Spatial density distributions for illustrating the base sequence dependent features of double helical DNA: computer graphic visualization of Monte Carlo chain simulations

1988 ◽  
Vol 6 (4) ◽  
pp. 217-218
Author(s):  
A.R. Srinvasan ◽  
WilmaK. Olson
Keyword(s):  
Monte Carlo ◽  
Computer Graphic ◽  
Spatial Density ◽  
Base Sequence ◽  
Density Distributions ◽  
Graphic Visualization ◽  
Sequence Dependent ◽  
Dna Computer

The 4He Trimer: Structure and Energetics of a Very Unusual Molecule

2003 ◽  
Vol 68 (1) ◽  
pp. 1-22 ◽  
Author(s):  
Cono Di Paola ◽  
Franco A. Gianturco ◽  
Gerardo Delgado-Barrio ◽  
Salvador Miret-Artés ◽  
Pablo Villarreal
Keyword(s):  
Monte Carlo ◽  
Stochastic Analysis ◽  
Binding Energies ◽  
Geometric Constraints ◽  
Spatial Density ◽  
Spatial Distributions ◽  
Diffusion Monte Carlo ◽  
Density Distributions ◽  
Total Binding ◽  
Full Interaction

The 4He3 weakly interacting system is analysed by constructing the full interaction as a sum of two-body (2B) potentials chosen among the most recent proposals from the literature. The spatial density distributions of the three bound atoms are obtained using a diffusion Monte Carlo (DMC) algorithm and a stochastic analysis under specific geometric constraints is carried out with the resulting densities in order to recover a more conventional structural picture for such floppy system. The total binding energies were obtained with the chosen potentials analysed in the present work, using the DMC algorithm, and are compared with previous published results. The ensuing spatial distributions are analysed in some detail to select the dominant structures from a conventional triangular description of this very floppy molecule.

scholarly journals Human Cytomegalovirus Mutant with Sequence-Dependent Resistance to the Phosphorothioate Oligonucleotide Fomivirsen (ISIS 2922)

1998 ◽  
Vol 42 (4) ◽  
pp. 971-973 ◽  
Author(s):  
Gilbert B. Mulamba ◽  
André Hu ◽  
Raana F. Azad ◽  
Kevin P. Anderson ◽  
Donald M. Coen
Keyword(s):  
Human Cytomegalovirus ◽  
Antisense Oligonucleotide ◽  
Cross Resistance ◽  
Base Sequence ◽  
Target Sequence ◽  
Phosphorothioate Oligonucleotide ◽  
Sequence Dependent ◽  
Unrelated Sequence

ABSTRACT A human cytomegalovirus mutant that was isolated for resistance (10-fold) to the antisense oligonucleotide fomivirsen (ISIS 2922) exhibited cross-resistance to a modified derivative of fomivirsen with an identical base sequence but little or no resistance to an oligonucleotide with an unrelated sequence. No changes in the mutant’s DNA corresponding to the fomivirsen target sequence were found.

Base Sequence-Dependent Bends in Site-Specific Benzo[a]pyrene Diol Epoxide-Modified Oligonucleotide Duplexes

1996 ◽  
Vol 9 (1) ◽  
pp. 255-261 ◽  
Author(s):  
Tongming Liu ◽  
Jing Xu ◽  
Hong Tsao ◽  
Bin Li ◽  
Rong Xu ◽  
...  
Keyword(s):  
Base Sequence ◽  
Site Specific ◽  
Diol Epoxide ◽  
Sequence Dependent ◽  
Modified Oligonucleotide

scholarly journals A Monte Carlo Assessment of Uncertainties in Heavy Precipitation Frequency Variations

2007 ◽  
Vol 8 (5) ◽  
pp. 1152-1160 ◽  
Author(s):  
Kenneth E. Kunkel ◽  
Thomas R. Karl ◽  
David R. Easterling
Keyword(s):  
Monte Carlo ◽  
Missing Data ◽  
Linear Trend ◽  
Heavy Precipitation ◽  
The United States ◽  
Precipitation Event ◽  
Spatial Density ◽  
Significant Shift ◽  
Return Periods ◽  
Statistical Confidence

