Publications
Complete publication list of Oleg Igoshin and the Cellular Systems Dynamics Lab at Rice University.
Lab members are shown in bold. Each title links to the paper. For citation metrics, see Google Scholar; the list is also on ORCID and PubMed.
112 publications
2026
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Once yearly cell-based therapy for sustained and dose-tunable delivery of monoclonal antibodies
Science Advances (2026) 12, eaej5440
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Quantum field theory approach for multistage chemical kinetics in liquids
Physical Review E (2026) 114, 034111
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First-In-Human Trial of Encapsulated Cells Constitutively Expressing Localized IL2 in Patients with High-Grade Serous Ovarian Carcinoma
Clinical Cancer Research (2026) 32, 3228–3242
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Unraveling discrimination strategies in biological error-correction networks
The Journal of Chemical Physics (2026) 164, 155101
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Biophysical Modeling Elucidates Mechanistic Principles for Rational Molecular Glue Design
Journal of Chemical Information and Modeling (2026)
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Deep learning framework for quantifying self-organization in Myxococcus xanthus
PNAS (2026) 123, e2532223123
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Collective RNAP Dynamics Link Transcriptional Strength to Fidelity
The Journal of Physical Chemistry Letters (2026)
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Effects of chemical modulators on enzyme specificity
The Journal of Physical Chemistry B (2026) 130, 1479–1489
2025
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Modeling σE biochemical network reveals context-dependent feedback control and kinetic constraints in the envelope stress responsePreprint
bioRxiv (2025)
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Factors influencing monoclonal antibody pharmacokinetics across varying immune perturbations
Journal of Controlled Release (2025) 114191
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Kinetic mechanisms for the sequence dependence of transcriptional errors
PNAS (2025) 122, e2505040122
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Changes in Spo0A~P pulsing frequency control biofilm matrix deactivation
PLOS Computational Biology (2025) 21, e1013263
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Kinetic Mechanism for Fidelity of CRISPR-Cas9 Variants
The Journal of Physical Chemistry Letters (2025) 5570–5578
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Biophysical modeling reveals the transcriptional regulatory mechanism of Spo0A, the master regulator in starving Bacillus subtilis
mSystems (2025) 10, e00072–25
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How does mathematical modeling improve our understanding and design of biological immunomodulators?
Therapeutic Delivery (2025) 16, 709–712
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The growth benefits and toxicity of quinone biosynthesis are balanced by a dual regulatory mechanism and substrate limitations
mBio (2025) 16, e00887–25
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Role of non-exponential reversal times in aggregation models of bacterial populations
Mathematical Biosciences (2025) 109418
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IL-12-producing cytokine factories induce precursor exhausted T cells and elimination of primary and metastatic tumors
Journal for ImmunoTherapy of Cancer (2025) 13, e010685
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Uncovering the interleukin-12 pharmacokinetic desensitization mechanism and its consequences with mathematical modeling
CPT: Pharmacometrics & Systems Pharmacology (2025) 14, 217–228
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Coarse-Graining Chemical Networks by Trimming to Preserve Energy Dissipation
The Journal of Physical Chemistry Letters (2025) 16, 1229–1237
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Uncovering dissipation from coarse observables: A case study of a random walk with unobserved internal states
The Journal of Chemical Physics (2025) 162, 034111
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On the existence of weak solutions for the kinetic models of the motion of myxobacteria with alignment and reversals
Kinetic and Related Models (2025) 18, 692–705
2024
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Genetic and Environmental Determinants of Streaming and Aggregation in Myxococcus xanthusPreprint
bioRxiv (2024)
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Breakdown of Boltzmann-type models for the alignment of self-propelled rods
Mathematical Biosciences (2024) 376, 109266
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Linear-Decoupling Enables Accurate Speed and Accuracy Predictions for Copolymerization Processes
The Journal of Physical Chemistry Letters (2024) 15, 9361–9368
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Insights into Error Control Mechanisms in Biological Processes: Copolymerization and Enzyme-Kinetics Revisited
The Journal of Physical Chemistry B (2024) 128, 5612–5622
