Related papers: Pseudoknot RNA Structures with Arc-Length $\ge 3$

DNA sequences are prone to creating secondary structures by folding back on themselves by non-specific hybridization among its nucleotides. The formation of secondary structures makes the sequences chemically inactive towards synthesis and…

We describe quantitatively a RNA molecule under the influence of an external force exerted at its two ends as in a typical single-molecule experiment. Our calculation incorporates the interactions between nucleotides by using the…

An $(n,k)$-perfect sequence covering array with multiplicity $\lambda$, denoted PSCA$(n,k,\lambda)$, is a multiset whose elements are permutations of the sequence $(1,2, \dots, n)$ and which collectively contain each ordered length $k$…

Bismuthate superconductor Ba(1-x)K(x)BiO3 (x=0.27-0.49, Tc=25-32K) grown by an electrolysis technique was studied by electron diffraction and high-resolution electron microscopy. The crystalline structure thereof has been found to be…

Computational prediction of RNA structures is an important problem in computational structural biology. Studies of RNA structure formation often assume that the process starts from a fully synthesized sequence. Experimental evidence,…

Kilonova spectra provide us with information of r-process nucleosynthesis in neutron star mergers. However, it is still challenging to identify individual elements in the spectra mainly due to lack of experimentally accurate atomic data for…

An amino acid sequence of a protein may be decomposed into consecutive overlapping strings of length K. How unique is the converse, i.e., reconstruction of amino acid sequences using the set of K-strings obtained in the decomposition? This…

It was recently demonstrated that the N=0,1,2,4 super-Schwarzian derivatives can be constructed by applying the method of nonlinear realizations to the finite-dimensional (super)conformal groups SL(2,R), OSp(1|2), SU(1,1|1), and SU(1,1|2),…

Recently, new Cr-based superconductors, A$_2$Cr$_3$As$_3$ (A = K, Rb, Cs), have gained a strong interest because of their one-dimensional crystal structures and electron correlations. Here we report the crystal structure and physical…

In this paper we study $\gamma$-structures filtered by topological genus. $\gamma$-structures are a class of RNA pseudoknot structures that plays a key role in the context of polynomial time folding of RNA pseudoknot structures. A…

Let $k\ge d\ge 3$ be fixed. Let $\mathcal{F}$ be a $k$-uniform family on $[n]$. Then $\mathcal{F}$ is $(d,s)$-conditionally intersecting if it does not contain $d$ sets with union of size at most $s$ and empty intersection. Answering a…

Let $G=C_n\oplus C_n$ and let $k\in [0,n-1]$. We study the structure of sequences of terms from $G$ with maximal length $|S|=2n-2+k$ that fail to contain a nontrivial zero-sum subsequence of length at most $2n-1-k$. For $k\leq 1$, this is…

It is known that graphs on n vertices with minimum degree at least 3 have spanning trees with at least n/4+2 leaves and that this can be improved to (n+4)/3 for cubic graphs without the diamond K_4-e as a subgraph. We generalize the second…

The local structural environment and the spatial distribution of iron and aluminum ions in sodosilicate glasses with composition NaFexAl1-xSi2O6 (x = 1, 0.8, 0.5 and 0) is studied by high-resolution neutron diffraction combined with…

RNA secondary structures of increasing complexity are probed combining single molecule stretching experiments and stochastic unfolding/refolding simulations. We find that force-induced unfolding pathways cannot usually be interpretated by…

Given a knot $K$ in a closed orientable manifold $M$ we define the growth rate of the tunnel number of $K$ to be $gr_t(K) = \limsup_{n \to \infty} \frac{t(nK) - n t(K)}{n-1}$. As our main result we prove that the Heegaard genus of $M$ is…

The tertiary structures of functional RNA molecules remain difficult to decipher. A new generation of automated RNA structure prediction methods may help address these challenges but have not yet been experimentally validated. Here we apply…

We review the properties of characters of the N=4 SCA in the context of a non-linear sigma model on $K3$, how they are used to span the orbits, and how the orbits produce topological invariants like the elliptic genus. We derive the same…

Accurate RNA structure modeling remains difficult because RNA backbones are highly flexible, non-canonical interactions are prevalent, and experimentally determined 3D structures are comparatively scarce. We introduce \emph{RiboSphere}, a…

RNA design shows growing applications in synthetic biology and therapeutics, driven by the crucial role of RNA in various biological processes. A fundamental challenge is to find functional RNA sequences that satisfy given structural…