Abstract A Monte Carlo analysis was used to assess the effects of missing data and limited station density on the uncertainties in the temporal variations of U.S. heavy precipitation event frequencies observed for 1895–2004 using data from the U.S. Cooperative Observer Network (COOP). Based on the actual availability of long-term station data, the effects of limited spatial density were found to be of greater importance than those of missing data. The Monte Carlo simulations indicate that there is a high degree of statistical confidence that the recent elevated frequencies in the United States are the highest in the COOP record since 1895, at least for event definitions using return periods of 5 yr or shorter. There is also high confidence that elevated frequencies seen early in the record are higher than those measured in the 1920s and 1930s, and are not simply an artifact of the limited spatial sampling. The statistically significant shift from high to low values in the early portion of the record, a reflection of natural variability, should not be ignored when interpreting the elevated levels of the most recent decades. Nevertheless, it does appear that the recent elevated levels exceed the variations seen in the earlier part of the record since 1895. The confidence in these statements decreases as the return period increases because of the diminishing number of events in the sample. When a linear trend is fit to the entire 1895–2004 period, the trends are positive and different from zero with a high level of statistical confidence for all return periods from 1 to 20 yr.

scholarly journals THE STUDY OF THE NUCLEUS–NUCLEUS INTERACTION POTENTIAL FOR 16O+27Al AND 16O+28Si FUSION REACTIONS

2012 ◽  
Vol 27 (06) ◽  
pp. 1250037 ◽  
Author(s):  
O. N. GHODSI ◽  
R. GHARAEI
Keyword(s):  
Monte Carlo Simulation ◽  
Monte Carlo ◽  
Simulation Method ◽  
Light Nuclei ◽  
Monte Carlo Simulation Method ◽  
Considerable Influence ◽  
Fusion Reactions ◽  
Nucleus Interaction ◽  
Nuclear Equation Of State ◽  
Density Distributions

Using the Monte Carlo simulation method accompanied by the modifying effects of the density distributions overlapping, we have examined the nuclear matter incompressibility effects for asymmetric systems with light nuclei, namely 16 O +27 Al and 16 O +28 Si fusion reactions. The obtained results show that the nuclear equation of state has considerable influence on the calculation of fusion probabilities for these asymmetric systems.

scholarly journals Tiny grains shining bright in the gaps of Herbig Ae transitional discs

2019 ◽  
Vol 486 (3) ◽  
pp. 3721-3740 ◽  
Author(s):  
Eloise K Birchall ◽  
Michael J Ireland ◽  
Christoph Federrath ◽  
John D Monnier ◽  
Stefan Kraus ◽  
...  
Keyword(s):  
Monte Carlo ◽  
Adaptive Optics ◽  
Surface Density ◽  
Forward Modelling ◽  
Point Spread Functions ◽  
Density Distributions ◽  
Disc Surface ◽  
Point Spread ◽  
Adaptive Optics Imaging ◽  
Modelling Approach

ABSTRACT This work presents a study of two Herbig Ae transitional discs, Oph IRS 48 and HD 169142; which both have reported rings in their dust density distributions. We use Keck-II/NIRC2 adaptive optics imaging observations in the L′ filter (3.8 $\mu$m) to probe the regions of these discs inwards of ${\sim }20\, \mathrm{au}$ from the star. We introduce our method for investigating these transitional discs, which takes a forward modelling approach: making a model of the disc (using the Monte Carlo radiative transfer code radmc3d), convolving it with point spread functions of calibrator stars, and comparing the convolved models with the observational data. The disc surface density parameters are explored with a Monte Carlo Markov Chain technique. Our analysis recovers emission from both of the discs interior to the well-known optically thick walls, modelled as a ring of emission at ${\sim }15\, \mathrm{au}$ in Oph IRS 48, and ${\sim }7\, \mathrm{au}$ for HD 169142, and identifies asymmetries in both discs. Given the brightness of the near-symmetric rings compared to the reported companion candidates, we suggest that the reported companion candidates can be interpreted as slightly asymmetric disc emission or illumination.

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