Instruct: Identify the main and secondary category of Arxiv papers based on the titles and abstracts
Query: J-factors of short DNA molecules   The propensity of short DNA sequences to convert to the circular form is
studied by a mesoscopic Hamiltonian method which incorporates both the bending
of the molecule axis and the intrinsic twist of the DNA strands. The base pair
fluctuations with respect to the helix diameter are treated as path
trajectories in the imaginary time path integral formalism. The partition
function for the sub-ensemble of closed molecules is computed by imposing chain
ends boundary conditions both on the radial fluctuations and on the angular
degrees of freedom. The cyclization probability, the J-factor, proves to be
highly sensitive to the stacking potential, mostly to its nonlinear parameters.
We find that the J-factor generally decreases by reducing the sequence length (
N ) and, more significantly, below N = 100 base pairs. However, even for very
small molecules, the J-factors remain sizeable in line with recent experimental
indications. Large bending angles between adjacent base pairs and anharmonic
stacking appear as the causes of the helix flexibility at short length scales.

17
The categories of this paper are: q-fin
16
The categories of this paper are: stat
11
The categories of this paper are: hep-lat
14
The categories of this paper are: math-ph
15
The categories of this paper are: nucl-ex
1
The categories of this paper are: cs
18
The categories of this paper are: econ
13
The categories of this paper are: quant-ph
3
The categories of this paper are: physics
24
The categories of this paper are: dg-ga
31
The categories of this paper are: ao-sci
27
The categories of this paper are: comp-gas
7
The categories of this paper are: hep-th
35
The categories of this paper are: mtrl-th
20
The categories of this paper are: acc-phys
8
The categories of this paper are: hep-ex