Related papers: Validation of Golden Gate assemblies using highly …
DNA nanotechnology allows for the realization of complex nanoarchitectures in which the spatial arrangements of different constituents and most functions can be enabled by DNA. When optically active components are integrated in such…
Single-stranded libraries generated from ancient DNA extracts have specific sequencing requirements. The short library molecules typically associated with ancient DNA templates are expected to behave differently during the annealing to the…
We introduce a superconducting qubit architecture that combines high-coherence qubits and tunable qubit-qubit coupling. With the ability to set the coupling to zero, we demonstrate that this architecture is protected from the frequency…
Technologies for sequencing (reading) and synthesizing (writing) DNA have progressed on a Moore's law-like trajectory over the last three decades. This has motivated the idea of using DNA for data storage. Theoretically, DNA-based storage…
Genome assembly using high throughput data with short reads, arguably, remains an unresolvable task in repetitive genomes, since when the length of a repeat exceeds the read length, it becomes difficult to unambiguously connect the flanking…
High read depth can be used to assemble short sequence repeats. The existing genome assemblers fail in repetitive regions of longer than average read. I propose a new algorithm for a DNA assembly which uses the relative frequency of reads…
The native gate set is fundamental to the performance of quantum devices, as it governs the accuracy of basic quantum operations and dictates the complexity of implementing quantum algorithms. Traditional approaches to extending gate sets…
Nanopore sequencing is a widely-used high-throughput genome sequencing technology that can sequence long fragments of a genome into raw electrical signals at low cost. Nanopore sequencing requires two computationally-costly processing steps…
Geometric phases and holonomies (their non-commuting generalizations) are a promising resource for the realization of high-fidelity quantum operations in noisy devices, due to their intrinsic fault-tolerance against noise and experimental…
We present a tight-binding model study of a two-terminal graphene nanopore device for sequential determination of DNA bases. Using Green's function technique we investigate the changes in electronic transport properties of the device due to…
Several of the next generation sequencers are limited in their sample preparation process by the need to make an absolute measurement of the number of template molecules in the library to be sequenced. As currently practiced, the practical…
Quantum holonomic gates hold built-in resilience to local noises and provide a promising approach for implementing fault-tolerant quantum computation. We propose to realize high-fidelity holonomic $(N+1)$-qubit controlled gates using…
Genome sequencing is essential to decode genetic information, identify organisms, understand diseases and advance personalized medicine. A critical step in any genome sequencing technique is genome assembly. However, de novo genome…
Large-scale quantum computers are expected to benefit from modular architectures. Validating the capabilities of modular devices requires benchmarking strategies that assess performance within and between modules. In this work, we evaluate…
Geometric quantum computation relies on the geometric phase that arises in adiabatic cyclic evolutions of non-degenerate quantum systems, enabling the design of robust quantum gates. However, the adiabatic condition requires long evolution…
We present GoldbachGPU, an open-source framework for large-scale computational verification of Goldbach's conjecture using commodity GPU hardware. Prior GPU-based approaches reported a hard memory ceiling near 10^11 due to monolithic…
Advances in gene sequencing have enabled in silico analyses of microbial genomes and have led to the revision of concepts of microbial taxonomy and evolution. We explore deficiencies in existing multiple sequence global alignment algorithms…
In recent years, reversible logic has emerged as a promising computing paradigm having its applications in low power computing, quantum computing, nanotechnology, optical computing and DNA computing. The classical set of gates such as AND,…
The prevalent approach to executing quantum algorithms on quantum computers is to break-down the algorithms to a concatenation of universal gates, typically single and two-qubit gates. However such a decomposition results in long gate…
Nanopore sequencing, superior to other sequencing technologies for DNA storage in multiple aspects, has recently attracted considerable attention. Its high error rates, however, demand thorough research on practical and efficient coding…