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Article ; Online: Conformation and dynamics of partially active linear polymers.

Vatin, Marin / Kundu, Sumanta / Locatelli, Emanuele

2024 Volume 20, Issue 8, Page(s) 1892–1904

Abstract: We perform numerical simulations of isolated, partially active polymers, driven out-of-equilibrium by a fraction of their monomers. We show that, if the active beads are all gathered in a contiguous block, the position of the section along the chain ... ...

Abstract	We perform numerical simulations of isolated, partially active polymers, driven out-of-equilibrium by a fraction of their monomers. We show that, if the active beads are all gathered in a contiguous block, the position of the section along the chain determines the conformational and dynamical properties of the system. Notably, one can modulate the diffusion coefficient of the polymer from active-like to passive-like just by changing the position of the active block. Further, we show that a slight modification of the self-propulsion rule may give rise to an enhancement of diffusion under certain conditions, despite a decrease of the overall polymer activity. Our findings may help in the modelisation of active biophysical systems, such as filamentous bacteria or worms.
Language	English
Publishing date	2024-02-21
Publishing country	England
Document type	Journal Article
ZDB-ID	2191476-X
ISSN	1744-6848 ; 1744-683X
ISSN (online)	1744-6848
ISSN	1744-683X
DOI	10.1039/d3sm01162c
Database	MEDical Literature Analysis and Retrieval System OnLINE

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Article ; Online: Inequality of avalanche sizes in models of fracture.

Diksha / Kundu, Sumanta / Chakrabarti, Bikas K / Biswas, Soumyajyoti

Physical review. E

2023 Volume 108, Issue 1-1, Page(s) 14103

Abstract: Prediction of an imminent catastrophic event in a driven disordered system is of paramount importance-from the laboratory scale controlled fracture experiment to the largest scale of mechanical failure, i.e., earthquakes. It has long been conjectured ... ...

Abstract	Prediction of an imminent catastrophic event in a driven disordered system is of paramount importance-from the laboratory scale controlled fracture experiment to the largest scale of mechanical failure, i.e., earthquakes. It has long been conjectured that the statistical regularities in the energy emission time series mirror the "health" of such driven systems and hence have the potential for forecasting imminent catastrophe. Among other statistical regularities, a measure of how unequal avalanche sizes are is potentially a crucial indicator of imminent failure. The inequalities of avalanche sizes are quantified using inequality indices traditionally used in socioeconomic systems: the Gini index g, the Hirsch index h, and the Kolkata index k. It is shown analytically (for the mean-field case) and numerically (for the non-mean-field case) with models of quasi-brittle materials that the indices show universal behavior near the breaking points in such models and hence could serve as indicators of imminent breakdown of stressed disordered systems.
Language	English
Publishing date	2023-07-27
Publishing country	United States
Document type	Journal Article
ZDB-ID	2844562-4
ISSN	2470-0053 ; 2470-0045
ISSN (online)	2470-0053
ISSN	2470-0045
DOI	10.1103/PhysRevE.108.014103
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Article ; Online: Breaking universality in random sequential adsorption on a square lattice with long-range correlated defects.

Kundu, Sumanta / Mandal, Dipanjan

Physical review. E

2021 Volume 103, Issue 4-1, Page(s) 42134

Abstract: Jamming and percolation transitions in the standard random sequential adsorption of particles on regular lattices are characterized by a universal set of critical exponents. The universality class is preserved even in the presence of randomly distributed ...

Abstract	Jamming and percolation transitions in the standard random sequential adsorption of particles on regular lattices are characterized by a universal set of critical exponents. The universality class is preserved even in the presence of randomly distributed defective sites that are forbidden for particle deposition. However, using large-scale Monte Carlo simulations by depositing dimers on the square lattice and employing finite-size scaling, we provide evidence that the system does not exhibit such well-known universal features when the defects have spatial long-range (power-law) correlations. The critical exponents ν_{j} and ν associated with the jamming and percolation transitions, respectively, are found to be nonuniversal for strong spatial correlations and approach systematically their own universal values as the correlation strength is decreased. More crucially, we have found a difference in the values of the percolation correlation length exponent ν for a small but finite density of defects with strong spatial correlations. Furthermore, for a fixed defect density, it is found that the percolation threshold of the system, at which the largest cluster of absorbed dimers first establishes the global connectivity, gets reduced with increasing the strength of the spatial correlation.
Language	English
Publishing date	2021-04-05
Publishing country	United States
Document type	Journal Article
ZDB-ID	2844562-4
ISSN	2470-0053 ; 2470-0045
ISSN (online)	2470-0053
ISSN	2470-0045
DOI	10.1103/PhysRevE.103.042134
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Article ; Online: Physical properties of a generalized model of multilayer adsorption of dimers.