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Beyond microtubules: The cellular environment at the endoplasmic reticulum attracts proteins to the nucleus, enabling nuclear transport
iScience (2024) 27, 109235
2023
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Cell behaviors underlying Myxococcus xanthus aggregate dispersal
mSystems (2023) 8, e00425–23
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The Slowdown of Growth Rate Controls the Single-Cell Distribution of Biofilm Matrix Production via an SinI-SinR-SlrR Network
mSystems (2023) e00622–22
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Synergy among Pausing, Intrinsic Proofreading, and Accessory Proteins Results in Optimal Transcription Speed and Tolerable Accuracy
The Journal of Physical Chemistry Letters (2023) 14, 3422–3429
2022
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Mean-field model for nematic alignment of self-propelled rods
Physical Review E (2022) 106, 034613
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The energy cost and optimal design of networks for biological discrimination
Journal of the Royal Society Interface (2022) 19
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Clinically translatable cytokine delivery platform for eradication of intraperitoneal tumors
Science Advances (2022) 8, eabm1032
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Bacillus subtilis Histidine Kinase KinC Activates Biofilm Formation by Controlling Heterogeneity of Single-Cell Responses
mBio (2022) 13, e01694–21
2021
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Bacteriophage self-counting in the presence of viral replication
PNAS (2021) 118, e2104163118
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Emergent myxobacterial behaviors arise from reversal suppression induced by kin contacts
mSystems (2021) 6, e00720–21
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Independent control of mean and noise by convolution of gene expression distributions
Nature Communications (2021) 12, 6957
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Quantification of Myxococcus xanthus Aggregation and Rippling Behaviors: Deep-Learning Transformation of Phase-Contrast into Fluorescence Microscopy Images
Microorganisms (2021) 9, 1954
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A synthetic circuit for buffering gene dosage variation between individual mammalian cells
Nature Communications (2021) 12, 1–13
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Theoretical Analysis Reveals the Cost and Benefit of Proofreading in Coronavirus Genome Replication
The Journal of Physical Chemistry Letters (2021) 12, 2691–2698
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Chaperone-Mediated Stress Sensing in Mycobacterium tuberculosis Enables Fast Activation and Sustained Response
mSystems (2021) 6, e00979–20
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Overlaid positive and negative feedback loops shape dynamical properties of PhoPQ two-component system
PLOS Computational Biology (2021) 17, e1008130
2020
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Metabolic stress promotes stop-codon readthrough and phenotypic heterogeneity
PNAS (2020) 117, 22167–22172
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Do We Understand the Mechanisms Used by Biological Systems to Correct Their Errors?
The Journal of Physical Chemistry B (2020)
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Data-Driven Models Reveal Mutant Cell Behaviors Important for Myxobacterial Aggregation
mSystems (2020)
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Trade-Offs between Speed, Accuracy, and Dissipation in tRNAIle Aminoacylation
The Journal of Physical Chemistry Letters (2020)
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Kinetic control of stationary flux ratios for a wide range of biochemical processes
PNAS (2020)
2019
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Optogenetic control of Bacillus subtilis gene expression
Nature Communications (2019) 10, 3099
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An Engineered B. subtilis Inducible Promoter System with over 10000-Fold Dynamic Range
ACS Synthetic Biology (2019) 8, 1673–1678
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Biophysics at the coffee shop: lessons learned working with George Oster
Molecular Biology of the Cell (2019) 30, 1882–1889
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Trade-Offs between Error, Speed, Noise, and Energy Dissipation in Biological Processes with Proofreading
The Journal of Physical Chemistry B (2019) 123, 4718–4725
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A synthetic system for asymmetric cell division in Escherichia coli
Nature Chemical Biology (2019) 15, 917–924
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Systematic analysis of the Myxococcus xanthus developmental gene regulatory network supports posttranslational regulation of FruA by C-signaling
Molecular Microbiology (2019) 111, 1732–1752
2018
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Dynamics of Bacterial Gene Regulatory Networks
Annual Review of Biophysics (2018) 47, 447–467
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Agent-Based Modeling Reveals Possible Mechanisms for Observed Aggregation Cell Behaviors
