Discrete-state stochastic kinetic models for target DNA search by proteins: Theory and experimental applications
J Iwahara, AB Kolomeisky - Biophysical chemistry, 2021 - Elsevier
To perform their functions, transcription factors and DNA-repair/modifying enzymes
randomly search DNA in order to locate their specific targets on DNA. Discrete-state …
randomly search DNA in order to locate their specific targets on DNA. Discrete-state …
How pioneer transcription factors search for target sites on nucleosomal DNA
All major biological processes start after protein molecules known as transcription factors
detect specific regulatory sequences on DNA and initiate genetic expression by associating …
detect specific regulatory sequences on DNA and initiate genetic expression by associating …
Dynamical phase transition in the first-passage probability of a Brownian motion
B Besga, F Faisant, A Petrosyan, S Ciliberto… - Physical Review E, 2021 - APS
We study the first-passage time distribution (FPTD) F (tf| x 0, L) for a freely diffusing particle
starting at x 0 in one dimension, to a target located at L, averaged over the initial position x 0 …
starting at x 0 in one dimension, to a target located at L, averaged over the initial position x 0 …
Particle-environment interactions in arbitrary dimensions: A unifying analytic framework to model diffusion with inert spatial heterogeneities
S Sarvaharman, L Giuggioli - Physical Review Research, 2023 - APS
Inert interactions between randomly moving entities and spatial disorder play a crucial role
in quantifying the diffusive properties of a system, with examples ranging from molecules …
in quantifying the diffusive properties of a system, with examples ranging from molecules …
Self-assembly synthesis of diorganotin complexes based on arylformylhydrazone possessing ONO donor set: anticancer activity and mechanism
W Jiang, Z Zhang, P Ni, Y Tan - Metallomics, 2022 - academic.oup.com
Fourteen new organotin (IV) complexes were successfully synthesized and characterized by
elemental analyses, Fourier transform infrared spectroscopy (FT-IR), multinuclear (1H, 13C …
elemental analyses, Fourier transform infrared spectroscopy (FT-IR), multinuclear (1H, 13C …
DNA looping and DNA conformational fluctuations can accelerate protein target search
Protein searching and binding to specific sites on DNA is a fundamentally important process
that marks the beginning of all major cellular transformations. While the dynamics of protein …
that marks the beginning of all major cellular transformations. While the dynamics of protein …
Closed-form solutions to the dynamics of confined biased lattice random walks in arbitrary dimensions
S Sarvaharman, L Giuggioli - Physical Review E, 2020 - APS
Biased lattice random walks (BLRW) are used to model random motion with drift in a variety
of empirical situations in engineering and natural systems such as phototaxis, chemotaxis …
of empirical situations in engineering and natural systems such as phototaxis, chemotaxis …
Synthesis, crystal structures, and biological activity of aroylhydrazone di-m-chlorobenzyltin complexes
W Jiang, P Zhou, L Chen, W Fu, Y Tan - JBIC Journal of Biological …, 2024 - Springer
Six aroylhydrazone di-m-chlorobenzyltin complexes {[X-C6H4 (O) C= N–N= C (Me)
COO](MeOH)(m-Cl-C6H4CH2) 2Sn} 2 (X= p-Me-(1), p-MeO-(2), p–t-Bu-(3), p-NO2-(4), p-OH …
COO](MeOH)(m-Cl-C6H4CH2) 2Sn} 2 (X= p-Me-(1), p-MeO-(2), p–t-Bu-(3), p-NO2-(4), p-OH …
Survival probability and position distribution of a run and tumble particle in potential with an absorbing boundary
SK Nath, S Sabhapandit - arXiv preprint arXiv:2405.18988, 2024 - arxiv.org
We study the late time exponential decay of the survival probability $ S_\pm (t, a| x_0)\sim
e^{-\theta (a) t} $, of a one-dimensional run and tumble particle starting from $ x_0< a $ with …
e^{-\theta (a) t} $, of a one-dimensional run and tumble particle starting from $ x_0< a $ with …
[PDF][PDF] Quantifying stochastic search: a unifying approach via lattice random walks
S Sarvaharman - 2023 - research-information.bris.ac.uk
Stochastic search plays a crucial role in many natural and artificial phenomena across
scales and disciplines. Examples range from the spread of misinformation in online social …
scales and disciplines. Examples range from the spread of misinformation in online social …