Palacios, G / Kundu, Sumanta / Santos, L A P / Gomes, M A F

Physical review. E

2023 Volume 108, Issue 3-1, Page(s) 34115

Abstract: We investigate the transport properties of a complex porous structure with branched fractal architectures formed due to the gradual deposition of dimers in a model of multilayer adsorption. We thoroughly study the interplay between the orientational ... ...

Abstract	We investigate the transport properties of a complex porous structure with branched fractal architectures formed due to the gradual deposition of dimers in a model of multilayer adsorption. We thoroughly study the interplay between the orientational anisotropy parameter p_{0} of deposited dimers and the formation of porous structures, as well as its impact on the conductivity of the system, through extensive numerical simulations. By systematically varying the value of p_{0}, several critical and off-critical scaling relations characterizing the behavior of the system are examined. The results demonstrate that the degree of orientational anisotropy of dimers plays a significant role in determining the structural and physical characteristics of the system. We find that the Einstein relation relating to the size scaling of the electrical conductance holds true only in the limiting case of p_{0}→1. Monitoring the fractal dimension of the interface of the multilayer formation for various p_{0} values, we reveal that in a wide range of p_{0}>0.2 interface shows the characteristic of a self-avoiding random walk, compared to the limiting case of p_{0}→0 where it is characterized by the fractal dimension of the backbone of ordinary percolation cluster at criticality. Our results thus can provide useful information about the fundamental mechanisms underlying the formation and behavior of wide varieties of amorphous and disordered systems that are of paramount importance both in science and technology as well as in environmental studies.
Language	English
Publishing date	2023-09-25
Publishing country	United States
Document type	Journal Article
ZDB-ID	2844562-4
ISSN	2470-0053 ; 2470-0045
ISSN (online)	2470-0053
ISSN	2470-0045
DOI	10.1103/PhysRevE.108.034115
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Book ; Online: Breaking universality in random sequential adsorption on a square lattice with long-range correlated defects

Kundu, Sumanta / Mandal, Dipanjan

2021

Abstract	Jamming and percolation transitions in the standard random sequential adsorption of particles on regular lattices are characterized by a universal set of critical exponents. The universality class is preserved even in the presence of randomly distributed defective sites that are forbidden for particle deposition. However, using large-scale Monte Carlo simulations by depositing dimers on the square lattice and employing finite-size scaling, we provide evidence that the system does not exhibit such well-known universal features when the defects have spatial long-range (power-law) correlations. The critical exponents $\nu_j$ and $\nu$ associated with the jamming and percolation transitions, respectively, are found to be non-universal for strong spatial correlations and approach systematically their own universal values as the correlation strength is decreased. More crucially, we have found a difference in the values of the percolation correlation length exponent $\nu$ for a small but finite density of defects with strong spatial correlations. Furthermore, for a fixed defect density, it is found that the percolation threshold of the system, at which the largest cluster of absorbed dimers first establishes the global connectivity, gets reduced with increasing the strength of the spatial correlation.
Keywords	Condensed Matter - Statistical Mechanics
Subject code	612
Publishing date	2021-02-25
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Book ; Online: Physical properties of a generalized model of multilayer adsorption of dimers