Biophysical Journal (2018) 115, 2499–2511
2017
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Accuracy of Substrate Selection by Enzymes Is Controlled by Kinetic Discrimination
The Journal of Physical Chemistry Letters (2017) 8, 1552–1556
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Elucidating interplay of speed and accuracy in biological error correction
PNAS (2017) 114, 5183–5188
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Data-driven modeling reveals cell behaviors controlling self-organization during Myxococcus xanthus development
PNAS (2017) 114, E4592–E4601
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Heterogeneity of Stop Codon Readthrough in Single Bacterial Cells and Implications for Population Fitness
Molecular Cell (2017) 67, 826–836 e5
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On the mechanism of long-range orientational order of fibroblasts
PNAS (2017) 114, 8974–8979
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Mechanism of Kin-Discriminatory Demarcation Line Formation between Colonies of Swarming Bacteria
Biophysical Journal (2017) 113, 2477–2486
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Modeling mechanical interactions in growing populations of rod-shaped bacteria
Physical Biology (2017) 14, 055001
2016
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Non-monotonic Response to Monotonic Stimulus: Regulation of Glyoxylate Shunt Gene-Expression Dynamics in Mycobacterium tuberculosis
PLOS Computational Biology (2016) 12, e1004741
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FlowCal: A User-Friendly, Open Source Software Tool for Automatically Converting Flow Cytometry Data from Arbitrary to Calibrated Units
ACS Synthetic Biology (2016) 5, 774–80
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Functional requirements of cellular differentiation: lessons from Bacillus subtilis
Current Opinion in Microbiology (2016) 34, 38–46
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Slowdown of growth controls cellular differentiation
Molecular Systems Biology (2016) 12, 871
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Role of Autoregulation and Relative Synthesis of Operon Partners in Alternative Sigma Factor Networks
PLOS Computational Biology (2016) 12, e1005267
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Colony Expansion of Socially Motile Myxococcus xanthus Cells Is Driven by Growth, Motility, and Exopolysaccharide Production
PLOS Computational Biology (2016) 12, e1005010
2015
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Mechanism for Collective Cell Alignment in Myxococcus xanthus Bacteria
PLOS Computational Biology (2015) 11, e1004474
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How to train your microbe: methods for dynamically characterizing gene networks
Current Opinion in Microbiology (2015) 24, 113–23
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The Psp system of Mycobacterium tuberculosis integrates envelope stress-sensing and envelope-preserving functions
Molecular Microbiology (2015) 97, 408–22
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Chromosomal Arrangement of Phosphorelay Genes Couples Sporulation and DNA Replication
Cell (2015) 162, 328–337
2014
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Myxococcus xanthus gliding motors are elastically coupled to the substrate as predicted by the focal adhesion model of gliding motility
PLOS Computational Biology (2014) 10, e1003619
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Tunable protease-activatable virus nanonodes
ACS Nano (2014) 8, 4740–6
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Unraveling the regulatory connections between two controllers of breast cancer cell fate
Nucleic Acids Research (2014) 42, 6839–49
2013
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Mathematical model of a gene regulatory network reconciles effects of genetic perturbations on hematopoietic stem cell emergence
Developmental Biology (2013) 379, 258–69
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Triggering sporulation in Bacillus subtilis with artificial two-component systems reveals the importance of proper Spo0A activation dynamics
Molecular Microbiology (2013) 90, 181–94
2012
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Ultrasensitivity of the Bacillus subtilis sporulation decision
PNAS (2012) 109, E3513–22
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Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization
PLOS Computational Biology (2012) 8, e1002672
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Coupling between feedback loops in autoregulatory networks affects bistability range, open-loop gain and switching times
Physical Biology (2012) 9, 055003
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The mechanistic basis of Myxococcus xanthus rippling behavior and its physiological role during predation
PLOS Computational Biology (2012) 8, e1002715
2011
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Non-transcriptional regulatory processes shape transcriptional network dynamics
Nature Reviews Microbiology (2011) 9, 817–28
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Bistable responses in bacterial genetic networks: designs and dynamical consequences
