Efficient compression of SARS-CoV-2 genome data using Nucleotide Archival Format
K Kryukov, L Jin, S Nakagawa - Patterns, 2022 - cell.com
Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) genome data are essential
for epidemiology, vaccine development, and tracking emerging variants. Millions of SARS …
for epidemiology, vaccine development, and tracking emerging variants. Millions of SARS …
Efficient DNA sequence compression with neural networks
Background The increasing production of genomic data has led to an intensified need for
models that can cope efficiently with the lossless compression of DNA sequences. Important …
models that can cope efficiently with the lossless compression of DNA sequences. Important …
Sequence Compression Benchmark (SCB) database—A comprehensive evaluation of reference-free compressors for FASTA-formatted sequences
K Kryukov, MT Ueda, S Nakagawa, T Imanishi - GigaScience, 2020 - academic.oup.com
Background Nearly all molecular sequence databases currently use gzip for data
compression. Ongoing rapid accumulation of stored data calls for a more efficient …
compression. Ongoing rapid accumulation of stored data calls for a more efficient …
[PDF][PDF] Sousa
RCM PEREIRA - PA Fatores de mortalidade de micro e pequenas, 2018 - researchgate.net
The increasing availability of expressive quantities of human viral sequenced samples,
namely from clinical and forensic contexts, has led to the emergence of many optimized …
namely from clinical and forensic contexts, has led to the emergence of many optimized …
The complexity landscape of viral genomes
Background Viruses are among the shortest yet highly abundant species that harbor
minimal instructions to infect cells, adapt, multiply, and exist. However, with the current …
minimal instructions to infect cells, adapt, multiply, and exist. However, with the current …
LEC-Codec: Learning-based genome data compression
In this paper, we propose a Learning-based gEnome Codec (LEC), which is designed for
high efficiency and enhanced flexibility. The LEC integrates several advanced technologies …
high efficiency and enhanced flexibility. The LEC integrates several advanced technologies …
[HTML][HTML] GTO: a toolkit to unify pipelines in genomic and proteomic research
Next-generation sequencing triggered the production of a massive volume of publicly
available data and the development of new specialised tools. These tools are dispersed …
available data and the development of new specialised tools. These tools are dispersed …
Comparative studies on the high-performance compression of SARS-CoV-2 genome collections
T Tang, J Li - Briefings in functional genomics, 2022 - academic.oup.com
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is fast mutating
worldwide. The mutated strains have been timely sequenced by worldwide labs …
worldwide. The mutated strains have been timely sequenced by worldwide labs …
JARVIS3: an efficient encoder for genomic data
Motivation Large-scale genomic projects grapple with the complex challenge of reducing
medium-and long-term storage space and its associated energy consumption, monetary …
medium-and long-term storage space and its associated energy consumption, monetary …