Related papers: DNA Circuits Based on Isothermal Constrained Loop …
State-of-the-art speaker recognition systems comprise an x-vector (or i-vector) speaker embedding front-end followed by a probabilistic linear discriminant analysis (PLDA) backend. The effectiveness of these components relies on the…
With recent advancements in next-generation data storage, especially in biological molecule-based storage, insertion, deletion, and substitution (IDS) error-correcting codes have garnered increased attention. However, a universal method for…
Machine learning models are prone to capturing the spurious correlations between non-causal attributes and classes, with counterfactual data augmentation being a promising direction for breaking these spurious associations. However,…
We experimentally demonstrate phase-insensitive linear optical amplification which preserves the idler at the output. Since our amplification operation is unitary up to small excess noise, it is reversible beyond the classical limit. The…
Labeling of DNA molecules is a fundamental technique for DNA visualization and analysis. This process was mathematically modeled in [1], where the received sequence indicates the positions of the used labels. In this work, we develop error…
Because of several technological limitations of traditional silicon based computing, for past few years a paradigm shift, from silicon to carbon, is occurring in computational world. DNA computing has been considered to be quite promising…
We establish a generic form of hardness amplification for the approximability of constant-depth Boolean circuits by polynomials. Specifically, we show that if a Boolean circuit cannot be pointwise approximated by low-degree polynomials to…
A complex digital circuit comprises of adder as a basic unit. The performance of the circuit depends on the design of this basic adder unit. The speed of operation of a circuit is one of the important performance criteria of many digital…
It is well known that during homology recognition and strand exchange the double stranded DNA (dsDNA) in DNA/RecA filaments is highly extended, but the functional role of the extension has been unclear. We present an analytical model that…
Collective coordinate and direct numerical integration methods are applied to the analysis of a one-dimensional DNA model. A modification of the coupling constant in an extended region is found to be less selective towards the breather it…
We describe extensions to the siesta density functional theory (dft) code [30], for the simulation of isolated molecules and their absorption spectra. The extensions allow for: - Use of a multi-grid solver for the Poisson equation on a…
The frozen QCD coupling is a parameter often used as an effective fixed coupling. It is supposed to mimic both the running coupling effects and the lack of knowledge of alpha_s in the infrared region. Usually the value of the frozen…
The emerging field of DNA storage employs strands of DNA bases (A/T/C/G) as a storage medium for digital information to enable massive density and durability. The DNA storage pipeline includes: (1) encoding the raw data into sequences of…
Domain classification is the task of mapping spoken language utterances to one of the natural language understanding domains in intelligent personal digital assistants (IPDAs). This is a major component in mainstream IPDAs in industry.…
We propose a novel theoretical biomolecular design to implement any Boolean circuit using the mechanism of DNA strand displacement. The design is scalable: all species of DNA strands can in principle be mixed and prepared in a single test…
We study DNA self-assembly and DNA computation using a coarse-grained DNA model within the directional dynamic bonding framework {[}C. Svaneborg, Comp. Phys. Comm. 183, 1793 (2012){]}. In our model, a single nucleotide or domain is…
Most bacteriophages are known to inject their double-stranded DNA into bacteria upon receptor binding in an essentially spontaneous way. This downhill thermodynamic process from the intact virion toward the empty viral capsid plus released…
We present a method for controlled connection of gold electrodes with dsDNA molecules (locally on a chip) by utilizing polymerase to elongate single-stranded DNA primers attached to the electrodes. Thiol-modified oligonucleotides are…
This paper introduces the use of cable dynamics models as a means to explore the mechanics of DNA on long-length scales. It is on these length scales that DNA forms twisted and curved three-dimensional shapes known as supercoils and loops.…
Sparse sensor networks in weather and ocean modeling observe only a small fraction of the system state, which destabilizes standard nudging-based data assimilation. We introduce Interpolated Discrepancy Data Assimilation (IDDA), which…