Mathematical Biosciences (2011) 231, 76–89
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Statistical image analysis reveals features affecting fates of Myxococcus xanthus developmental aggregates
PNAS (2011) 108, 5915–20
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Quantifying aggregation dynamics during Myxococcus xanthus development
Journal of Bacteriology (2011) 193, 5164–70
2010
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Dynamic disorder in quasi-equilibrium enzymatic systems
PLOS ONE (2010) 5, e12364
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Single-cell measurement of the levels and distributions of the phosphorelay components in a population of sporulating Bacillus subtilis cells
Microbiology (2010) 156, 2294–2304
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Thermodynamic models of combinatorial gene regulation by distant enhancers
IET Systems Biology (2010) 4, 393–408
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Modeling reveals bistability and low-pass filtering in the network module determining blood stem cell fate
PLOS Computational Biology (2010) 6, e1000771
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Adaptable functionality of transcriptional feedback in bacterial two-component systems
PLOS Computational Biology (2010) 6, e1000676
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The interplay of multiple feedback loops with post-translational kinetics results in bistability of mycobacterial stress response
Physical Biology (2010) 7, 036005
2009
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Dynamic disorder-driven substrate inhibition and bistability in a simple enzymatic reaction
The Journal of Physical Chemistry B (2009) 113, 13421–8
2008
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Hysteretic and graded responses in bacterial two-component signal transduction
Molecular Microbiology (2008) 68, 1196–215
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Transient heterogeneity in extracellular protease production by Bacillus subtilis
Molecular Systems Biology (2008) 4, 184
2007
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Distinctive topologies of partner-switching signaling networks correlate with their physiological roles
Journal of Molecular Biology (2007) 369, 1333–52
2006
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Signalling network with a bistable hysteretic switch controls developmental activation of the sigma transcription factor in Bacillus subtilis
Molecular Microbiology (2006) 61, 165–84
2004
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A biochemical oscillator explains several aspects of Myxococcus xanthus behavior during development
PNAS (2004) 101, 15760–5
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Breaking symmetry in myxobacteria
Current Biology (2004) 14, R459–62
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Developmental waves in myxobacteria: A distinctive pattern formation mechanism
Physical Review E (2004) 70, 41911
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Rippling of myxobacteria
Mathematical Biosciences (2004) 188, 221–33
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Waves and aggregation patterns in myxobacteria
PNAS (2004) 101, 4256–61
2003
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The motility of mollicutes
Biophysical Journal (2003) 85, 828–42
2001
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Pattern formation and traveling waves in myxobacteria: theory and modeling
PNAS (2001) 98, 14913–8
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Instantaneous and permanent photoionization
The Journal of Physical Chemistry A (2001) 105, 19–28
2000
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Differential approach to the memory-function reaction kinetics
Chemical Physics Letters (2000) 317, 481–489
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Impurity quenching of fluorescence in intense light. Violation of the Stern-Volmer law
The Journal of Chemical Physics (2000) 112, 10930–10940
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Quenching of fluorescence by irreversible energy transfer at arbitrary strong pumping light
Journal of Luminescence (2000) 92, 123–132
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The effect of chemical displacement of B species in the reaction A + B → B
Physica A: Statistical Mechanics and its Applications (2000) 275, 99–133
1999
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Photoconductivity and singlet oxygen generation in illuminated polymer in the air atmosphere
The Journal of Chemical Physics (1999) 111, 2200–2209
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Many-particle treatment of nonuniform reacting systems A+B → C and A+B → C+D in liquid solutions
Chemical Physics (1999) 244, 371–385
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A new approach to the derivation of binary non-Markovian kinetic equations
Physica A: Statistical Mechanics and its Applications (1999) 268, 567–606
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Integral, unified and Markovian theories of biexcitonic photoionization
Chemical Physics (1999) 247, 261–273
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