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Modelling and Sampling Ramified Objects with Substructure-Based Method [chapter]

Weiwei Yin, Marc Jaeger, Jun Teng, Bao-Gang Hu
2005 Lecture Notes in Computer Science  
This paper describes a technique that speeds up both the modelling and the sampling processes for a ramified object.  ...  By introducing the notion of substructure, we divide the ramified object into a set of ordered substructures, among which only a part of basic substructures is selected for implicit modelling and point  ...  Acknowledgement This work is supported in part by the national Natural Science Foundation of China (#60073007, #60473110) and by China 863 Program (#2002AA241221).  ... 
doi:10.1007/11428848_40 fatcat:523xv2dz7ffzzmojgwn65ovf4u

Analytical study of a stochastic plant growth model: Application to the GreenLab model

M.Z. Kang, P.H. Cournède, P. de Reffye, D. Auclair, B.G. Hu
2008 Mathematics and Computers in Simulation  
This analytical method provides fast and precise results, which facilitates model analysis as well as model calibration and validation with real plants.  ...  In this paper, based on the idea of substructure decomposition, the theoretical mean and variance of the number of organs in a plant structure from the model are computed recurrently by applying a compound  ...  The numbers of metamers are computed based on substructure factorization, as well as their mean and variance.  ... 
doi:10.1016/j.matcom.2007.06.003 fatcat:qiihhaotrjfb3cybvidzn42rgu

On Some Probabilistic Aspects of Diffusion Models for Tissue Growth

Jozef Kiseľák
2013 The Open Statistics & Probability Journal  
For standard diffusions, fair approximation is provided by analytical models based on convective heat transfer in infinite tissues volume (e.g. model given by Perl 1962, later extended by [1]).  ...  Stochastic fractal is more appropriate, however, a validation measure should be developed for better comparability with advanced stochastic geometry model, e.g. Quermass-interaction process.  ...  We thank the Editor and Reviewers whose insightful comments helped us to sharpen the paper.  ... 
doi:10.2174/1876527001305010014 fatcat:g3vckavumfdftgjvzxzesa6gye

Branch length distribution in TREF fractionated polyethylene

Ramnath Ramachandran, Gregory Beaucage, Douglas McFaddin, Jean Merrick-Mack, Vassilios Galiatsatos, Francis Mirabella
2011 Polymer  
The method uses a scaling model to analyze small-angle neutron scattering (SANS) data from dilute solutions of a series of LLDPE fractions.  ...  In this paper, a novel method is used to examine the structure and branch content of a linear low-density polyethylene (LLDPE).  ...  Scaling model The molecular structure of polyolefins such as polyethylene (PE) in dilute solution displays two levels: the average coil size R with mass-fractal dimension d f, and an average substructural  ... 
doi:10.1016/j.polymer.2011.04.005 fatcat:ydh5alud3bdxzd5jspvlpkvfue

Parametric identification of a functional–structural tree growth model and application to beech trees (Fagus sylvatica)

Véronique Letort, Paul-Henry Cournède, Amélie Mathieu, Philippe de Reffye, Thiéry Constant
2008 Functional Plant Biology  
The model includes a simplified representation of tree architecture, based on a species-specific description of branching patterns.  ...  Possible improvements of this method by including topological criteria are discussed.  ...  Acknowledgement Data were collected with the support of the LERFOB Wood Quality research team.  ... 
doi:10.1071/fp08065 pmid:32688845 fatcat:aqp3qhgwzrd3xcdwtbxic5k3va

Top polarization and stop mixing from boosted jet substructure

Biplob Bhattacherjee, Sourav K. Mandal, Mihoko Nojiri
2013 Journal of High Energy Physics  
We show that with 100 fb^(-1) of data, left and right 600 GeV stops can be distinguished to 4\sigma, and 800 GeV stops can be distinguished to 3\sigma.  ...  In light of the recent discovery of a Higgs-like boson of mass ~125 GeV, a large A_t is a prediction of many supersymmetric models.  ...  First we describe the Monte Carlo generation of our data, then the detector simulation, and finally the reconstruction of top jets using the physics objects from the simulation. model.  ... 
doi:10.1007/jhep03(2013)105 fatcat:llrleurqeref3kbhhu4jaknm2q

A mathematical and computational framework for quantitative comparison and integration of large-scale gene expression data

C. E. Hart
2005 Nucleic Acids Research  
A systematic and quantitative way to address these questions is needed, together with an effective way to integrate and leverage expression results with other kinds of large-scale data and annotations.  ...  Is one clustering objectively superior to another? Which differences, if any, are likely candidates to be biologically important?  ...  ACKNOWLEDGEMENTS Funding of this work and its open access publication was from the NCI, the NIH, NASA, the Department of Energy, and the LK Whittier Foundation. The authors thank Prof.  ... 
doi:10.1093/nar/gki536 pmid:15886390 pmcid:PMC1092273 fatcat:ran4dm4bnfd4bjtotzhoyb5qzi

Arrested demixing opens route to bigels

F. Varrato, L. Di Michele, M. Belushkin, N. Dorsaz, S. H. Nathan, E. Eiser, G. Foffi
2012 Proceedings of the National Academy of Sciences of the United States of America  
Using a computer model, we investigate the phase behavior and the structural properties of these bigels.  ...  We consider binary hard spheres with a square-well (SW) potential and the same diameter σ: The intraspecies attraction is chosen with unit depth u ii = 1, whereas the interspecies attraction u i≠j acts  ...  (SI Text; Materials and Methods).  ... 
doi:10.1073/pnas.1214971109 pmid:23129616 pmcid:PMC3511146 fatcat:pxztch7ibbde3lvzpd3elx2z3i

