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| 1. |  | ALMEIDA, A. L.; SCHETTINO, V. J.; BARBOSA, T. J. R.; FREITAS, P. F.; GUIMARÃES, P. G. S.; ARBEX, W. A. Relative scalability of NoSQL databases for genotype data manipulation. Revista de Informática Teórica e Aplicada, v. 25, n. 2, p. 93-100, 2018.| Biblioteca(s): Embrapa Gado de Leite. |
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Registro Completo
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Biblioteca(s): |
Embrapa Gado de Leite. |
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Data corrente: |
26/12/2018 |
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Data da última atualização: |
24/01/2023 |
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Tipo da produção científica: |
Artigo em Periódico Indexado |
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Circulação/Nível: |
B - 3 |
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Autoria: |
ALMEIDA, A. L.; SCHETTINO, V. J.; BARBOSA, T. J. R.; FREITAS, P. F.; GUIMARÃES, P. G. S.; ARBEX, W. A. |
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Afiliação: |
WAGNER ANTONIO ARBEX, CNPGL. |
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Título: |
Relative scalability of NoSQL databases for genotype data manipulation. |
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Ano de publicação: |
2018 |
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Fonte/Imprenta: |
Revista de Informática Teórica e Aplicada, v. 25, n. 2, p. 93-100, 2018. |
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DOI: |
10.22456/2175-2745.79334 |
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Idioma: |
Inglês |
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Conteúdo: |
Abstract Genotype data manipulation is one of the greatest challenges in bioinformatics and genomics mainly because of high dimensionality and unbalancing characteristics. These peculiarities explains why Relational Database Management Systems (RDBMSs), the "de facto" standard storage solution, have not been presented as the best tools for this kind of data. However, Big Data has been pushing the development of modern database systems that might be able to overcome RDBMSs deficiencies. In this context, we extended our previous works on the evaluation of relative performance among NoSQLs engines from different families, adapting the schema design in order to achieve better performance based on its conclusions, thus being able to store more SNP markers for each individual. Using Yahoo! Cloud Serving Benchmark (YCSB) benchmark framework, we assessed each database system over hypothetical SNP sequences. Results indicate that although Tarantool has the best overall throughput, MongoDB is less impacted by the increase of SNP markers per individual. |
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Palavras-Chave: |
Data Science; Database; NoSQL; SNP. |
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Thesaurus NAL: |
Bioinformatics; Genotype. |
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Categoria do assunto: |
X Pesquisa, Tecnologia e Engenharia |
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URL: |
https://ainfo.cnptia.embrapa.br/digital/bitstream/item/189325/1/Artigo-RevInfTeorApl-Arbex-Relative.pdf
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Marc: |
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001 2102528
005 2023-01-24
008 2018 bl uuuu u00u1 u #d
024 7 $a10.22456/2175-2745.79334$2DOI
100 1 $aALMEIDA, A. L.
245 $aRelative scalability of NoSQL databases for genotype data manipulation.$h[electronic resource]
260 $c2018
520 $aAbstract Genotype data manipulation is one of the greatest challenges in bioinformatics and genomics mainly because of high dimensionality and unbalancing characteristics. These peculiarities explains why Relational Database Management Systems (RDBMSs), the "de facto" standard storage solution, have not been presented as the best tools for this kind of data. However, Big Data has been pushing the development of modern database systems that might be able to overcome RDBMSs deficiencies. In this context, we extended our previous works on the evaluation of relative performance among NoSQLs engines from different families, adapting the schema design in order to achieve better performance based on its conclusions, thus being able to store more SNP markers for each individual. Using Yahoo! Cloud Serving Benchmark (YCSB) benchmark framework, we assessed each database system over hypothetical SNP sequences. Results indicate that although Tarantool has the best overall throughput, MongoDB is less impacted by the increase of SNP markers per individual.
650 $aBioinformatics
650 $aGenotype
653 $aData Science
653 $aDatabase
653 $aNoSQL
653 $aSNP
700 1 $aSCHETTINO, V. J.
700 1 $aBARBOSA, T. J. R.
700 1 $aFREITAS, P. F.
700 1 $aGUIMARÃES, P. G. S.
700 1 $aARBEX, W. A.
773 $tRevista de Informática Teórica e Aplicada$gv. 25, n. 2, p. 93-100, 2018.
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Registro original: |
Embrapa Gado de Leite (CNPGL) |
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