What can be learned from binding energy differences about nuclear structure: the example of delta V_{pn}

We perform an analysis of a binding energy difference called delta V_{pn}(N,Z) =- 1/4(E(Z,N)-E(Z,N-2)-E(Z-2,N)+ E(Z-2,N-2) in the framework of a realistic nuclear model. Using the angular-momentum and particle-number projected generator coordinate method and the Skyrme interaction SLy4, we analyze the contribution brought to delta V_{pn} by static deformation and dynamic fluctuations around the mean-field ground state. Our method gives a good overall description of delta V_{pn} throughout the chart of nuclei with the exception of the anomaly related to the Wigner energy along the N=Z line. The main conclusions of our analysis are that (i) the structures seen in the systematics of delta V_{pn} throughout the chart of nuclei can be easily explained combining a smooth background related to the symmetry energy and correlation energies due to deformation and collective fluctuations; (ii) the characteristic pattern of delta V_{pn} around a doubly-magic nucleus is a trivial consequence of the asymmetric definition of delta V_{pn}, and not due to a the different structure of these nuclei; (iii) delta V_{pn} does not provide a very reliable indicator for structural changes; (iv) \delta V_{pn} does not provide a reliable measure of the proton-neutron interaction in the nuclear EDF, neither of that between the last filled orbits, nor of the one summed over all orbits; (v) delta V_{pn} does not provide a conclusive benchmark for nuclear EDF methods that is superior or complementary to other mass filters such as two-nucleon separation energies or Q values.Comment: 19 pages and 12 figure

Binomial level densities

It is shown that nuclear level densities in a finite space are described by a continuous binomial function, determined by the first three moments of the Hamiltonian, and the dimensionality of the underlying vector space. Experimental values for $^{55}$Mn, $^{56}$Fe, and $^{60}$Ni are very well reproduced by the binomial form, which turns out to be almost perfectly approximated by Bethe's formula with backshift. A proof is given that binomial densities reproduce the low moments of Hamiltonians of any rank: A strong form of the famous central limit result of Mon and French. Conditions under which the proof may be extended to the full spectrum are examined.Comment: 4 pages 2 figures Second version (previous not totally superseeded

Analytical description of finite size effects for RNA secondary structures

The ensemble of RNA secondary structures of uniform sequences is studied analytically. We calculate the partition function for very long sequences and discuss how the cross-over length, beyond which asymptotic scaling laws apply, depends on thermodynamic parameters. For realistic choices of parameters this length can be much longer than natural RNA molecules. This has to be taken into account when applying asymptotic theory to interpret experiments or numerical results.Comment: 10 pages, 13 figures, published in Phys. Rev.

Quantification of the differences between quenched and annealed averaging for RNA secondary structures

The analytical study of disordered system is usually difficult due to the necessity to perform a quenched average over the disorder. Thus, one may resort to the easier annealed ensemble as an approximation to the quenched system. In the study of RNA secondary structures, we explicitly quantify the deviation of this approximation from the quenched ensemble by looking at the correlations between neighboring bases. This quantified deviation then allows us to propose a constrained annealed ensemble which predicts physical quantities much closer to the results of the quenched ensemble without becoming technically intractable.Comment: 9 pages, 14 figures, submitted to Phys. Rev.

Spectroscopy with random and displaced random ensembles

Due to the time reversal invariance of the angular momentum operator J^2, the average energies and variances at fixed J for random two-body Hamiltonians exhibit odd-even-J staggering, that may be especially strong for J=0. It is shown that upon ensemble averaging over random runs, this behaviour is reflected in the yrast states. Displaced (attractive) random ensembles lead to rotational spectra with strongly enhanced BE2 transitions for a certain class of model spaces. It is explained how to generalize these results to other forms of collectivity.Comment: 4 pages, 4 figure

