We present an algorithm to identify and count different lattice animals (LA's) in the site-percolation model. This algorithm allows a definition of clusters based on the distinction of cluster shapes, in contrast with the well-known Hoshen-Kopelman algorithm, in which the clusters are differentiated by their sizes. It consists in coding each unit cell of a cluster according to the nearest neighbors (NN) and ordering the codes in a proper sequence. In this manner, a LA is represented by a specific code sequence. In addition, with some modification the algorithm is capable of differentiating between fixed and free LA's. The enhanced Hoshen-Kopelman algorithm [J. Hoshen, M. W. Berry, and K. S. Minser, Phys. Rev. E 56, 1455 (1997)] is used to compose the set of NN code sequences of each cluster. Using Monte Carlo simulations on planar square lattices up to 2000x2000, we apply this algorithm to the percolation model. We calculate the cluster diversity and cluster entropy of the system, which leads to the determination of probabilities associated with the maximum of these functions. We show that these critical probabilities are associated with the percolation transition and with the complexity of the system.
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http://dx.doi.org/10.1103/physreve.62.6004 | DOI Listing |
Genome
January 2025
Universidade Federal do Rio Grande do Sul, Porto Alegre, RS, Brazil;
Our comprehension of avian karyotypes still needs to be improved, especially for Suliform birds. To enhance understanding of chromosomal evolution in this order, we conducted conventional and molecular cytogenetic analysis in five species, named Sula dactylatra, S. leucogaster, S.
View Article and Find Full Text PDFRussia is a country with a high incidence of tick-borne encephalitis (TBE). In northwestern regions of Russia, 110 TBE cases were registered in 2021. The largest numbers of TBE cases were registered in the Arkhangelsk region and St.
View Article and Find Full Text PDFBrief Bioinform
November 2024
Department of Computer Science, City University of Hong Kong, 83 Tat Chee Avenue, Kowloon Tong, Hong Kong, 999077, China.
The complexity of T cell receptor (TCR) sequences, particularly within the complementarity-determining region 3 (CDR3), requires efficient embedding methods for applying machine learning to immunology. While various TCR CDR3 embedding strategies have been proposed, the absence of their systematic evaluations created perplexity in the community. Here, we extracted CDR3 embedding models from 19 existing methods and benchmarked these models with four curated datasets by accessing their impact on the performance of TCR downstream tasks, including TCR-epitope binding affinity prediction, epitope-specific TCR identification, TCR clustering, and visualization analysis.
View Article and Find Full Text PDFMicrob Genom
January 2025
Leibniz Institute DSMZ - German Collection of Microorganisms and Cell Cultures, Microbial Genome Research, Braunschweig, Germany.
Genomic data on from the African continent are currently lacking, resulting in the region being under-represented in global analyses of infection (CDI) epidemiology. For the first time in Nigeria, we utilized whole-genome sequencing and phylogenetic tools to compare isolates from diarrhoeic human patients (=142), livestock (=38), poultry manure (=5) and dogs (=9) in the same geographic area (Makurdi, north-central Nigeria) and relate them to the global population. In addition, selected isolates were tested for antimicrobial susceptibility (=33) and characterized by PCR ribotyping (=53).
View Article and Find Full Text PDFPhys Chem Chem Phys
January 2025
Department of Chemistry, Faculty of Nano and Bio Science and Technology, Persian Gulf University, Bushehr 75168, Iran.
Molecular dynamics simulations were conducted on mixtures of ionic liquids (ILs) and alcohols, specifically methanol, ethanol, and 1-propanol. Two different ILs, [Mmim][MeSO] and [Bmim][MeSO], were used with varying alcohol mole fractions to investigate the impact of alkyl chain length of cations, alcohol types, and alcohol concentrations on different structural and dynamic properties. Unique characteristics of the ILs were observed due to the varying polarity of solvents and the creation of diverse local environments surrounding the ILs.
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