirov

J Comput Biol· August 2021

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Modeling SELEX for regulatory regions using Royal Road and Royal Staircase fitness functions.
Anton V Eremeev, Alexander V Spirov

Biosystems· February 2021

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Gene regulatory networks in Drosophila early embryonic development as a model for the study of the temporal identity of neuroblasts.
Ekaterina Myasnikova, Alexander Spirov

Biosystems· November 2020

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Noise model estimation with application to gene expression.
Polina Zhornikova, Nina Golyandina, Alexander Spirov

J Bioinform Comput Biol· April 2019

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Two-Exponential Models of Gene Expression Patterns for Noisy Experimental Data.
Theodore Alexandrov, Nina Golyandina, David Holloway, Alex Shlemov, Alexander Spirov

J Comput Biol· November 2018

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Robustness of expression pattern formation due to dynamic equilibrium in gap gene system of an early Drosophila embryo.
Ekaterina Myasnikova, Alexander Spirov

Biosystems· April 2018

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Relative sensitivity analysis of the predictive properties of sloppy models.
Ekaterina Myasnikova, Alexander Spirov

J Bioinform Comput Biol· April 2018

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Correction: Cortical movement of Bicoid in early Drosophila embryos is actin- and microtubule-dependent and disagrees with the SDD diffusion model.
Xiaoli Cai, Mira Akber, Alexander Spirov, Stefan Baumgartner

PLoS One· April 2018

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Cortical movement of Bicoid in early Drosophila embryos is actin- and microtubule-dependent and disagrees with the SDD diffusion model.
Xiaoli Cai, Mira Akber, Alexander Spirov, Stefan Baumgartner

PLoS One· October 2017

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Transcriptional bursting in Drosophila development: Stochastic dynamics of eve stripe 2 expression.
David M Holloway, Alexander V Spirov

PLoS One· September 2017

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Shaped 3D singular spectrum analysis for quantifying gene expression, with application to the early zebrafish embryo.
Alex Shlemov, Nina Golyandina, David Holloway, Alexander Spirov

Biomed Res Int· August 2016

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Sequential construction of a model for modular gene expression control, applied to spatial patterning of the Drosophila gene hunchback.
Alexander V Spirov, Ekaterina M Myasnikova, David M Holloway

J Bioinform Comput Biol· April 2016

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Shaped singular spectrum analysis for quantifying gene expression, with application to the early Drosophila embryo.
Alex Shlemov, Nina Golyandina, David Holloway, Alexander Spirov

Biomed Res Int· February 2016

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Mid-embryo patterning and precision in Drosophila segmentation: Krüppel dual regulation of hunchback.
David M Holloway, Alexander V Spirov

PLoS One· December 2015

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Forced evolution by artificial transposons and their genetic operators: The ant navigation problem.
Leonid Zamdborg, David M Holloway, Juan J Merelo, Vladimir F Levchenko, Alexander V Spirov

Inf Sci (N Y)· June 2015

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In silico evolution of the hunchback gene indicates redundancy in cis-regulatory organization and spatial gene expression.
Elizaveta A Zagrijchuk, Marat A Sabirov, David M Holloway, Alexander V Spirov

J Bioinform Comput Biol· April 2014

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In silico evolution of gene cooption in pattern-forming gene networks.
Alexander V Spirov, Marat A Sabirov, David M Holloway

ScientificWorldJournal· July 2013

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Using evolutionary computations to understand the design and evolution of gene and cell regulatory networks.
Alexander Spirov, David Holloway

Methods· July 2013

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Modeling the evolution of gene regulatory networks for spatial patterning in embryo development.
Alexander V Spirov, David M Holloway

Procedia Comput Sci· January 2013

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