Shell Model Monte Carlo studies of neutron-rich nuclei in the 1s-0d-1p-0f shells

We demonstrate the feasibility of realistic Shell-Model Monte Carlo (SMMC) calculations spanning multiple major shells, using a realistic interaction whose bad saturation and shell properties have been corrected by a newly developed general prescription. Particular attention is paid to the approximate restoration of translational invariance. The model space consists of the full sd-pf shells. We include in the study some well-known T=0 nuclei and several unstable neutron-rich ones around N=20,28. The results indicate that SMMC can reproduce binding energies, B(E2) transitions, and other observables with an interaction that is practically parameter free. Some interesting insight is gained on the nature of deep correlations. The validity of previous studies is confirmed.Comment: 22 pages + 7 postscript figure

CentroidFold: a web server for RNA secondary structure prediction

The CentroidFold web server (http://www.ncrna.org/centroidfold/) is a web application for RNA secondary structure prediction powered by one of the most accurate prediction engine. The server accepts two kinds of sequence data: a single RNA sequence and a multiple alignment of RNA sequences. It responses with a prediction result shown as a popular base-pair notation and a graph representation. PDF version of the graph representation is also available. For a multiple alignment sequence, the server predicts a common secondary structure. Usage of the server is quite simple. You can paste a single RNA sequence (FASTA or plain sequence text) or a multiple alignment (CLUSTAL-W format) into the textarea then click on the ‘execute CentroidFold’ button. The server quickly responses with a prediction result. The major advantage of this server is that it employs our original CentroidFold software as its prediction engine which scores the best accuracy in our benchmark results. Our web server is freely available with no login requirement

Shell evolution and nuclear forces

We present a quantitative study of the role played by different components characterizing the nucleon-nucleon interaction in the evolution of the nuclear shell structure. It is based on the spin-tensor decomposition of an effective two-body shell-model interaction and the subsequent study of effective single-particle energy variations in a series of isotopes or isotones. The technique allows to separate unambiguously contributions of the central, vector and tensor components of the realistic effective interaction. We show that while the global variation of the single-particle energies is due to the central component of the effective interaction, the characteristic behavior of spin-orbit partners, noticed recently, is mainly due to its tensor part. Based on the analysis of a well-fitted realistic interaction in sdpf-shell model space, we analyze in detail the role played by the different terms in the formation and/or disappearance of N=16, N=20 and N=28 shell gaps in neutron-rich nuclei.Comment: 6 pages, 4 figure

Improving signal-to-noise resolution in single molecule experiments using molecular constructs with short handles

We investigate unfolding/folding force kinetics in DNA hairpins exhibiting two and three states with newly designed short dsDNA handles (29 bp) using optical tweezers. We show how the higher stiffness of the molecular setup moderately enhances the signal-to-noise ratio (SNR) in hopping experiments as compared to conventional long handles constructs (approximately 700 bp). The shorter construct results in a signal of higher SNR and slower folding/unfolding kinetics, thereby facilitating the detection of otherwise fast structural transitions. A novel analysis of the elastic properties of the molecular setup, based on high-bandwidth measurements of force fluctuations along the folded branch, reveals that the highest SNR that can be achieved with short handles is potentially limited by the marked reduction of the effective persistence length and stretch modulus of the short linker complex.Comment: Main paper: 20 pages and 6 figures. Supplementary Material: 25 page

Low-momentum interactions for nuclei

We show how the renormalization group is used to construct a low-momentum nucleon-nucleon interaction V_{low k}, which unifies all potential models used in nuclear structure calculations. V_{low k} can be directly applied to the nuclear shell model or to nucleonic matter without a G matrix resummation. It is argued that V_{low k} parameterizes a high-order chiral effective field theory two-nucleon force. We use cutoff dependence as a tool to assess the error in the truncation of nuclear forces to two-nucleon interactions and introduce a low-momentum three-nucleon force, which regulates A=3,4 binding energies. The adjusted three-nucleon interaction is perturbative for small cutoffs. In contrast to other precision interactions, the error due to missing many-body forces can be estimated, when V_{low k} and the corresponding three-nucleon force are used in nuclear structure calculations and the cutoff is varied.Comment: 10 pages, 5 figures, talk at INT workshop on Nuclear Forces and the Quantum Many-Body Problem, Seattle, October 200