Toward Resolution of Ambiguity for the Unfolded State

Gregory Beaucage
2008 Biophysical Journal  
The model takes a global view of protein structure and can be applied to a number of analytic methods and to simulations.  ...  Here, a scaling model is proposed to quantify the molar degree of folding and the unfolded state.  ...  At 100 bar, the sample displays the characteristics of a regular object, that is, a low-dimensional solid object similar to a sheet.  ... 
doi:10.1529/biophysj.107.121855 pmid:18469075 pmcid:PMC2440439 fatcat:x6sld434uzdd5b3xnhbsv7jjze

Adhesion Effect on the Hyperfine Frequency Shift of an Alkali Metal Vapor Cell with Paraffin Coating Using Peak-Force Tapping AFM

Jiuyan Wei, Zongmin Ma, Huanfei Wen, Hao Guo, Jun Tang, Jun Liu, Yanjun Li, Yasuhiro Sugawara
2020 Coatings  
a uniform and high-quality paraffin coating method.  ...  We observed a relatively uniform temperature field on the substrate can be obtained theoretically and experimentally with the closed-type previse temperature-controlled evaporation method.  ...  The paraffin used in this work is a mixture of long-chain hydrocarbons with chain lengths ranging from C 19 to C 49 with linear, ramified, even and odd chains [11] .  ... 
doi:10.3390/coatings10010084 fatcat:lyjhya2gbngstgcbne44k4omsi

A plan for research toward computer-aided instruction with natural English, teachnical memorandum, TM-3623

Robert S. Simmons, Harry F. Silberman
1970 ACM SIGCUE Outlook  
The first appendix consists of material outlining the Cognitive Structure Model for Verbal Understanding. and The second is a Sample of the Minimal lesson Structure.  ...  At the base of this system was a model of cognition that would represent the knowledge content of the material to be taught and the student's current knowledge of it.  ...  The meaning of a word is thus the set of events that ramify from the node or object onto which it maps in the cognitive structure.  ... 
doi:10.1145/965754.965760 fatcat:wjx2bl7uuzchlm5ouw45aor5ka

Semisynthetic Hydrophilic Polyals

Mikhail I. Papisov, Alexander Hiller, Alexander Yurkovetskiy, Mao Yin, Marlene Barzana, Shawn Hillier, Alan J. Fischman
2005 Biomacromolecules  
Interface carbohydrates, regardless of their biological function, have common nonsignaling substructures (e.g., acetal and ketal groups, secondary and primary alcohols).  ...  In this study, model polyals were produced via lateral cleavage of polyaldoses and polyketoses. Best results were achieved using dextran B-512 as a precursor.  ...  Acknowledgments This work was supported, in parts, by NIH/NCRR grant R21-RR14221, DoE grant DE-FG02-00ER63057, and The Whitaker Foundation grant "Surface protection in Bioengineering". We thank Dr.  ... 
doi:10.1021/bm0502157 pmid:16153104 pmcid:PMC3748143 fatcat:yvzk66hb6bgc5kd4xgohrb2b3e

Genetically targeted 3D visualisation of Drosophila neurons under Electron Microscopy and X-Ray Microscopy using miniSOG [article]

Julian Ng, Alyssa Browning, Lorenz Lechner, Masako Terada, Gillian Howard, Gregory Jefferis
2016 bioRxiv   pre-print
Large dimension, high-resolution imaging is important for neural circuit visualisation as neurons have both long- and short-range patterns: from axons and dendrites to the numerous synapses at their endings  ...  Fluorescent probes are widely used to localise synapses, identify cell-types and in tracing studies.  ...  and!developmental!biology!and!disease!model!studies.! With!a!focus!on!large!dimension,!highQresolution!based!imaging,!EM!probes!can! be!used!to!identify!rare!features!(e.g.!when!searching!for!  ... 
doi:10.1101/070755 fatcat:jg4zz7zsezbrlp6vg4sgm3foau

The Optimal Fraction of Hydrophobic Residues Required to Ensure Protein Collapse

Jiangbo Miao, Judith Klein-Seetharaman, Hagai Meirovitch
2004 Journal of Molecular Biology  
with a probability p.  ...  To check this theory, we treat a simplified model consisting of H and P residues represented by their a-carbon atoms only.  ...  Acknowledgements The authors gratefully acknowledge financial support from National Science Foundation Information Technology Research grants NSF 0225656 and NSF 0225636, and NIH grant GM61916.  ... 
doi:10.1016/j.jmb.2004.09.061 pmid:15533446 fatcat:3lomdn4w2vcrnksqggjrbyllsu

Effective Techniques to Visualize Filament-Surface Relationships

A. Kuß, M. Gensel, B. Meyer, V. J. Dercksen, S. Prohaska
2010 Computer graphics forum (Print)  
Combined visualizations of filamentous structures and surrounding volumetric objects are common in biological and medical applications.  ...  In this paper, we discuss and evaluate techniques to emphasize spatial relationships. We concentrate on the visualization of transparent objects and intersecting lines.  ...  Stimuli The stimuli were static visualizations of a bee brain model's substructures. The geometry featured several overlapping surfaces, and ramified line structures (nerve fibers).  ... 
doi:10.1111/j.1467-8659.2009.01703.x fatcat:ovdp56mesbejrirfhpyuceyquu
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