16 papers · ranked by Valyu relevance
Luka Skoric, Dan E. Browne, Kenton M. Barnes, Neil I. Gillespie + 1 more
'Earl T. Campbell'] Large-scale quantum computers have the potential to hold computational capabilities beyond conventional computers. However, the physical qubits are prone to noise which must be corrected in order to perform fault-tolerant quantum computations. Quantum Error Correction (QEC) provides the path for…
Zihui Yan, Guanjin Qu, Xin Chen, Gang Zheng + 1 more
DNA-based data storage is a promising solution to the challenges of large-scale data storage. However, the low throughput of the mainstream inkjet-based DNA synthesis method has hindered its widespread adoption. In contrast, high-throughput electrochemical synthesis provides higher throughput but with more nucleotide…
Yingge Li, Haihua Hu, Jun Chen
As high-speed big-data communications impose new requirements on storage latency, low-density parity-check (LDPC) codes have become a widely used technology in flash-memory channels. However, the iterative LDPC decoding algorithm faces a high decoding latency problem due to its mechanism based on iterative message…
Alireza Tasdighi, Mansoor Yousefi, Jun Chen
Weighted belief propagation (WBP) for the decoding of linear block codes is considered. In WBP, the Tanner graph of the code is unrolled with respect to the iterations of the belief propagation decoder. Then, weights are assigned to the edges of the resulting recurrent network and optimized offline using a training…
Myeongjin Kang, Daejin Park, Youfan Hu
Embedded systems typically operate in harsh environments, such as where there is external shock, insufficient power, or an obsolete sensor after the replacement cycle. Despite these harsh environments, embedded systems require data integrity for accurate operation. Unintended data changes can cause a serious error in…
Timo Hillmann, Lucas Berent, Armanda O. Quintavalle, Jens Eisert + 2 more
'Robert Wille' 'Joschka Roffe'] Quantum low-density parity-check codes are a promising candidate for fault-tolerant quantum computing with considerably reduced overhead compared to the surface code. However, the lack of a practical decoding algorithm remains a barrier to their implementation. In this work, we introduce…
Kairui Tian, He Sun, Yukai Liu, Rongke Liu + 1 more
By exploiting the rich automorphisms of Reed-Muller (RM) codes, the recently developed automorphism ensemble (AE) successive cancellation (SC) decoder achieves a near-maximum-likelihood (ML) performance for short block lengths. However, the appealing performance of AE-SC decoding arises from the diversity gain that…
Kevin D. Volkel, Paul W. Hook, Albert Keung, Winston Timp + 1 more
As nanopore technology reaches ever higher throughput and accuracy, it becomes an increasingly viable candidate for reading out DNA data storage. Nanopore sequencing offers considerable flexibility by allowing long reads, real-time signal analysis, and the ability to read both DNA and RNA. We need flexible and…
Chinnaiyan Senthilpari, Rosalind Deena, Lee Lini
Background: Low-density parity-check (LDPC) codes are more error-resistant than other forward error-correcting codes. Existing circuits give high power dissipation, less speed, and more occupying area. This work aimed to propose a better design and performance circuit, even in the presence of noise in the channel.…
Ramy Khabbaz, Jérémy Mateos, Marc Antonini, Serge Kas Hanna
The biochemical processes underlying DNA data storage, including synthesis, amplification, and sequencing, are inherently noisy. Consequently, base-level insertion, deletion, and substitution (IDS) errors, as well as sequence-level dropouts, occur and pose major challenges for reliable data retrieval. Here we introduce…
Kang Li, Mikiko Kadohisa, Makoto Kusunoki, John Duncan + 2 more
Serial and parallel processing in visual search have been long debated in psychology but the processing mechanism remains an open issue. Serial processing allows only one object at a time to be processed, whereas parallel processing assumes that various objects are processed simultaneously. Here we present novel neural…
Rob Patro, Siddhant Bharti, Prajwal Singhania, Rakrish Dhakal + 2 more
The FASTQ file format is the lingua franca of primary data distribution and processing across most of bioinformatics. Over time, the compression, storage, transmission, and decompression of gzip compressed fastq.gz files has become a substantial scalability bottleneck in the modern world of fast and massively parallel…
Kecong Tang, Ahsan Sanaullah, Degui Zhi, Shaojie Zhang
Durbin’s positional Burrows-Wheeler transform (PBWT) enables algorithms with the optimal time complexity of O(MN) for reporting all vs all haplotype matches in a population panel with M haplotypes and N variant sites. However, even this efficiency may still be too slow when the number of haplotypes reaches millions. To…
Authors not listed
With the ever-increasing demand for atomistic structures representative of real-life systems as well as the ad-vent of exascale computers, it has now become necessary and possible to use advanced global optimization (GO) techniques to intelligently sample the potential energy surface (PES). Given the previous studies…
Authors not listed
Protein conformational landscapes contain the functionally relevant information useful for understanding biological processes. Mapping out conformational landscapes provides valuable insights into protein behaviors and biological phenomena, and has relevance to therapeutic design. While experimental structural biology…
Andrew Simmonett, Bernard Brooks, Thomas Darden
Evaluation of noncovalent electrostatic interactions is the dominant bottleneck in classical molecular dynamics simulations, and evaluation of Coulombic matrix elements similarly limits quantum mechanical self consistent field calculations. These difficulties are a result of the Coulomb operator’s slow decay, which…