Palacios, G / Kundu, Sumanta / Santos, L A P / Gomes, M A F

2023

Abstract	We investigate the transport properties of a complex porous structure with branched fractal architectures formed due to the gradual deposition of dimers in a model of multilayer adsorption. We thoroughly study the interplay between the orientational anisotropy parameter $p_0$ of deposited dimers and the formation of porous structures, as well as its impact on the conductivity of the system, through extensive numerical simulations. By systematically varying the value of $p_0$, several critical and off-critical scaling relations characterizing the behavior of the system are examined. The results demonstrate that the degree of orientational anisotropy of dimers plays a significant role in determining the structural and physical characteristics of the system. We find that the Einstein relation relating to the size scaling of the electrical conductance holds true only in the limiting case of $p_0 \to 1$. Monitoring the fractal dimension of the interface of the multilayer formation for various $p_0$ values, we reveal that in a wide range of $p_0 > 0.2$ interface shows the characteristic of a self-avoiding random walk, compared to the limiting case of $p_0 \to 0$ where it is characterized by the fractal dimension of the backbone of ordinary percolation cluster at criticality. Our results thus can provide useful information about the fundamental mechanisms underlying the formation and behavior of wide varieties of amorphous and disordered systems that are of paramount importance both in science and technology as well as in environmental studies.
Keywords	Condensed Matter - Statistical Mechanics
Subject code	612
Publishing date	2023-04-11
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Book ; Online: Machine learning understands knotted polymers

Braghetto, Anna / Kundu, Sumanta / Baiesi, Marco / Orlandini, Enzo

2022

Abstract: Simulated configurations of flexible knotted rings confined inside a spherical cavity are fed into long-short term memory neural networks (LSTM NNs) designed to distinguish knot types. The results show that they perform well in knot recognition even if ... ...

Abstract	Simulated configurations of flexible knotted rings confined inside a spherical cavity are fed into long-short term memory neural networks (LSTM NNs) designed to distinguish knot types. The results show that they perform well in knot recognition even if tested against flexible, strongly confined and therefore highly geometrically entangled rings. In agreement with the expectation that knots are delocalized in dense polymers, a suitable coarse-graining procedure on configurations boosts the performance of the LSTMs when knot identification is applied to rings much longer than those used for training. Notably, when the NNs fail, usually the wrong prediction still belongs to the same topological family of the correct one. The fact that the LSTMs are able to grasp some basic properties of the ring's topology is corroborated by a test on knot types not used for training. We also show that the choice of the NN architecture is important: simpler convolutional NNs do not perform so well. Finally, all results depend on the features used for input: surprisingly, coordinates or bond directions of the configurations provide the best accuracy to the NNs, even if they are not invariant under rotations (while the knot type is invariant). Other rotational invariant features we tested are based on distances, angles, and dihedral angles.
Keywords	Condensed Matter - Soft Condensed Matter
Subject code	612
Publishing date	2022-12-22
Publishing country	us
Document type	Book ; Online
Database	BASE - Bielefeld Academic Search Engine (life sciences selection)

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Article ; Online: Colored percolation.

Kundu, Sumanta / Manna, S S

Physical review. E

2017 Volume 95, Issue 5-1, Page(s) 52124

Abstract: A model called "colored percolation" has been introduced with its infinite number of versions in two dimensions. The sites of a regular lattice are randomly occupied with probability p and are then colored by one of the n distinct colors using uniform ... ...

Abstract	A model called "colored percolation" has been introduced with its infinite number of versions in two dimensions. The sites of a regular lattice are randomly occupied with probability p and are then colored by one of the n distinct colors using uniform probability q=1/n. Denoting different colors by the letters of the Roman alphabet, we have studied different versions of the model like AB,ABC,ABCD,ABCDE,... etc. Here, only those lattice bonds having two different colored atoms at the ends are defined as connected. The percolation threshold p_{c}(n) asymptotically converges to its limiting value of p_{c} as 1/n. The model has been generalized by introducing a preference towards a subset of colors when m out of n colors are selected with probability q/m each and the rest of the colors are selected with probability (1-q)/(n-m). It has been observed that p_{c}(q,m) depends nontrivially on q and has a minimum at q_{min}=m/n. In another generalization the fractions of bonds between similarly and dissimilarly colored atoms have been treated as independent parameters. Phase diagrams in this parameter space have been drawn exhibiting percolating and nonpercolating phases.
Language	English
Publishing date	2017-05
Publishing country	United States
Document type	Journal Article
ZDB-ID	2844562-4
ISSN	2470-0053 ; 2470-0045
ISSN (online)	2470-0053
ISSN	2470-0045
DOI	10.1103/PhysRevE.95.052124
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Article: Potential nutrient stock and emission of greenhouse gases from soil due to application of organic amendments in India

Reddy, K Sammi / Kundu, Sumanta / Arunakumari, H / Sharma, K L

Agricultural research journal. 2021 Apr., v. 58, no. 2

2021

Abstract: In India, large quantities of organic amendments such as crop residues (550 mt yr⁻¹), municipal solid waste (48 mt yr⁻¹), animal manures (182 mt yr⁻¹) and other sources are produced. Recycling these organic amendments in agriculture has several ... ...

