On top of CGMD, another approach based on MD computations strives to accurately delineate the mesoscale, known as dissipative particle dynamics (DPD). DPD is a widely used stochastic simulation of complex fluids, originally proposed by Hoogerbrugge and Koelman, assigning statistical mechanical information beads that retain chemical and physical properties, mainly for microfluidics and complex fluid modeling. CD BioSciences use computer-aided methods to provide DPD service to help customers complete biofilm related research.

Figure 1. Dissipative particle dynamics. (Hideo Doi , et al, 2017)

Specific DPD Approaches We Offer

• We have widely used DPD in biological systems such as small-scale cell membranes and lipid bilayers, and in 2011, DPD was initially applied to biological membrane models by , where fluid-flow interactions and transport phenomena are closely watched.
• We simulate biofilms by bacterial cells that can also be modeled into combinations of hundreds of DPD beads.
• More importantly, we employ DPD to study the design of biofilm constitutive models and antibiotic drug design. The Lattice Boltzmann Method (LBM) is a particle-based bottom-up model for tracking the dynamics and properties of individual bacterial cells, originating from classical statistical physics and lattice gas automata.
• In addition, we provide professional results analysis, image processing, data aggregation and other services.

Provided by Customers

Please inform us of your specific biofilm DPD service details, and we can provide customized solutions for different projects.      

Service Process

Our Features

Deliverables

Why Choose Us?

CD BioSciences is a professional biofilm technology provider supporting a wide range of biofilm DPD service. We are able to perform individual tests at the most precise level, as well as design and complete a suite of services as a solution to the subject project. We have accumulated years of quintessence in the field of biofilm DPD, helping our clients accelerate drug discovery and development and improve the overall success rate of their projects. Please feel free to contact us for more detailed information, our scientists will tailor the most reasonable plan for your project.   

References

1. Hanfeng Zhai, et al. Multiscale Computational Modeling of Biofilm. 2022.
2. Hideo, Okuwaki, Koji, et al. Dissipative particle dynamics (DPD) simulations with fragment molecular orbital (FMO) based effective parameters for 1-Palmitoyl-2-oleoyl phosphatidyl choline (POPC) membrane.2017.

• Biofilm Computational Construction Service
• Biofilm Molecular Dynamics Simulation Service
• Stability Test of Biofilm System
• RMSF Analysis of Biofilm System
• Gyration Radius Analysis of Biofilm System
• Binding Mode Analysis of Biofilm System
• Secondary Structure Analysis of Biofilm System
• Energy Analysis of Biofilm System
• Hydrophobic Interaction Analysis of Biofilm System
• Free Energy Landscape Analysis of Biofilm System
• Biofilm Conformational Principal Component Analysis
• Biofilm Ramachandran Plots Analysis
• Cluster Analysis of Biofilm System
• SAS Analysis Service of Biofilm System
• Energy Decomposition Analysis of Biofilm System
• Electrostatic Interaction Analysis of Biofilm System
• Biofilm Virtual Screening Service
• Computational Modeling of Early-Stage Biofilm Formation
• Biofilm CGMD Service
• Biofilm DEM Service
• Biofilm SPH Service
• Biofilm XFEM Service
• Other Biofilm MD Serivce
• Biofilm Homology Modeling Serivce
• Gram-negative Bacterial Outer Membrane Construction Service
• Biofilm Formation Simulation Service
• Construction Services for Discrete Difference Models
• Modeling Services for Geometric Heterogeneity in Biofilms
• Computational Simulation Service for Biofilm Development
• Computational Modeling Service for Synthetic Biofilms
• Biofilm MD Results Analysis Services
• Biofilm Multiscale Computational Modeling Service
• Biofilm Modeling Service