Abstract	In India, large quantities of organic amendments such as crop residues (550 mt yr⁻¹), municipal solid waste (48 mt yr⁻¹), animal manures (182 mt yr⁻¹) and other sources are produced. Recycling these organic amendments in agriculture has several beneficial effects such as improving plant growth, yield, soil carbon content, and microbial biomass and activity. Nevertheless, organic amendment applications have some disadvantages such as nutrient eutrophication and greenhouse gas (GHG) emission. Agriculture sector emits substantial quantities of GHGs (carbon dioxide-CO₂, methane-CH₄, and nitrous oxide-N₂O). Though quantity wise CH₄ and N₂O emissions are less than CO₂, they have higher global warming potential. Although there have been studies on the role of chemical fertilizer application on GHG emission, there have been very few studies on the effect of organic amendments application on GHG emission in agricultural soils. We reviewed quantification of various organic amendments used in agriculture that include manures, municipal solid waste, green manuring, crop residues and other miscellaneous organic amendments, major processes for GHG emission, and impact of organic amendment application on GHG emission from soil. The article aims to highlight the management practices to mitigate the emission and the future research needs in relation to nitrogen and carbon dynamics in soil for judicious use of organic amendments in agriculture to maintain soil health with minimum impact on GHG emission from agriculture.
Keywords	agricultural industry ; agricultural research ; animals ; carbon ; carbon dioxide ; eutrophication ; fertilizer application ; greenhouse gas emissions ; greenhouse gases ; microbial biomass ; mineral fertilizers ; municipal solid waste ; nitrogen ; plant growth ; soil carbon ; soil quality ; India
Language	English
Dates of publication	2021-04
Size	p. 169-182.
Publishing place	Punjab Agricultural University, Ludhiana
Document type	Article
ZDB-ID	2970301-3
ISSN	2395-146X ; 2395-1435
ISSN (online)	2395-146X
ISSN	2395-1435
DOI	10.5958/2395-146X.2021.00027.2
Database	NAL-Catalogue (AGRICOLA)

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Article ; Online: Percolation model with an additional source of disorder.

Kundu, Sumanta / Manna, S S

Physical review. E

2016 Volume 93, Issue 6, Page(s) 62133

Abstract: The ranges of transmission of the mobiles in a mobile ad hoc network are not uniform in reality. They are affected by the temperature fluctuation in air, obstruction due to the solid objects, even the humidity difference in the environment, etc. How the ... ...

Abstract	The ranges of transmission of the mobiles in a mobile ad hoc network are not uniform in reality. They are affected by the temperature fluctuation in air, obstruction due to the solid objects, even the humidity difference in the environment, etc. How the varying range of transmission of the individual active elements affects the global connectivity in the network may be an important practical question to ask. Here a model of percolation phenomena, with an additional source of disorder, is introduced for a theoretical understanding of this problem. As in ordinary percolation, sites of a square lattice are occupied randomly with probability p. Each occupied site is then assigned a circular disk of random value R for its radius. A bond is defined to be occupied if and only if the radii R_{1} and R_{2} of the disks centered at the ends satisfy a certain predefined condition. In a very general formulation, one divides the R_{1}-R_{2} plane into two regions by an arbitrary closed curve. One defines a point within one region as representing an occupied bond; otherwise it is a vacant bond. The study of three different rules under this general formulation indicates that the percolation threshold always varies continuously. This threshold has two limiting values, one is p_{c}(sq), the percolation threshold for the ordinary site percolation on the square lattice, and the other is unity. The approach of the percolation threshold to its limiting values are characterized by two exponents. In a special case, all lattice sites are occupied by disks of random radii R∈{0,R_{0}} and a percolation transition is observed with R_{0} as the control variable, similar to the site occupation probability.
Language	English
Publishing date	2016
Publishing country	United States
Document type	Journal Article
ZDB-ID	2844562-4
ISSN	2470-0053 ; 2470-0045
ISSN (online)	2470-0053
ISSN	2470-0045
DOI	10.1103/PhysRevE.93.062133
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